sbuild (Debian sbuild) 0.91.10 (27 June 2026) on carme.larted.org.uk +==============================================================================+ | hhsuite 3.3.0+ds-10 (amd64) Sat, 19 Sep 2026 23:30:31 +0000 | +==============================================================================+ Package: hhsuite Version: 3.3.0+ds-10 Source Version: 3.3.0+ds-10 Distribution: perl-5.44-throwaway Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: full I: Setting up the chroot... I: Creating chroot session... I: Setting up log color... +------------------------------------------------------------------------------+ | Chroot Setup Commands Sat, 19 Sep 2026 23:30:32 +0000 | +------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup hhsuite_3.3.0+ds-10 perl-5.44-throwaway amd64 -------------------------------------------------------------------------------------------------------------------- I: Finished running '/usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup hhsuite_3.3.0+ds-10 perl-5.44-throwaway amd64'. Finished processing commands. -------------------------------------------------------------------------------- I: Setting up apt archive... +------------------------------------------------------------------------------+ | Update chroot Sat, 19 Sep 2026 23:30:32 +0000 | +------------------------------------------------------------------------------+ Get:1 file:/srv/reprepro perl-5.44 InRelease [3042 B] Get:1 file:/srv/reprepro perl-5.44 InRelease [3042 B] Get:2 http://deb.debian.org/debian unstable InRelease [193 kB] Get:3 http://deb.debian.org/debian sid InRelease [193 kB] Get:4 http://deb.debian.org/debian unstable/main amd64 Packages.diff/Index [63.6 kB] Get:5 http://deb.debian.org/debian sid/main Sources.diff/Index [63.6 kB] Get:6 http://deb.debian.org/debian unstable/main amd64 Packages T-2026-09-19-2006.35-F-2026-09-19-2006.35.pdiff [10.2 kB] Get:6 http://deb.debian.org/debian unstable/main amd64 Packages T-2026-09-19-2006.35-F-2026-09-19-2006.35.pdiff [10.2 kB] Get:7 http://deb.debian.org/debian sid/main Sources T-2026-09-19-2006.35-F-2026-09-19-2006.35.pdiff [37.6 kB] Get:7 http://deb.debian.org/debian sid/main Sources T-2026-09-19-2006.35-F-2026-09-19-2006.35.pdiff [37.6 kB] Fetched 561 kB in 7s (81.7 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. +------------------------------------------------------------------------------+ | Fetch source files Sat, 19 Sep 2026 23:30:41 +0000 | +------------------------------------------------------------------------------+ Local sources ------------- /srv/debomatic/incoming/hhsuite_3.3.0+ds-10.dsc exists in /srv/debomatic/incoming; copying to chroot +------------------------------------------------------------------------------+ | Install package build dependencies Sat, 19 Sep 2026 23:30:41 +0000 | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), libsimde-dev, cmake, imagemagick, help2man, build-essential Filtered Build-Depends: debhelper-compat (= 13), libsimde-dev, cmake, imagemagick, help2man, build-essential dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/build/hhsuite-VUQq7h/resolver-jB8aqQ/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/build/hhsuite-VUQq7h/resolver-jB8aqQ/apt_archive ./ InRelease Get:2 copy:/build/hhsuite-VUQq7h/resolver-jB8aqQ/apt_archive ./ Release [609 B] Ign:3 copy:/build/hhsuite-VUQq7h/resolver-jB8aqQ/apt_archive ./ Release.gpg Get:4 copy:/build/hhsuite-VUQq7h/resolver-jB8aqQ/apt_archive ./ Sources [644 B] Get:5 copy:/build/hhsuite-VUQq7h/resolver-jB8aqQ/apt_archive ./ Packages [683 B] Fetched 1936 B in 0s (0 B/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... Solving dependencies... The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils cmake debhelper dh-autoreconf dh-strip-nondeterminism dwz file fontconfig-config fonts-dejavu-core fonts-dejavu-mono gettext gettext-base groff-base help2man hicolor-icon-theme imagemagick imagemagick-7-common imagemagick-7.q16 intltool-debian libarchive-zip-perl libarchive13t64 libbrotli1 libcom-err2 libcurl4t64 libdav1d7 libde265-0 libdebhelper-perl libdeflate0 libelf1t64 libexpat1 libfftw3-double3 libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libglib2.0-0t64 libgssapi-krb5-2 libheif-plugin-dav1d libheif-plugin-libde265 libheif1 libjbig0 libjpeg62-turbo libjsoncpp26 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblcms2-2 liblerc4 liblocale-gettext-perl liblqr-1-0 libltdl7 libmagic-mgc libmagic1t64 libmagickcore-7.q16-10 libmagickwand-7.q16-10 libnghttp2-14 libnghttp3-9 libngtcp2-16 libngtcp2-crypto-ossl0 libopenjp2-7 libpipeline1 libpng16-16t64 libproc2-1 libpsl5t64 libraw25 librhash1 libsharpyuv0 libsimde-dev libssh2-1t64 libtiff6 libtool libuchardet0 libuv1t64 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxext6 libxml2-16 m4 man-db po-debconf procps sensible-utils Suggested packages: autoconf-archive gnu-standards autoconf-doc cmake-doc cmake-format elpa-cmake-mode ninja-build dh-make gettext-doc libasprintf-dev libgettextpo-dev gnulib-l10n groff imagemagick-7-doc autotrace cups-bsd | lpr | lprng curl enscript ffmpeg gimp gnuplot grads graphviz hp2xx html2ps libwmf-bin mplayer povray radiance sane-utils texlive-base-bin transfig libraw-bin xdg-utils lrzip libfftw3-bin libfftw3-dev low-memory-monitor krb5-doc krb5-user libheif-plugin-ffmpegdec libheif-plugin-jpegdec libheif-plugin-jpegenc libheif-plugin-j2kdec libheif-plugin-j2kenc libheif-plugin-kvazaar libheif-plugin-rav1e libheif-plugin-svtenc liblcms2-utils libmagickcore-7.q16-10-extra libtool-doc gfortran | fortran95-compiler m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx python3:any python3-requests libmagickcore-7.q16-10-extra ghostscript netpbm ca-certificates libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs libheif-plugin-x265 libheif-plugin-aomenc krb5-locales fonts-urw-base35 publicsuffix libltdl-dev libmail-sendmail-perl psmisc linux-sysctl-defaults The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils cmake debhelper dh-autoreconf dh-strip-nondeterminism dwz file fontconfig-config fonts-dejavu-core fonts-dejavu-mono gettext gettext-base groff-base help2man hicolor-icon-theme imagemagick imagemagick-7-common imagemagick-7.q16 intltool-debian libarchive-zip-perl libarchive13t64 libbrotli1 libcom-err2 libcurl4t64 libdav1d7 libde265-0 libdebhelper-perl libdeflate0 libelf1t64 libexpat1 libfftw3-double3 libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libglib2.0-0t64 libgssapi-krb5-2 libheif-plugin-dav1d libheif-plugin-libde265 libheif1 libjbig0 libjpeg62-turbo libjsoncpp26 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblcms2-2 liblerc4 liblocale-gettext-perl liblqr-1-0 libltdl7 libmagic-mgc libmagic1t64 libmagickcore-7.q16-10 libmagickwand-7.q16-10 libnghttp2-14 libnghttp3-9 libngtcp2-16 libngtcp2-crypto-ossl0 libopenjp2-7 libpipeline1 libpng16-16t64 libproc2-1 libpsl5t64 libraw25 librhash1 libsharpyuv0 libsimde-dev libssh2-1t64 libtiff6 libtool libuchardet0 libuv1t64 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxext6 libxml2-16 m4 man-db po-debconf procps sbuild-build-depends-main-dummy sensible-utils 0 upgraded, 93 newly installed, 0 to remove and 0 not upgraded. Need to get 43.5 MB/46.6 MB of archives. After this operation, 178 MB of additional disk space will be used. Get:1 file:/srv/reprepro perl-5.44/main amd64 liblocale-gettext-perl amd64 1.07-10+b2 [14.9 kB] Get:2 file:/srv/reprepro perl-5.44/main amd64 libmagickcore-7.q16-10 amd64 8:7.1.2.31+dfsg1-1+b2 [1960 kB] Get:3 copy:/build/hhsuite-VUQq7h/resolver-jB8aqQ/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [884 B] Get:4 http://deb.debian.org/debian unstable/main amd64 libexpat1 amd64 2.8.4-1 [130 kB] Get:5 http://deb.debian.org/debian unstable/main amd64 libfftw3-double3 amd64 3.3.11-1 [713 kB] Get:6 file:/srv/reprepro perl-5.44/main amd64 libmagickwand-7.q16-10 amd64 8:7.1.2.31+dfsg1-1+b2 [366 kB] Get:7 http://deb.debian.org/debian unstable/main amd64 libbrotli1 amd64 1.2.0-4+b1 [312 kB] Get:8 file:/srv/reprepro perl-5.44/main amd64 imagemagick-7.q16 amd64 8:7.1.2.31+dfsg1-1+b2 [732 kB] Get:9 http://deb.debian.org/debian unstable/main amd64 libpng16-16t64 amd64 1.6.58-1 [289 kB] Get:10 http://deb.debian.org/debian unstable/main amd64 libfreetype6 amd64 2.14.3+dfsg-2 [492 kB] Get:11 http://deb.debian.org/debian unstable/main amd64 fonts-dejavu-mono all 2.37-9 [488 kB] Get:12 http://deb.debian.org/debian unstable/main amd64 fonts-dejavu-core all 2.37-9 [840 kB] Get:13 file:/srv/reprepro perl-5.44/main amd64 imagemagick amd64 8:7.1.2.31+dfsg1-1+b2 [26.1 kB] Get:14 http://deb.debian.org/debian unstable/main amd64 fontconfig-config amd64 2.17.1-5 [56.1 kB] Get:15 http://deb.debian.org/debian unstable/main amd64 libfontconfig1 amd64 2.17.1-5 [132 kB] Get:16 http://deb.debian.org/debian unstable/main amd64 libsharpyuv0 amd64 1.6.0-0.1 [116 kB] Get:17 http://deb.debian.org/debian unstable/main amd64 libde265-0 amd64 1.1.3-1 [219 kB] Get:18 http://deb.debian.org/debian unstable/main amd64 libheif-plugin-libde265 amd64 1.23.4-1 [18.7 kB] Get:19 http://deb.debian.org/debian unstable/main amd64 libdav1d7 amd64 1.5.4-1 [583 kB] Get:20 http://deb.debian.org/debian unstable/main amd64 libheif-plugin-dav1d amd64 1.23.4-1 [21.1 kB] Get:21 http://deb.debian.org/debian unstable/main amd64 libheif1 amd64 1.23.4-1 [867 kB] Get:22 http://deb.debian.org/debian unstable/main amd64 libjbig0 amd64 2.1-6.1+b3 [32.2 kB] Get:23 http://deb.debian.org/debian unstable/main amd64 libjpeg62-turbo amd64 1:3.1.3-4 [213 kB] Get:24 http://deb.debian.org/debian unstable/main amd64 liblcms2-2 amd64 2.19.1-1 [164 kB] Get:25 http://deb.debian.org/debian unstable/main amd64 libglib2.0-0t64 amd64 2.90.0-1 [1618 kB] Get:26 http://deb.debian.org/debian unstable/main amd64 liblqr-1-0 amd64 0.4.2-2.2+b1 [30.0 kB] Get:27 http://deb.debian.org/debian unstable/main amd64 libltdl7 amd64 2.6.2-3 [427 kB] Get:28 http://deb.debian.org/debian unstable/main amd64 libopenjp2-7 amd64 2.5.4-1.1 [205 kB] Get:29 http://deb.debian.org/debian unstable/main amd64 libraw25 amd64 0.22.1-1 [424 kB] Get:30 http://deb.debian.org/debian unstable/main amd64 libdeflate0 amd64 1.25-1 [48.0 kB] Get:31 http://deb.debian.org/debian unstable/main amd64 liblerc4 amd64 4.2.0+ds-1 [203 kB] Get:32 http://deb.debian.org/debian unstable/main amd64 libwebp7 amd64 1.6.0-0.1 [349 kB] Get:33 http://deb.debian.org/debian unstable/main amd64 libtiff6 amd64 4.7.2-1 [383 kB] Get:34 http://deb.debian.org/debian unstable/main amd64 libwebpdemux2 amd64 1.6.0-0.1 [114 kB] Get:35 http://deb.debian.org/debian unstable/main amd64 libwebpmux3 amd64 1.6.0-0.1 [127 kB] Get:36 http://deb.debian.org/debian unstable/main amd64 libxau6 amd64 1:1.0.11-1+b2 [20.7 kB] Get:37 http://deb.debian.org/debian unstable/main amd64 libxdmcp6 amd64 1:1.1.5-2+b1 [28.2 kB] Get:38 http://deb.debian.org/debian unstable/main amd64 libxcb1 amd64 1.17.0-2+b2 [144 kB] Get:39 http://deb.debian.org/debian unstable/main amd64 libx11-data all 2:1.8.13-1 [346 kB] Get:40 http://deb.debian.org/debian unstable/main amd64 libx11-6 amd64 2:1.8.13-1 [829 kB] Get:41 http://deb.debian.org/debian unstable/main amd64 libxext6 amd64 2:1.3.4-1+b4 [50.7 kB] Get:42 http://deb.debian.org/debian unstable/main amd64 libxml2-16 amd64 2.15.4+dfsg-1 [683 kB] Get:43 http://deb.debian.org/debian unstable/main amd64 imagemagick-7-common all 8:7.1.2.31+dfsg1-1 [73.6 kB] Get:44 http://deb.debian.org/debian unstable/main amd64 libproc2-1 amd64 2:4.0.7-1 [73.0 kB] Get:45 http://deb.debian.org/debian unstable/main amd64 procps amd64 2:4.0.7-1 [989 kB] Get:46 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.26 [27.0 kB] Get:47 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.47-4 [345 kB] Get:48 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.47-4 [111 kB] Get:49 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.47-4 [43.0 kB] Get:50 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 1.0-5 [334 kB] Get:51 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-2+b2 [69.0 kB] Get:52 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.24.1-1 [1336 kB] Get:53 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.42.3-1 [102 kB] Get:54 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-3 [49.2 kB] Get:55 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.1-1 [1469 kB] Get:56 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.21-1 [332 kB] Get:57 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.73-2 [516 kB] Get:58 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20240727.1+nmu1 [60.0 kB] Get:59 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.19-2 [891 kB] Get:60 http://deb.debian.org/debian unstable/main amd64 autopoint all 1.0-5 [820 kB] Get:61 http://deb.debian.org/debian unstable/main amd64 libarchive13t64 amd64 3.8.9-1 [364 kB] Get:62 http://deb.debian.org/debian unstable/main amd64 libnghttp3-9 amd64 1.17.0-1 [68.1 kB] Get:63 http://deb.debian.org/debian unstable/main amd64 libngtcp2-16 amd64 1.24.0-1 [145 kB] Get:64 http://deb.debian.org/debian unstable/main amd64 libkrb5support0 amd64 1.22.1-3 [31.1 kB] Get:65 http://deb.debian.org/debian unstable/main amd64 libcom-err2 amd64 1.47.4-1+b1 [19.5 kB] Get:66 http://deb.debian.org/debian unstable/main amd64 libk5crypto3 amd64 1.22.1-3 [79.0 kB] Get:67 http://deb.debian.org/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-6+b2 [9348 B] Get:68 http://deb.debian.org/debian unstable/main amd64 libkrb5-3 amd64 1.22.1-3 [335 kB] Get:69 http://deb.debian.org/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.22.1-3 [137 kB] Get:70 http://deb.debian.org/debian unstable/main amd64 libnghttp2-14 amd64 1.70.0-1 [92.7 kB] Get:71 http://deb.debian.org/debian unstable/main amd64 libngtcp2-crypto-ossl0 amd64 1.24.0-1 [26.5 kB] Get:72 http://deb.debian.org/debian unstable/main amd64 libpsl5t64 amd64 0.23.3-1 [61.7 kB] Get:73 http://deb.debian.org/debian unstable/main amd64 libssh2-1t64 amd64 1.11.1-6 [253 kB] Get:74 http://deb.debian.org/debian unstable/main amd64 libcurl4t64 amd64 8.22.0-1 [462 kB] Get:75 http://deb.debian.org/debian unstable/main amd64 libjsoncpp26 amd64 1.9.8-2 [87.5 kB] Get:76 http://deb.debian.org/debian unstable/main amd64 librhash1 amd64 1.4.6-1.1+b1 [135 kB] Get:77 http://deb.debian.org/debian unstable/main amd64 libuv1t64 amd64 1.52.1-4 [158 kB] Get:78 http://deb.debian.org/debian unstable/main amd64 cmake amd64 4.3.4-1 [16.2 MB] Get:79 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 14.5 [77.7 kB] Get:80 http://deb.debian.org/debian unstable/main amd64 libtool all 2.6.2-3 [552 kB] Get:81 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 23 [12.7 kB] Get:82 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get:83 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.15.1-1 [17.1 kB] Get:84 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.15.1-1 [6020 B] Get:85 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.196-1 [61.2 kB] Get:86 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.17-1 [109 kB] Get:87 http://deb.debian.org/debian unstable/main amd64 gettext amd64 1.0-5 [2704 kB] Get:88 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get:89 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.22 [216 kB] Get:90 http://deb.debian.org/debian unstable/main amd64 debhelper all 14.5 [944 kB] Get:91 http://deb.debian.org/debian unstable/main amd64 help2man amd64 1.49.3 [198 kB] Get:92 http://deb.debian.org/debian unstable/main amd64 hicolor-icon-theme all 0.18-2 [11.8 kB] Get:93 http://deb.debian.org/debian unstable/main amd64 libsimde-dev all 0.8.4~rc3-5 [500 kB] Preconfiguring packages ... Fetched 43.5 MB in 0s (138 MB/s) Selecting previously unselected package libexpat1:amd64. (Reading database ... 15722 files and directories currently installed.) Preparing to unpack .../00-libexpat1_2.8.4-1_amd64.deb ... Unpacking libexpat1:amd64 (2.8.4-1) ... Selecting previously unselected package liblocale-gettext-perl. Preparing to unpack .../01-liblocale-gettext-perl_1.07-10+b2_amd64.deb ... Unpacking liblocale-gettext-perl (1.07-10+b2) ... Selecting previously unselected package libfftw3-double3:amd64. Preparing to unpack .../02-libfftw3-double3_3.3.11-1_amd64.deb ... Unpacking libfftw3-double3:amd64 (3.3.11-1) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../03-libbrotli1_1.2.0-4+b1_amd64.deb ... Unpacking libbrotli1:amd64 (1.2.0-4+b1) ... Selecting previously unselected package libpng16-16t64:amd64. Preparing to unpack .../04-libpng16-16t64_1.6.58-1_amd64.deb ... Unpacking libpng16-16t64:amd64 (1.6.58-1) ... Selecting previously unselected package libfreetype6:amd64. Preparing to unpack .../05-libfreetype6_2.14.3+dfsg-2_amd64.deb ... Unpacking libfreetype6:amd64 (2.14.3+dfsg-2) ... Selecting previously unselected package fonts-dejavu-mono. Preparing to unpack .../06-fonts-dejavu-mono_2.37-9_all.deb ... Unpacking fonts-dejavu-mono (2.37-9) ... Selecting previously unselected package fonts-dejavu-core. Preparing to unpack .../07-fonts-dejavu-core_2.37-9_all.deb ... Unpacking fonts-dejavu-core (2.37-9) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../08-fontconfig-config_2.17.1-5_amd64.deb ... Unpacking fontconfig-config (2.17.1-5) ... Selecting previously unselected package libfontconfig1:amd64. Preparing to unpack .../09-libfontconfig1_2.17.1-5_amd64.deb ... Unpacking libfontconfig1:amd64 (2.17.1-5) ... Selecting previously unselected package libsharpyuv0:amd64. Preparing to unpack .../10-libsharpyuv0_1.6.0-0.1_amd64.deb ... 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Setting up liblqr-1-0:amd64 (0.4.2-2.2+b1) ... Setting up sensible-utils (0.0.26) ... Setting up libtiff6:amd64 (4.7.2-1) ... Setting up libuchardet0:amd64 (0.0.8-2+b2) ... Setting up procps (2:4.0.7-1) ... Setting up libopenjp2-7:amd64 (2.5.4-1.1) ... Setting up libx11-6:amd64 (2:1.8.13-1) ... Setting up libngtcp2-16:amd64 (1.24.0-1) ... Setting up librhash1:amd64 (1.4.6-1.1+b1) ... Setting up libkrb5-3:amd64 (1.22.1-3) ... Setting up libssh2-1t64:amd64 (1.11.1-6) ... Setting up libde265-0:amd64 (1.1.3-1) ... Setting up libwebpmux3:amd64 (1.6.0-0.1) ... Setting up libarchive13t64:amd64 (3.8.9-1) ... Setting up liblocale-gettext-perl (1.07-10+b2) ... Setting up automake (1:1.19-2) ... update-alternatives: using /usr/bin/automake-1.19 to provide /usr/bin/automake (automake) in auto mode Setting up libraw25:amd64 (0.22.1-1) ... Setting up libfile-stripnondeterminism-perl (1.15.1-1) ... Setting up gettext (1.0-5) ... Setting up libtool (2.6.2-3) ... Setting up fontconfig-config (2.17.1-5) ... Setting up libwebpdemux2:amd64 (1.6.0-0.1) ... Setting up libxext6:amd64 (2:1.3.4-1+b4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up help2man (1.49.3) ... Setting up dh-autoreconf (23) ... Setting up libfreetype6:amd64 (2.14.3+dfsg-2) ... Setting up libgssapi-krb5-2:amd64 (1.22.1-3) ... Setting up libngtcp2-crypto-ossl0:amd64 (1.24.0-1) ... Setting up dh-strip-nondeterminism (1.15.1-1) ... Setting up groff-base (1.24.1-1) ... Setting up libfontconfig1:amd64 (2.17.1-5) ... Setting up libcurl4t64:amd64 (8.22.0-1) ... Setting up po-debconf (1.0.22) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up cmake (4.3.4-1) ... Setting up debhelper (14.5) ... Setting up libheif-plugin-libde265:amd64 (1.23.4-1) ... Setting up libheif1:amd64 (1.23.4-1) ... Setting up libmagickcore-7.q16-10:amd64 (8:7.1.2.31+dfsg1-1+b2) ... Setting up libheif-plugin-dav1d:amd64 (1.23.4-1) ... Setting up libmagickwand-7.q16-10:amd64 (8:7.1.2.31+dfsg1-1+b2) ... Setting up imagemagick-7.q16 (8:7.1.2.31+dfsg1-1+b2) ... update-alternatives: using /usr/bin/compare-im7.q16 to provide /usr/bin/compare (compare) in auto mode update-alternatives: using /usr/bin/compare-im7.q16 to provide /usr/bin/compare-im7 (compare-im7) in auto mode update-alternatives: using /usr/bin/animate-im7.q16 to provide /usr/bin/animate (animate) in auto mode update-alternatives: using /usr/bin/animate-im7.q16 to provide /usr/bin/animate-im7 (animate-im7) in auto mode update-alternatives: using /usr/bin/convert-im7.q16 to provide /usr/bin/convert (convert) in auto mode update-alternatives: using /usr/bin/convert-im7.q16 to provide /usr/bin/convert-im7 (convert-im7) in auto mode update-alternatives: using /usr/bin/composite-im7.q16 to provide /usr/bin/composite (composite) in auto mode update-alternatives: using /usr/bin/composite-im7.q16 to provide /usr/bin/composite-im7 (composite-im7) in auto mode update-alternatives: using /usr/bin/conjure-im7.q16 to provide /usr/bin/conjure (conjure) in auto mode update-alternatives: using /usr/bin/conjure-im7.q16 to provide /usr/bin/conjure-im7 (conjure-im7) in auto mode update-alternatives: using /usr/bin/import-im7.q16 to provide /usr/bin/import (import) in auto mode update-alternatives: using /usr/bin/import-im7.q16 to provide /usr/bin/import-im7 (import-im7) in auto mode update-alternatives: using /usr/bin/identify-im7.q16 to provide /usr/bin/identify (identify) in auto mode update-alternatives: using /usr/bin/identify-im7.q16 to provide /usr/bin/identify-im7 (identify-im7) in auto mode update-alternatives: using /usr/bin/stream-im7.q16 to provide /usr/bin/stream (stream) in auto mode update-alternatives: using /usr/bin/stream-im7.q16 to provide /usr/bin/stream-im7 (stream-im7) in auto mode update-alternatives: using /usr/bin/display-im7.q16 to provide /usr/bin/display (display) in auto mode update-alternatives: using /usr/bin/display-im7.q16 to provide /usr/bin/display-im7 (display-im7) in auto mode update-alternatives: using /usr/bin/montage-im7.q16 to provide /usr/bin/montage (montage) in auto mode update-alternatives: using /usr/bin/montage-im7.q16 to provide /usr/bin/montage-im7 (montage-im7) in auto mode update-alternatives: using /usr/bin/mogrify-im7.q16 to provide /usr/bin/mogrify (mogrify) in auto mode update-alternatives: using /usr/bin/mogrify-im7.q16 to provide /usr/bin/mogrify-im7 (mogrify-im7) in auto mode update-alternatives: using /usr/bin/magick-im7.q16 to provide /usr/bin/magick (magick) in auto mode update-alternatives: warning: skip creation of /usr/share/man/man1/magick.1.gz because associated file /usr/share/man/man1/magick-im7.q16.1.gz (of link group magick) does not exist update-alternatives: using /usr/bin/magick-im7.q16 to provide /usr/bin/magick-im7 (magick-im7) in auto mode update-alternatives: warning: skip creation of /usr/share/man/man1/magick-im7.1.gz because associated file /usr/share/man/man1/magick-im7.q16.1.gz (of link group magick-im7) does not exist update-alternatives: using /usr/bin/magick-script-im7.q16 to provide /usr/bin/magick-script (magick-script) in auto mode update-alternatives: warning: skip creation of /usr/share/man/man1/magick-script.1.gz because associated file /usr/share/man/man1/magick-script-im7.q16.1.gz (of link group magick-script) does not exist update-alternatives: using /usr/bin/magick-script-im7.q16 to provide /usr/bin/magick-script-im7 (magick-script-im7) in auto mode update-alternatives: warning: skip creation of /usr/share/man/man1/magick-script-im7.1.gz because associated file /usr/share/man/man1/magick-script-im7.q16.1.gz (of link group magick-script-im7) does not exist Setting up imagemagick (8:7.1.2.31+dfsg1-1+b2) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.43-5) ... +------------------------------------------------------------------------------+ | Check architectures Sat, 19 Sep 2026 23:30:50 +0000 | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any all) +------------------------------------------------------------------------------+ | Build environment Sat, 19 Sep 2026 23:30:50 +0000 | +------------------------------------------------------------------------------+ Kernel: Linux 7.0.10+deb14-amd64 #1 SMP PREEMPT_DYNAMIC Debian 7.0.10-1 (2026-05-27) amd64 (x86_64) Toolchain package versions: binutils_2.47-6 dpkg-dev_1.23.11 g++-15_15.3.0-4 g++-16_16.2.0-3 gcc-15_15.3.0-4 gcc-16_16.2.0-3 libc6-dev_2.43-5 libstdc++-15-dev_15.3.0-4 libstdc++-16-dev_16.2.0-3 libstdc++6_16.2.0-3 linux-libc-dev_7.2.6-1 Package versions: apt_3.3.3 autoconf_2.73-2 automake_1:1.19-2 autopoint_1.0-5 autotools-dev_20240727.1+nmu1 base-files_14.2 base-passwd_3.6.8 bash_5.3-4 binutils_2.47-6 binutils-common_2.47-6 binutils-x86-64-linux-gnu_2.47-6 bsdextrautils_2.42.3-1 build-essential_12.12 bzip2_1.0.8-6+b2 cmake_4.3.4-1 coreutils_9.10-1 cpp_4:16.1.0-3 cpp-15_15.3.0-4 cpp-15-x86-64-linux-gnu_15.3.0-4 cpp-16_16.2.0-3 cpp-16-x86-64-linux-gnu_16.2.0-3 cpp-x86-64-linux-gnu_4:16.1.0-3 dash_0.5.12-12 debconf_1.5.92 debhelper_14.5 debian-archive-keyring_2025.1 debianutils_5.24 dh-autoreconf_23 dh-strip-nondeterminism_1.15.1-1 diffutils_1:3.12-1 dirmngr_2.4.9-7+b1 dpkg_1.23.11 dpkg-dev_1.23.11 dwz_0.17-1 eatmydata_131-2 file_1:5.47-4 findutils_4.11.0-2 fontconfig-config_2.17.1-5 fonts-dejavu-core_2.37-9 fonts-dejavu-mono_2.37-9 g++_4:16.1.0-3 g++-15_15.3.0-4 g++-15-x86-64-linux-gnu_15.3.0-4 g++-16_16.2.0-3 g++-16-x86-64-linux-gnu_16.2.0-3 g++-x86-64-linux-gnu_4:16.1.0-3 gcc_4:16.1.0-3 gcc-15_15.3.0-4 gcc-15-base_15.3.0-4 gcc-15-x86-64-linux-gnu_15.3.0-4 gcc-16_16.2.0-3 gcc-16-base_16.2.0-3 gcc-16-x86-64-linux-gnu_16.2.0-3 gcc-x86-64-linux-gnu_4:16.1.0-3 gettext_1.0-5 gettext-base_1.0-5 gnupg_2.4.9-7 gnupg-l10n_2.4.9-7 gpg_2.4.9-7+b1 gpg-agent_2.4.9-7+b1 gpgconf_2.4.9-7+b1 gpgsm_2.4.9-7+b1 grep_3.12-1 groff-base_1.24.1-1 gzip_1.14-1 help2man_1.49.3 hicolor-icon-theme_0.18-2 hostname_3.25 imagemagick_8:7.1.2.31+dfsg1-1+b2 imagemagick-7-common_8:7.1.2.31+dfsg1-1 imagemagick-7.q16_8:7.1.2.31+dfsg1-1+b2 init-system-helpers_1.69+nmu1 intltool-debian_0.35.0+20060710.6 libacl1_2.4.0-1 libapt-pkg7.0_3.3.3 libarchive-zip-perl_1.68-1 libarchive13t64_3.8.9-1 libasan8_16.2.0-3 libassuan9_3.0.2-2+b2 libatomic1_16.2.0-3 libattr1_1:2.6.0-1 libaudit-common_1:4.1.2-1 libaudit1_1:4.1.2-1+b2 libbinutils_2.47-6 libblkid1_2.42.3-1 libbrotli1_1.2.0-4+b1 libbz2-1.0_1.0.8-6+b2 libc-bin_2.43-5 libc-dev-bin_2.43-5 libc-gconv-modules-extra_2.43-5 libc6_2.43-5 libc6-dev_2.43-5 libcap-ng0_0.9.6-1 libcc1-0_16.2.0-3 libcom-err2_1.47.4-1+b1 libcrypt1_1:4.5.2+20251210-1 libctf-nobfd0_2.47-6 libctf0_2.47-6 libcurl4t64_8.22.0-1 libdav1d7_1.5.4-1 libdb5.3t64_5.3.28+dfsg2-11+b1 libde265-0_1.1.3-1 libdebconfclient0_0.283 libdebhelper-perl_14.5 libdeflate0_1.25-1 libdpkg-perl_1.23.11 libeatmydata1_131-2+b2 libelf1t64_0.196-1 libexpat1_2.8.4-1 libffi8_3.8.0-2 libfftw3-double3_3.3.11-1 libfile-stripnondeterminism-perl_1.15.1-1 libfontconfig1_2.17.1-5 libfreetype6_2.14.3+dfsg-2 libgcc-15-dev_15.3.0-4 libgcc-16-dev_16.2.0-3 libgcc-s1_16.2.0-3 libgcrypt20_1.12.3-2 libgdbm-compat4t64_1.26-1+b2 libgdbm6t64_1.26-1+b2 libglib2.0-0t64_2.90.0-1 libgmp10_2:6.3.0+dfsg-5+b2 libgnutls30t64_3.8.13-1 libgomp1_16.2.0-3 libgpg-error0_1.61-5 libgprofng0_2.47-6 libgssapi-krb5-2_1.22.1-3 libheif-plugin-dav1d_1.23.4-1 libheif-plugin-libde265_1.23.4-1 libheif1_1.23.4-1 libhogweed6t64_3.10.2-1+b1 libhwasan0_16.2.0-3 libidn2-0_2.3.8-5 libisl23_0.28-1 libitm1_16.2.0-3 libjansson4_2.15.1-1 libjbig0_2.1-6.1+b3 libjpeg62-turbo_1:3.1.3-4 libjsoncpp26_1.9.8-2 libk5crypto3_1.22.1-3 libkeyutils1_1.6.3-6+b2 libkrb5-3_1.22.1-3 libkrb5support0_1.22.1-3 libksba8_1.8.1-1 liblcms2-2_2.19.1-1 libldap2_2.6.14+dfsg-2+b1 liblerc4_4.2.0+ds-1 liblocale-gettext-perl_1.07-10+b2 liblqr-1-0_0.4.2-2.2+b1 liblsan0_16.2.0-3 libltdl7_2.6.2-3 liblz4-1_1.10.0-10 liblzma5_5.8.4-1 libmagic-mgc_1:5.47-4 libmagic1t64_1:5.47-4 libmagickcore-7.q16-10_8:7.1.2.31+dfsg1-1+b2 libmagickwand-7.q16-10_8:7.1.2.31+dfsg1-1+b2 libmd0_1.2.0-2 libmount1_2.42.3-1 libmpc3_1.3.1-3 libmpfr6_4.2.2-3 libncursesw6_6.6+20260608-2 libnettle8t64_3.10.2-1+b1 libnghttp2-14_1.70.0-1 libnghttp3-9_1.17.0-1 libngtcp2-16_1.24.0-1 libngtcp2-crypto-ossl0_1.24.0-1 libnpth0t64_1.8-4 libopenjp2-7_2.5.4-1.1 libp11-kit0_0.26.5-1 libpam-modules_1.7.0-8 libpam-modules-bin_1.7.0-8 libpam-runtime_1.7.0-8 libpam0g_1.7.0-8 libpcre2-8-0_10.48-3 libperl5.40_5.40.1-8 libperl5.44_5.44.0-1 libpipeline1_1.5.8-3 libpng16-16t64_1.6.58-1 libproc2-1_2:4.0.7-1 libpsl5t64_0.23.3-1 libquadmath0_16.2.0-3 libraw25_0.22.1-1 libreadline8t64_8.3-4 librhash1_1.4.6-1.1+b1 libsasl2-2_2.1.28+dfsg1-11 libsasl2-modules-db_2.1.28+dfsg1-11 libseccomp2_2.6.1-1+b1 libselinux1_3.11-2 libsframe3_2.47-6 libsharpyuv0_1.6.0-0.1 libsimde-dev_0.8.4~rc3-5 libsmartcols1_2.42.3-1 libsqlite3-0_3.53.4-2 libssh2-1t64_1.11.1-6 libssl3t64_3.6.4-1 libstdc++-15-dev_15.3.0-4 libstdc++-16-dev_16.2.0-3 libstdc++6_16.2.0-3 libsystemd0_262~rc3-1 libtasn1-6_4.21.0-2+b1 libtiff6_4.7.2-1 libtinfo6_6.6+20260608-2 libtool_2.6.2-3 libtsan2_16.2.0-3 libtss2-mu-4.0.1-0t64_4.1.3-7 libtss2-rc0t64_4.1.3-7 libtss2-sys1t64_4.1.3-7 libtss2-tcti-device0t64_4.1.3-7 libtss2-tcti-mssim0t64_4.1.3-7 libtss2-tcti-swtpm0t64_4.1.3-7 libubsan1_16.2.0-3 libuchardet0_0.0.8-2+b2 libudev1_262~rc3-1 libunistring5_1.4.2-1 libuuid1_2.42.3-1 libuv1t64_1.52.1-4 libwebp7_1.6.0-0.1 libwebpdemux2_1.6.0-0.1 libwebpmux3_1.6.0-0.1 libx11-6_2:1.8.13-1 libx11-data_2:1.8.13-1 libxau6_1:1.0.11-1+b2 libxcb1_1.17.0-2+b2 libxdmcp6_1:1.1.5-2+b1 libxext6_2:1.3.4-1+b4 libxml2-16_2.15.4+dfsg-1 libxxhash0_0.8.3-2+b2 libzstd1_1.5.7+dfsg-4 linux-libc-dev_7.2.6-1 m4_1.4.21-1 make_4.4.1-3 man-db_2.13.1-1 mawk_1.3.4.20260302-1 mount_2.42.3-1 ncurses-base_6.6+20260608-2 ncurses-bin_6.6+20260608-2 openssl-provider-legacy_3.6.4-1 patch_2.8-2 perl_5.44.0-1 perl-base_5.44.0-1 perl-modules-5.40_5.40.1-8 perl-modules-5.44_5.44.0-1 pinentry-curses_1.3.3-3 po-debconf_1.0.22 procps_2:4.0.7-1 readline-common_8.3-4 rpcsvc-proto_1.4.4-1 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.9-3 sensible-utils_0.0.26 sqv_1.5.0-1 sysvinit-utils_3.18-1 tar_1.35+dfsg-6 util-linux_2.42.3-1 xz-utils_5.8.4-1 zlib1g_1:1.3.dfsg+really1.3.2-3 +------------------------------------------------------------------------------+ | Build Sat, 19 Sep 2026 23:30:51 +0000 | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: hhsuite Binary: hhsuite, hhsuite-data Architecture: any all Version: 3.3.0+ds-10 Maintainer: Debian Med Packaging Team Uploaders: Laszlo Kajan , Andreas Tille , Sascha Steinbiss Homepage: https://toolkit.tuebingen.mpg.de/ Standards-Version: 4.7.3 Vcs-Browser: https://salsa.debian.org/med-team/hhsuite Vcs-Git: https://salsa.debian.org/med-team/hhsuite.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), libsimde-dev, cmake, imagemagick, help2man Package-List: hhsuite deb science optional arch=any hhsuite-data deb science optional arch=all Checksums-Sha1: d90462ba593366296d8916e184b42325caa4201b 4775072 hhsuite_3.3.0+ds.orig.tar.xz 6fcd7032b605f6e8fd91f15a33a738ac400bce10 17016 hhsuite_3.3.0+ds-10.debian.tar.xz Checksums-Sha256: a81037f2e2a4801f1a42f5aa5939334fe038053d05ceabdc0899fefb8cc00a44 4775072 hhsuite_3.3.0+ds.orig.tar.xz 37e0a43660f686c09bfe64885696a03c9b77b0ee9da7a478adfff9593440dce0 17016 hhsuite_3.3.0+ds-10.debian.tar.xz Files: d01293f2b8337f9b914b30976c2a87e9 4775072 hhsuite_3.3.0+ds.orig.tar.xz 216af2c9e2eb050d8757523eff258d3a 17016 hhsuite_3.3.0+ds-10.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQEzBAEBCgAdFiEE1Uw7+v+wQt44LaXXQc5/C58bizIFAmmTimAACgkQQc5/C58b izIYyQf9GkEiNSoYjiFMe0pmJ3bXBsJypLZ1DhyojIPCt1qnDi9XMgjaB5u2zK8w tOiKIGmGt/6adHqu+tWGXiYQ3I/R+Ms0bTV1JOypXMKz6bCuHetXGeAGrIO71XG+ rSnQgwXZHRiPK+hRo4sp8IDq3HIjI63rgOKNTuzbwwC9IX9q73rQNy/oYFuQ6KPn lQPr6KhfnCjXT4crDzxqMQwnUpTgvFyJVcwKk+CPW7hoTouqJShEiHbB289C/bE9 JIOktswpxby/IphJ6nNuSAkVJO/WWowgb2kbqZQnC539xZgj8uDwUvYQg5o52xwI TgJQx5rLFkyvYEIgSa9nIxRkpdNUTg== =nIjn -----END PGP SIGNATURE----- dpkg-source: warning: cannot verify inline signature for ./hhsuite_3.3.0+ds-10.dsc: missing OpenPGP keyrings dpkg-source: info: verifying ./hhsuite_3.3.0+ds-10.dsc dpkg-source: info: skipping absent keyring /usr/share/keyrings/debian-keyring.pgp dpkg-source: info: skipping absent keyring /usr/share/keyrings/debian-tag2upload.pgp dpkg-source: info: skipping absent keyring /usr/share/keyrings/debian-nonupload.pgp dpkg-source: info: skipping absent keyring /usr/share/keyrings/debian-maintainers.pgp dpkg-source: info: extracting hhsuite in /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds dpkg-source: info: unpacking hhsuite_3.3.0+ds.orig.tar.xz dpkg-source: info: unpacking hhsuite_3.3.0+ds-10.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying test_without_mpi dpkg-source: info: applying perlscript_uselib dpkg-source: info: applying perl_interpreter dpkg-source: info: applying drop-fmemopen.h.patch dpkg-source: info: applying python3 dpkg-source: info: applying ppc64el.patch dpkg-source: info: applying exe_suffix dpkg-source: info: applying gcc-13.patch clean up apt cache ------------------ Check disk space ---------------- Sufficient free space for build +------------------------------------------------------------------------------+ | Starting Time Build Commands Sat, 19 Sep 2026 23:30:52 +0000 | +------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/starting-build-commands/no-network hhsuite_3.3.0+ds-10 perl-5.44-throwaway amd64 -------------------------------------------------------------------------------------------------------------------- I: Finished running '/usr/share/debomatic/sbuildcommands/starting-build-commands/no-network hhsuite_3.3.0+ds-10 perl-5.44-throwaway amd64'. Finished processing commands. -------------------------------------------------------------------------------- User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf HOME=/sbuild-nonexistent LANGUAGE=en_GB:en LC_ALL=C.UTF-8 LD_LIBRARY_PATH=/usr/lib/libeatmydata LD_PRELOAD=libeatmydata.so LOGNAME=debomatic PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games PWD=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds SCHROOT_ALIAS_NAME=perl-5.44-throwaway-amd64-debomatic SCHROOT_CHROOT_NAME=perl-5.44-amd64-debomatic SCHROOT_COMMAND=env SCHROOT_GID=110 SCHROOT_GROUP=sbuild SCHROOT_SESSION_ID=perl-5.44-amd64-debomatic-60a2b248-74bb-4b67-8e04-f8fc97c33134 SCHROOT_UID=1002 SCHROOT_USER=debomatic SHELL=/bin/sh USER=debomatic dpkg-buildpackage ----------------- Command: dpkg-buildpackage --sanitize-env -us -uc -Zxz dpkg-buildpackage: info: source package hhsuite dpkg-buildpackage: info: source version 3.3.0+ds-10 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Santiago Vila dpkg-source -Zxz --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean debian/rules override_dh_auto_clean make[1]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds' dh_auto_clean rm -rf hhalign.1 hhblits.1 hhblits_omp.1 hhconsensus.1 hhfilter.1 hhmake.1 hhsearch.1 build_* mybuild debian/testdir rm -f data/*.ffdata data/*.ffindex rm -f data/blits_app_res data/search_app_res find . -name "*.rej" -delete find . -name "*~" -delete dh_clean make[1]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds' dh_clean dpkg-source -Zxz -b . dpkg-source: info: using source format '3.0 (quilt)' dpkg-source: info: building hhsuite using existing ../hhsuite_3.3.0+ds.orig.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: building hhsuite in ../hhsuite_3.3.0+ds-10.debian.tar.xz dpkg-source: info: building hhsuite in ../hhsuite_3.3.0+ds-10.dsc debian/rules binary dh binary dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_configure-arch make[1]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds' for SIMD in avx2 avx sse4.1 ssse3 sse3 ; do \ export CXXFLAGS="-g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -m${SIMD}" && \ dh_auto_configure --builddirectory build_${SIMD} -- -DEXE_SUFFIX=-${SIMD} -DNATIVE_ARCH=0 -DCMAKE_POLICY_VERSION_MINIMUM=3.5 ; \ done cd build_avx2 && env -- DEB_PYTHON_INSTALL_LAYOUT=deb --unset=PKG_CONFIG cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_C_COMPILER=/usr/bin/x86_64-linux-gnu-gcc -DCMAKE_CXX_COMPILER=/usr/bin/x86_64-linux-gnu-g\+\+ -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DEXE_SUFFIX=-avx2 -DNATIVE_ARCH=0 -DCMAKE_POLICY_VERSION_MINIMUM=3.5 .. CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- The C compiler identification is GNU 16.2.0 -- The CXX compiler identification is GNU 16.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/x86_64-linux-gnu-gcc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/x86_64-linux-gnu-g++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Compiler is GNU CMake Deprecation Warning at lib/ffindex/CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- Looking for fmemopen -- Looking for fmemopen - found -- Could NOT find MPI_C (missing: MPI_C_LIB_NAMES MPI_C_HEADER_DIR MPI_C_WORKS) -- Could NOT find MPI_CXX (missing: MPI_CXX_LIB_NAMES MPI_CXX_HEADER_DIR MPI_CXX_WORKS) -- Could NOT find MPI (missing: MPI_C_FOUND MPI_CXX_FOUND) -- xxd not found, using xxdi.pl instead -- Found OpenMP_C: -fopenmp (found version "5.2") -- Found OpenMP_CXX: -fopenmp (found version "5.2") -- Found OpenMP: TRUE (found version "5.2") -- Found OpenMP -- Configuring done (1.7s) -- Generating done (0.1s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 cd build_avx && env -- DEB_PYTHON_INSTALL_LAYOUT=deb --unset=PKG_CONFIG cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_C_COMPILER=/usr/bin/x86_64-linux-gnu-gcc -DCMAKE_CXX_COMPILER=/usr/bin/x86_64-linux-gnu-g\+\+ -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DEXE_SUFFIX=-avx -DNATIVE_ARCH=0 -DCMAKE_POLICY_VERSION_MINIMUM=3.5 .. CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- The C compiler identification is GNU 16.2.0 -- The CXX compiler identification is GNU 16.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/x86_64-linux-gnu-gcc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/x86_64-linux-gnu-g++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Compiler is GNU CMake Deprecation Warning at lib/ffindex/CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- Looking for fmemopen -- Looking for fmemopen - found -- Could NOT find MPI_C (missing: MPI_C_LIB_NAMES MPI_C_HEADER_DIR MPI_C_WORKS) -- Could NOT find MPI_CXX (missing: MPI_CXX_LIB_NAMES MPI_CXX_HEADER_DIR MPI_CXX_WORKS) -- Could NOT find MPI (missing: MPI_C_FOUND MPI_CXX_FOUND) -- xxd not found, using xxdi.pl instead -- Found OpenMP_C: -fopenmp (found version "5.2") -- Found OpenMP_CXX: -fopenmp (found version "5.2") -- Found OpenMP: TRUE (found version "5.2") -- Found OpenMP -- Configuring done (2.2s) -- Generating done (0.1s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx cd build_sse4.1 && env -- DEB_PYTHON_INSTALL_LAYOUT=deb --unset=PKG_CONFIG cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_C_COMPILER=/usr/bin/x86_64-linux-gnu-gcc -DCMAKE_CXX_COMPILER=/usr/bin/x86_64-linux-gnu-g\+\+ -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DEXE_SUFFIX=-sse4.1 -DNATIVE_ARCH=0 -DCMAKE_POLICY_VERSION_MINIMUM=3.5 .. CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- The C compiler identification is GNU 16.2.0 -- The CXX compiler identification is GNU 16.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/x86_64-linux-gnu-gcc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/x86_64-linux-gnu-g++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Compiler is GNU CMake Deprecation Warning at lib/ffindex/CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- Looking for fmemopen -- Looking for fmemopen - found -- Could NOT find MPI_C (missing: MPI_C_LIB_NAMES MPI_C_HEADER_DIR MPI_C_WORKS) -- Could NOT find MPI_CXX (missing: MPI_CXX_LIB_NAMES MPI_CXX_HEADER_DIR MPI_CXX_WORKS) -- Could NOT find MPI (missing: MPI_C_FOUND MPI_CXX_FOUND) -- xxd not found, using xxdi.pl instead -- Found OpenMP_C: -fopenmp (found version "5.2") -- Found OpenMP_CXX: -fopenmp (found version "5.2") -- Found OpenMP: TRUE (found version "5.2") -- Found OpenMP -- Configuring done (2.1s) -- Generating done (0.1s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 cd build_ssse3 && env -- DEB_PYTHON_INSTALL_LAYOUT=deb --unset=PKG_CONFIG cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_C_COMPILER=/usr/bin/x86_64-linux-gnu-gcc -DCMAKE_CXX_COMPILER=/usr/bin/x86_64-linux-gnu-g\+\+ -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DEXE_SUFFIX=-ssse3 -DNATIVE_ARCH=0 -DCMAKE_POLICY_VERSION_MINIMUM=3.5 .. CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- The C compiler identification is GNU 16.2.0 -- The CXX compiler identification is GNU 16.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/x86_64-linux-gnu-gcc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/x86_64-linux-gnu-g++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Compiler is GNU CMake Deprecation Warning at lib/ffindex/CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- Looking for fmemopen -- Looking for fmemopen - found -- Could NOT find MPI_C (missing: MPI_C_LIB_NAMES MPI_C_HEADER_DIR MPI_C_WORKS) -- Could NOT find MPI_CXX (missing: MPI_CXX_LIB_NAMES MPI_CXX_HEADER_DIR MPI_CXX_WORKS) -- Could NOT find MPI (missing: MPI_C_FOUND MPI_CXX_FOUND) -- xxd not found, using xxdi.pl instead -- Found OpenMP_C: -fopenmp (found version "5.2") -- Found OpenMP_CXX: -fopenmp (found version "5.2") -- Found OpenMP: TRUE (found version "5.2") -- Found OpenMP -- Configuring done (3.3s) -- Generating done (0.1s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 cd build_sse3 && env -- DEB_PYTHON_INSTALL_LAYOUT=deb --unset=PKG_CONFIG cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_C_COMPILER=/usr/bin/x86_64-linux-gnu-gcc -DCMAKE_CXX_COMPILER=/usr/bin/x86_64-linux-gnu-g\+\+ -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DEXE_SUFFIX=-sse3 -DNATIVE_ARCH=0 -DCMAKE_POLICY_VERSION_MINIMUM=3.5 .. CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- The C compiler identification is GNU 16.2.0 -- The CXX compiler identification is GNU 16.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/x86_64-linux-gnu-gcc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/x86_64-linux-gnu-g++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Compiler is GNU CMake Deprecation Warning at lib/ffindex/CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- Looking for fmemopen -- Looking for fmemopen - found -- Could NOT find MPI_C (missing: MPI_C_LIB_NAMES MPI_C_HEADER_DIR MPI_C_WORKS) -- Could NOT find MPI_CXX (missing: MPI_CXX_LIB_NAMES MPI_CXX_HEADER_DIR MPI_CXX_WORKS) -- Could NOT find MPI (missing: MPI_C_FOUND MPI_CXX_FOUND) -- xxd not found, using xxdi.pl instead -- Found OpenMP_C: -fopenmp (found version "5.2") -- Found OpenMP_CXX: -fopenmp (found version "5.2") -- Found OpenMP: TRUE (found version "5.2") -- Found OpenMP -- Configuring done (2.9s) -- Generating done (0.1s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 export CXXFLAGS="-g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3" && \ dh_auto_configure --builddirectory build_plain -- -DEXE_SUFFIX=-plain -DNATIVE_ARCH=0 -DCMAKE_POLICY_VERSION_MINIMUM=3.5 cd build_plain && env -- DEB_PYTHON_INSTALL_LAYOUT=deb --unset=PKG_CONFIG cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_C_COMPILER=/usr/bin/x86_64-linux-gnu-gcc -DCMAKE_CXX_COMPILER=/usr/bin/x86_64-linux-gnu-g\+\+ -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DEXE_SUFFIX=-plain -DNATIVE_ARCH=0 -DCMAKE_POLICY_VERSION_MINIMUM=3.5 .. CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- The C compiler identification is GNU 16.2.0 -- The CXX compiler identification is GNU 16.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/x86_64-linux-gnu-gcc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/x86_64-linux-gnu-g++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Compiler is GNU CMake Deprecation Warning at lib/ffindex/CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- Looking for fmemopen -- Looking for fmemopen - found -- Could NOT find MPI_C (missing: MPI_C_LIB_NAMES MPI_C_HEADER_DIR MPI_C_WORKS) -- Could NOT find MPI_CXX (missing: MPI_CXX_LIB_NAMES MPI_CXX_HEADER_DIR MPI_CXX_WORKS) -- Could NOT find MPI (missing: MPI_C_FOUND MPI_CXX_FOUND) -- xxd not found, using xxdi.pl instead -- Found OpenMP_C: -fopenmp (found version "5.2") -- Found OpenMP_CXX: -fopenmp (found version "5.2") -- Found OpenMP: TRUE (found version "5.2") -- Found OpenMP -- Configuring done (2.8s) -- Generating done (0.1s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain make[1]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds' debian/rules override_dh_auto_configure-indep make[1]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds' dh_auto_configure --builddirectory mybuild -- -DNATIVE_ARCH=0 -DCMAKE_POLICY_VERSION_MINIMUM=3.5 cd mybuild && env -- DEB_PYTHON_INSTALL_LAYOUT=deb --unset=PKG_CONFIG cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_C_COMPILER=/usr/bin/x86_64-linux-gnu-gcc -DCMAKE_CXX_COMPILER=/usr/bin/x86_64-linux-gnu-g\+\+ -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DNATIVE_ARCH=0 -DCMAKE_POLICY_VERSION_MINIMUM=3.5 .. CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- The C compiler identification is GNU 16.2.0 -- The CXX compiler identification is GNU 16.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/x86_64-linux-gnu-gcc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/x86_64-linux-gnu-g++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Compiler is GNU CMake Deprecation Warning at lib/ffindex/CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- Looking for fmemopen -- Looking for fmemopen - found -- Could NOT find MPI_C (missing: MPI_C_LIB_NAMES MPI_C_HEADER_DIR MPI_C_WORKS) -- Could NOT find MPI_CXX (missing: MPI_CXX_LIB_NAMES MPI_CXX_HEADER_DIR MPI_CXX_WORKS) -- Could NOT find MPI (missing: MPI_C_FOUND MPI_CXX_FOUND) -- xxd not found, using xxdi.pl instead -- Found OpenMP_C: -fopenmp (found version "5.2") -- Found OpenMP_CXX: -fopenmp (found version "5.2") -- Found OpenMP: TRUE (found version "5.2") -- Found OpenMP -- Configuring done (2.7s) -- Generating done (0.1s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild make[1]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds' debian/rules override_dh_auto_build-arch make[1]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds' for SIMD in avx2 avx sse4.1 ssse3 sse3 plain ; do \ dh_auto_build --builddirectory build_${SIMD} ; \ done cd build_avx2 && make -j2 INSTALL="install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' /usr/bin/cmake -S/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds -B/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/CMakeFiles /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' make -f lib/ffindex/src/CMakeFiles/ffindex.dir/build.make 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/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated/context_data.crf.h [ 3%] Building C object lib/ffindex/src/CMakeFiles/ffindex.dir/ffutil.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex.dir/ffutil.c.o -MF CMakeFiles/ffindex.dir/ffutil.c.o.d -o CMakeFiles/ffindex.dir/ffutil.c.o -c 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/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/DependInfo.cmake "--color=" hhviterbialgorithm_with_celloff make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' make -f src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 5%] Building CXX object src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DVITERBI_CELLOFF=1 -MD -MT src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o -MF CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o.d -o CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbialgorithm.cpp cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated/context_data.crf.h > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated/context_data.crf.h.tmp cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mv -f /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated/context_data.crf.h.tmp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated/context_data.crf.h [ 6%] Generating ../generated/context_data.lib.h cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mkdir -p /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/cmake/xxdi.pl context_data.lib > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated/context_data.lib.h [ 7%] Linking CXX static library libhhviterbialgorithm_with_celloff.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_with_celloff.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_with_celloff.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libhhviterbialgorithm_with_celloff.a CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o /usr/bin/x86_64-linux-gnu-ranlib libhhviterbialgorithm_with_celloff.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 7%] Built target hhviterbialgorithm_with_celloff make -f src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 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-I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DVITERBI_CELLOFF=1 -DVITERBI_SS_SCORE=1 -MD -MT src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o -MF CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o.d -o CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbialgorithm.cpp cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated/context_data.lib.h > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated/context_data.lib.h.tmp cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mv -f /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated/context_data.lib.h.tmp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated/context_data.lib.h [ 9%] Generating ../generated/cs219.lib.h cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mkdir -p /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/cmake/xxdi.pl cs219.lib > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated/cs219.lib.h cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated/cs219.lib.h > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated/cs219.lib.h.tmp cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mv -f /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated/cs219.lib.h.tmp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated/cs219.lib.h make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 9%] Built target generated make -f src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_and_ss.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src/CMakeFiles/hhviterbialgorithm_and_ss.dir/DependInfo.cmake "--color=" hhviterbialgorithm_and_ss make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' make -f src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 10%] Building CXX object src/CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DVITERBI_SS_SCORE=1 -MD -MT src/CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o -MF CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o.d -o CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbialgorithm.cpp [ 11%] Linking CXX static library libhhviterbialgorithm_with_celloff_and_ss.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libhhviterbialgorithm_with_celloff_and_ss.a CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o /usr/bin/x86_64-linux-gnu-ranlib libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 11%] Built target hhviterbialgorithm_with_celloff_and_ss make -f src/cs/CMakeFiles/CS_OBJECTS.dir/build.make src/cs/CMakeFiles/CS_OBJECTS.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src/cs /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src/cs/CMakeFiles/CS_OBJECTS.dir/DependInfo.cmake "--color=" CS_OBJECTS make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' make -f src/cs/CMakeFiles/CS_OBJECTS.dir/build.make src/cs/CMakeFiles/CS_OBJECTS.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 12%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/aa.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/aa.cc.o -MF CMakeFiles/CS_OBJECTS.dir/aa.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/aa.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/aa.cc [ 13%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/as.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/as.cc.o -MF CMakeFiles/CS_OBJECTS.dir/as.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/as.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/as.cc [ 14%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o -MF CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/assert_helpers.cc [ 15%] Linking CXX static library libhhviterbialgorithm_and_ss.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_and_ss.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_and_ss.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libhhviterbialgorithm_and_ss.a CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o /usr/bin/x86_64-linux-gnu-ranlib libhhviterbialgorithm_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 15%] Built target hhviterbialgorithm_and_ss [ 16%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o -MF CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/blosum_matrix.cc make -f src/CMakeFiles/A3M_COMPRESS.dir/build.make src/CMakeFiles/A3M_COMPRESS.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src/CMakeFiles/A3M_COMPRESS.dir/DependInfo.cmake "--color=" A3M_COMPRESS make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' make -f src/CMakeFiles/A3M_COMPRESS.dir/build.make src/CMakeFiles/A3M_COMPRESS.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 16%] Building CXX object src/CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o -MF CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o.d -o CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_compress.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_compress.cpp: In function ‘std::string& rtrim(std::string&)’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_compress.cpp:504:43: warning: ‘std::pointer_to_unary_function<_Arg, _Result> std::ptr_fun(_Result (*)(_Arg)) [with _Arg = int; _Result = int]’ is deprecated: use 'std::function' instead [-Wdeprecated-declarations] 504 | std::not1(std::ptr_fun(std::isspace))).base(), s.end()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ In file included from /usr/include/c++/16/string:52, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/bits/ostream.h:43, from /usr/include/c++/16/ostream:42, from /usr/include/c++/16/iostream:43, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_compress.h:11, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_compress.cpp:8: /usr/include/c++/16/bits/stl_function.h:1214:5: note: declared here 1214 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ [ 17%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o -MF CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/getopt_pp.cc [ 18%] Linking CXX static library libA3M_COMPRESS.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/cmake -P CMakeFiles/A3M_COMPRESS.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/A3M_COMPRESS.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libA3M_COMPRESS.a CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o /usr/bin/x86_64-linux-gnu-ranlib libA3M_COMPRESS.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 18%] Built target A3M_COMPRESS make -f lib/ffindex/src/CMakeFiles/ffindex_apply.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_apply.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/lib/ffindex/src/CMakeFiles/ffindex_apply.dir/DependInfo.cmake "--color=" ffindex_apply make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' make -f lib/ffindex/src/CMakeFiles/ffindex_apply.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_apply.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 19%] Building C object lib/ffindex/src/CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -UHAVE_MPI -MD -MT lib/ffindex/src/CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o -MF CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o.d -o CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_apply_mpi.c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_apply_mpi.c: In function ‘ffindex_apply_by_entry’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_apply_mpi.c:172:53: warning: format ‘%lld’ expects argument of type ‘long long int’, but argument 6 has type ‘int64_t’ {aka ‘long int’} [-Wformat=] 172 | fprintf(log_file_out, "%s\t%ld\t%ld\t%lld\t%d\n", entry->name, entry->offset, entry->length, end - start, WEXITSTATUS(status)); | ~~~^ ~~~~~~~~~~~ | | | | long long int int64_t {aka long int} | %ld [ 20%] Linking C executable ffindex_apply cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_apply.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-gcc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ffindex_apply.dir/link.d CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o -o ffindex_apply libffindex.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 20%] Built target ffindex_apply [ 21%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/log.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/log.cc.o -MF CMakeFiles/CS_OBJECTS.dir/log.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/log.cc.o -c 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object src/cs/CMakeFiles/CS_OBJECTS.dir/application.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/application.cc.o -MF CMakeFiles/CS_OBJECTS.dir/application.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/application.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/application.cc [ 23%] Building C object lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o -MF CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o.d -o CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_reduce.c [ 24%] Linking C executable ffindex_reduce cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_reduce.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-gcc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ffindex_reduce.dir/link.d CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o -o ffindex_reduce libffindex.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 24%] Built target ffindex_reduce make -f lib/ffindex/src/CMakeFiles/ffindex_build.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_build.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/lib/ffindex/src/CMakeFiles/ffindex_build.dir/DependInfo.cmake "--color=" ffindex_build make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' make -f lib/ffindex/src/CMakeFiles/ffindex_build.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_build.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 25%] Building C object lib/ffindex/src/CMakeFiles/ffindex_build.dir/ffindex_build.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex_build.dir/ffindex_build.c.o -MF CMakeFiles/ffindex_build.dir/ffindex_build.c.o.d -o CMakeFiles/ffindex_build.dir/ffindex_build.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_build.c [ 26%] Linking C executable ffindex_build cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_build.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-gcc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ffindex_build.dir/link.d CMakeFiles/ffindex_build.dir/ffindex_build.c.o -o ffindex_build libffindex.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 26%] Built target ffindex_build make -f lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/DependInfo.cmake "--color=" ffindex_from_fasta make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' make -f lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 27%] Building C object lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o -MF CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o.d -o CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_from_fasta.c [ 28%] Linking C executable ffindex_from_fasta cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_from_fasta.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-gcc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ffindex_from_fasta.dir/link.d CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o -o ffindex_from_fasta libffindex.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 28%] Built target ffindex_from_fasta make -f lib/ffindex/src/CMakeFiles/ffindex_get.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_get.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/lib/ffindex/src/CMakeFiles/ffindex_get.dir/DependInfo.cmake "--color=" ffindex_get make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' make -f lib/ffindex/src/CMakeFiles/ffindex_get.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_get.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 29%] Building C object lib/ffindex/src/CMakeFiles/ffindex_get.dir/ffindex_get.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex_get.dir/ffindex_get.c.o -MF CMakeFiles/ffindex_get.dir/ffindex_get.c.o.d -o CMakeFiles/ffindex_get.dir/ffindex_get.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_get.c [ 30%] Linking C executable ffindex_get cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_get.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-gcc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ffindex_get.dir/link.d CMakeFiles/ffindex_get.dir/ffindex_get.c.o -o ffindex_get libffindex.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 30%] Built target ffindex_get make -f lib/ffindex/src/CMakeFiles/ffindex_modify.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_modify.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/lib/ffindex/src/CMakeFiles/ffindex_modify.dir/DependInfo.cmake "--color=" ffindex_modify make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' make -f lib/ffindex/src/CMakeFiles/ffindex_modify.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_modify.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 31%] Building C object lib/ffindex/src/CMakeFiles/ffindex_modify.dir/ffindex_modify.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex_modify.dir/ffindex_modify.c.o -MF 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-fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ffindex_unpack.dir/link.d CMakeFiles/ffindex_unpack.dir/ffindex_unpack.c.o -o ffindex_unpack libffindex.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 35%] Built target ffindex_unpack [ 36%] Building C object lib/ffindex/src/CMakeFiles/ffindex_order.dir/ffindex_order.c.o make -f lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/depend cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src 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-I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhmatrices.cpp [ 44%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src 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-I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalign.cpp [ 46%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ 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/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhposteriordecoder.cpp [ 48%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhutil.cpp make -f src/CMakeFiles/a3m_extract-avx2.dir/build.make src/CMakeFiles/a3m_extract-avx2.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src/CMakeFiles/a3m_extract-avx2.dir/DependInfo.cmake "--color=" a3m_extract-avx2 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' make -f src/CMakeFiles/a3m_extract-avx2.dir/build.make src/CMakeFiles/a3m_extract-avx2.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 49%] Building CXX object src/CMakeFiles/a3m_extract-avx2.dir/a3m_extract.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/a3m_extract-avx2.dir/a3m_extract.cpp.o -MF CMakeFiles/a3m_extract-avx2.dir/a3m_extract.cpp.o.d -o CMakeFiles/a3m_extract-avx2.dir/a3m_extract.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_extract.cpp [ 50%] Linking CXX executable a3m_extract-avx2 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_extract-avx2.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/a3m_extract-avx2.dir/link.d "CMakeFiles/a3m_extract-avx2.dir/a3m_extract.cpp.o" -o a3m_extract-avx2 ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 50%] Built target a3m_extract-avx2 make -f src/CMakeFiles/a3m_reduce-avx2.dir/build.make src/CMakeFiles/a3m_reduce-avx2.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src/CMakeFiles/a3m_reduce-avx2.dir/DependInfo.cmake "--color=" a3m_reduce-avx2 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' make -f src/CMakeFiles/a3m_reduce-avx2.dir/build.make src/CMakeFiles/a3m_reduce-avx2.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 51%] Building CXX object src/CMakeFiles/a3m_reduce-avx2.dir/a3m_reduce.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/a3m_reduce-avx2.dir/a3m_reduce.cpp.o -MF CMakeFiles/a3m_reduce-avx2.dir/a3m_reduce.cpp.o.d -o CMakeFiles/a3m_reduce-avx2.dir/a3m_reduce.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_reduce.cpp [ 52%] Linking CXX executable a3m_reduce-avx2 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_reduce-avx2.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/a3m_reduce-avx2.dir/link.d "CMakeFiles/a3m_reduce-avx2.dir/a3m_reduce.cpp.o" -o a3m_reduce-avx2 ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 52%] Built target a3m_reduce-avx2 make -f src/CMakeFiles/a3m_database_reduce-avx2.dir/build.make src/CMakeFiles/a3m_database_reduce-avx2.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src/CMakeFiles/a3m_database_reduce-avx2.dir/DependInfo.cmake "--color=" a3m_database_reduce-avx2 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' make -f src/CMakeFiles/a3m_database_reduce-avx2.dir/build.make src/CMakeFiles/a3m_database_reduce-avx2.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 53%] Building CXX object src/CMakeFiles/a3m_database_reduce-avx2.dir/a3m_database_reduce.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/a3m_database_reduce-avx2.dir/a3m_database_reduce.cpp.o -MF CMakeFiles/a3m_database_reduce-avx2.dir/a3m_database_reduce.cpp.o.d -o CMakeFiles/a3m_database_reduce-avx2.dir/a3m_database_reduce.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_database_reduce.cpp [ 54%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/util.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/util.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/util.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/util.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/util.cpp [ 55%] Linking CXX executable a3m_database_reduce-avx2 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_reduce-avx2.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/a3m_database_reduce-avx2.dir/link.d "CMakeFiles/a3m_database_reduce-avx2.dir/a3m_database_reduce.cpp.o" -o a3m_database_reduce-avx2 ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 55%] Built target a3m_database_reduce-avx2 make -f src/CMakeFiles/a3m_database_extract-avx2.dir/build.make src/CMakeFiles/a3m_database_extract-avx2.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src/CMakeFiles/a3m_database_extract-avx2.dir/DependInfo.cmake "--color=" a3m_database_extract-avx2 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' make -f src/CMakeFiles/a3m_database_extract-avx2.dir/build.make src/CMakeFiles/a3m_database_extract-avx2.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 56%] Building CXX object src/CMakeFiles/a3m_database_extract-avx2.dir/a3m_database_extract.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/a3m_database_extract-avx2.dir/a3m_database_extract.cpp.o -MF CMakeFiles/a3m_database_extract-avx2.dir/a3m_database_extract.cpp.o.d -o CMakeFiles/a3m_database_extract-avx2.dir/a3m_database_extract.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_database_extract.cpp [ 57%] Linking CXX executable a3m_database_extract-avx2 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_extract-avx2.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/a3m_database_extract-avx2.dir/link.d "CMakeFiles/a3m_database_extract-avx2.dir/a3m_database_extract.cpp.o" -o a3m_database_extract-avx2 ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a make[4]: Leaving directory 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'/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 58%] Building CXX object src/CMakeFiles/a3m_database_filter-avx2.dir/a3m_database_filter.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/a3m_database_filter-avx2.dir/a3m_database_filter.cpp.o -MF CMakeFiles/a3m_database_filter-avx2.dir/a3m_database_filter.cpp.o.d -o CMakeFiles/a3m_database_filter-avx2.dir/a3m_database_filter.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_database_filter.cpp [ 59%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.cpp [ 60%] Linking CXX executable a3m_database_filter-avx2 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_filter-avx2.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/a3m_database_filter-avx2.dir/link.d "CMakeFiles/a3m_database_filter-avx2.dir/a3m_database_filter.cpp.o" -o a3m_database_filter-avx2 ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 60%] Built target a3m_database_filter-avx2 [ 61%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhforwardalgorithm.cpp [ 62%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhhmm.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.cpp: In member function ‘int Alignment::Filter2(char*, int, int, float, int, int, int, const float (*)[20])’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.cpp:1797:39: warning: ‘%s’ directive writing up to 4095 bytes into a region of size 86 [-Wformat-overflow=] 1797 | sprintf(details, "The alingment %s does not contain any sequences.", | ^~ In file included from /usr/include/stdio.h:974, from /usr/include/c++/16/cstdio:47, from /usr/include/c++/16/ext/string_conversions.h:47, from /usr/include/c++/16/bits/basic_string.h:4499, from /usr/include/c++/16/string:58, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/istream:42, from /usr/include/c++/16/fstream:42, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.h:6, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.cpp:8: In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘int Alignment::Filter2(char*, int, int, float, int, int, int, const float (*)[20])’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.cpp:1797:14: /usr/include/x86_64-linux-gnu/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 47 and 4142 bytes into a destination of size 100 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 63%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhposteriordecoderrunner.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhposteriordecoderrunner.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhposteriordecoderrunner.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhposteriordecoderrunner.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhposteriordecoderrunner.cpp [ 64%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbialgorithm.cpp [ 65%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhfullalignment.cpp [ 66%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhhmmsimd.cpp [ 67%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhposteriormatrix.cpp [ 68%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbi.cpp [ 69%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o cd 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/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhbacktracemac.cpp [ 70%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhmacalgorithm.cpp [ 71%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhprefilter.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhprefilter.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhprefilter.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhprefilter.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhprefilter.cpp [ 72%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbimatrix.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhviterbimatrix.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhviterbimatrix.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhviterbimatrix.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbimatrix.cpp [ 73%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhbackwardalgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhbackwardalgorithm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhbackwardalgorithm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhbackwardalgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhbackwardalgorithm.cpp [ 74%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/ffindexdatabase.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/ffindexdatabase.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/ffindexdatabase.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/ffindexdatabase.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/ffindexdatabase.cpp [ 75%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhdatabase.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhdatabase.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhdatabase.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhdatabase.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhdatabase.cpp [ 76%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhhalfalignment.cpp [ 77%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbirunner.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhviterbirunner.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhviterbirunner.cpp.o.d -o 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src/CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhfunc.cpp [ 79%] Linking CXX static library libHH_OBJECTS.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/cmake -P CMakeFiles/HH_OBJECTS.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/HH_OBJECTS.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libHH_OBJECTS.a CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o CMakeFiles/HH_OBJECTS.dir/hhdecl.cpp.o CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o CMakeFiles/HH_OBJECTS.dir/util.cpp.o 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-Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhsearch-avx2.dir/link.d "CMakeFiles/hhsearch-avx2.dir/hhblits_app.cpp.o" -o hhsearch-avx2 libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' make -f src/CMakeFiles/hhalign-avx2.dir/build.make src/CMakeFiles/hhalign-avx2.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 87%] Built target hhsearch-avx2 [ 88%] Building CXX object src/CMakeFiles/hhalign-avx2.dir/hhblits_app.cpp.o make -f src/CMakeFiles/hhconsensus-avx2.dir/build.make src/CMakeFiles/hhconsensus-avx2.dir/depend cd 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/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_app.cpp make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src/CMakeFiles/hhconsensus-avx2.dir/DependInfo.cmake "--color=" hhconsensus-avx2 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' make -f src/CMakeFiles/hhconsensus-avx2.dir/build.make src/CMakeFiles/hhconsensus-avx2.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 89%] Building CXX object src/CMakeFiles/hhconsensus-avx2.dir/hhconsensus.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/hhconsensus-avx2.dir/hhconsensus.cpp.o -MF CMakeFiles/hhconsensus-avx2.dir/hhconsensus.cpp.o.d -o CMakeFiles/hhconsensus-avx2.dir/hhconsensus.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhconsensus.cpp [ 90%] Linking CXX executable hhalign-avx2 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhalign-avx2.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhalign-avx2.dir/link.d "CMakeFiles/hhalign-avx2.dir/hhblits_app.cpp.o" -o hhalign-avx2 libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 90%] Built target hhalign-avx2 make -f src/CMakeFiles/cstranslate-avx2.dir/build.make src/CMakeFiles/cstranslate-avx2.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src/CMakeFiles/cstranslate-avx2.dir/DependInfo.cmake "--color=" cstranslate-avx2 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' make -f src/CMakeFiles/cstranslate-avx2.dir/build.make src/CMakeFiles/cstranslate-avx2.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 91%] Building CXX object src/CMakeFiles/cstranslate-avx2.dir/cs/cstranslate_app.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/cstranslate-avx2.dir/cs/cstranslate_app.cc.o -MF CMakeFiles/cstranslate-avx2.dir/cs/cstranslate_app.cc.o.d -o CMakeFiles/cstranslate-avx2.dir/cs/cstranslate_app.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/cstranslate_app.cc [ 92%] Linking CXX executable hhconsensus-avx2 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhconsensus-avx2.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhconsensus-avx2.dir/link.d "CMakeFiles/hhconsensus-avx2.dir/hhconsensus.cpp.o" -o hhconsensus-avx2 libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 92%] Built target hhconsensus-avx2 make -f src/CMakeFiles/hhblits_omp-avx2.dir/build.make src/CMakeFiles/hhblits_omp-avx2.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src/CMakeFiles/hhblits_omp-avx2.dir/DependInfo.cmake "--color=" hhblits_omp-avx2 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' make -f src/CMakeFiles/hhblits_omp-avx2.dir/build.make src/CMakeFiles/hhblits_omp-avx2.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 93%] Building CXX object src/CMakeFiles/hhblits_omp-avx2.dir/hhblits_omp.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/hhblits_omp-avx2.dir/hhblits_omp.cpp.o -MF CMakeFiles/hhblits_omp-avx2.dir/hhblits_omp.cpp.o.d -o CMakeFiles/hhblits_omp-avx2.dir/hhblits_omp.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:51: warning: ‘.ffindex’ directive output may be truncated writing 8 bytes into a region of size between 1 and 4096 [-Wformat-truncation=] 26 | snprintf(index_filename, FILENAME_MAX, "%s.ffindex", base); | ^~~~~~~~ In file included from /usr/include/stdio.h:974, from /usr/include/c++/16/cstdio:47, from /usr/include/c++/16/ext/string_conversions.h:47, from /usr/include/c++/16/bits/basic_string.h:4499, from /usr/include/c++/16/string:58, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/istream:42, from /usr/include/c++/16/fstream:42, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits.h:11, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhsearch.h:34, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 94%] Linking CXX executable hhblits_omp-avx2 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhblits_omp-avx2.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhblits_omp-avx2.dir/link.d "CMakeFiles/hhblits_omp-avx2.dir/hhblits_omp.cpp.o" -o hhblits_omp-avx2 libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 94%] Built target hhblits_omp-avx2 make -f src/CMakeFiles/hhsearch_omp-avx2.dir/build.make src/CMakeFiles/hhsearch_omp-avx2.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src/CMakeFiles/hhsearch_omp-avx2.dir/DependInfo.cmake "--color=" hhsearch_omp-avx2 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' make -f src/CMakeFiles/hhsearch_omp-avx2.dir/build.make src/CMakeFiles/hhsearch_omp-avx2.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 95%] Building CXX object src/CMakeFiles/hhsearch_omp-avx2.dir/hhblits_omp.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DHHSEARCH=1 -MD -MT src/CMakeFiles/hhsearch_omp-avx2.dir/hhblits_omp.cpp.o -MF CMakeFiles/hhsearch_omp-avx2.dir/hhblits_omp.cpp.o.d -o CMakeFiles/hhsearch_omp-avx2.dir/hhblits_omp.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:51: warning: ‘.ffindex’ directive output may be truncated writing 8 bytes into a region of size between 1 and 4096 [-Wformat-truncation=] 26 | snprintf(index_filename, FILENAME_MAX, "%s.ffindex", base); | ^~~~~~~~ In file included from /usr/include/stdio.h:974, from /usr/include/c++/16/cstdio:47, from /usr/include/c++/16/ext/string_conversions.h:47, from /usr/include/c++/16/bits/basic_string.h:4499, from /usr/include/c++/16/string:58, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/istream:42, from /usr/include/c++/16/fstream:42, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits.h:11, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhsearch.h:34, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 96%] Linking CXX executable hhsearch_omp-avx2 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhsearch_omp-avx2.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhsearch_omp-avx2.dir/link.d "CMakeFiles/hhsearch_omp-avx2.dir/hhblits_omp.cpp.o" -o hhsearch_omp-avx2 libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 96%] Built target hhsearch_omp-avx2 make -f src/CMakeFiles/hhalign_omp-avx2.dir/build.make src/CMakeFiles/hhalign_omp-avx2.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src/CMakeFiles/hhalign_omp-avx2.dir/DependInfo.cmake "--color=" hhalign_omp-avx2 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' make -f src/CMakeFiles/hhalign_omp-avx2.dir/build.make src/CMakeFiles/hhalign_omp-avx2.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 97%] Building CXX object src/CMakeFiles/hhalign_omp-avx2.dir/hhblits_omp.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DHHALIGN=1 -MD -MT src/CMakeFiles/hhalign_omp-avx2.dir/hhblits_omp.cpp.o -MF CMakeFiles/hhalign_omp-avx2.dir/hhblits_omp.cpp.o.d -o CMakeFiles/hhalign_omp-avx2.dir/hhblits_omp.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:51: warning: ‘.ffindex’ directive output may be truncated writing 8 bytes into a region of size between 1 and 4096 [-Wformat-truncation=] 26 | snprintf(index_filename, FILENAME_MAX, "%s.ffindex", base); | ^~~~~~~~ In file included from /usr/include/stdio.h:974, from /usr/include/c++/16/cstdio:47, from /usr/include/c++/16/ext/string_conversions.h:47, from /usr/include/c++/16/bits/basic_string.h:4499, from /usr/include/c++/16/string:58, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/istream:42, from /usr/include/c++/16/fstream:42, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits.h:11, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhsearch.h:34, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 98%] Linking CXX executable hhalign_omp-avx2 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhalign_omp-avx2.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhalign_omp-avx2.dir/link.d "CMakeFiles/hhalign_omp-avx2.dir/hhblits_omp.cpp.o" -o hhalign_omp-avx2 libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 98%] Built target hhalign_omp-avx2 make -f src/CMakeFiles/hhblits_ca3m-avx2.dir/build.make src/CMakeFiles/hhblits_ca3m-avx2.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src/CMakeFiles/hhblits_ca3m-avx2.dir/DependInfo.cmake "--color=" hhblits_ca3m-avx2 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' make -f src/CMakeFiles/hhblits_ca3m-avx2.dir/build.make src/CMakeFiles/hhblits_ca3m-avx2.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 99%] Building CXX object src/CMakeFiles/hhblits_ca3m-avx2.dir/hhblits_ca3m.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/hhblits_ca3m-avx2.dir/hhblits_ca3m.cpp.o -MF CMakeFiles/hhblits_ca3m-avx2.dir/hhblits_ca3m.cpp.o.d -o CMakeFiles/hhblits_ca3m-avx2.dir/hhblits_ca3m.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp [ 99%] Linking CXX executable cstranslate-avx2 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/cstranslate-avx2.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/cstranslate-avx2.dir/link.d "CMakeFiles/cstranslate-avx2.dir/cs/cstranslate_app.cc.o" -o cstranslate-avx2 libHH_OBJECTS.a libA3M_COMPRESS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [ 99%] Built target cstranslate-avx2 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp: In function ‘int main(int, const char**)’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp:24:49: warning: ‘.ffindex’ directive output may be truncated writing 8 bytes into a region of size between 1 and 4096 [-Wformat-truncation=] 24 | snprintf(index_filename, FILENAME_MAX, "%s.ffindex", base); | ^~~~~~~~ In file included from /usr/include/stdio.h:974, from /usr/include/c++/16/cstdio:47, from /usr/include/c++/16/ext/string_conversions.h:47, from /usr/include/c++/16/bits/basic_string.h:4499, from /usr/include/c++/16/string:58, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/istream:42, from /usr/include/c++/16/fstream:42, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits.h:11, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp:24:15, inlined from ‘int main(int, const char**)’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp:358:29: /usr/include/x86_64-linux-gnu/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [100%] Linking CXX executable hhblits_ca3m-avx2 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhblits_ca3m-avx2.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhblits_ca3m-avx2.dir/link.d "CMakeFiles/hhblits_ca3m-avx2.dir/hhblits_ca3m.cpp.o" -o hhblits_ca3m-avx2 libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' [100%] Built target hhblits_ca3m-avx2 make[3]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' /usr/bin/cmake -E cmake_progress_start /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2/CMakeFiles 0 make[2]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' cd build_avx && make -j2 INSTALL="install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' /usr/bin/cmake -S/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds -B/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/CMakeFiles /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' make -f lib/ffindex/src/CMakeFiles/ffindex.dir/build.make lib/ffindex/src/CMakeFiles/ffindex.dir/depend make -f data/CMakeFiles/generated.dir/build.make data/CMakeFiles/generated.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/lib/ffindex/src/CMakeFiles/ffindex.dir/DependInfo.cmake "--color=" ffindex make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/data /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/data/CMakeFiles/generated.dir/DependInfo.cmake "--color=" generated make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' make -f lib/ffindex/src/CMakeFiles/ffindex.dir/build.make lib/ffindex/src/CMakeFiles/ffindex.dir/build make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' make -f data/CMakeFiles/generated.dir/build.make data/CMakeFiles/generated.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 1%] Building C object lib/ffindex/src/CMakeFiles/ffindex.dir/ffindex.c.o [ 2%] Generating ../generated/context_data.crf.h cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex.dir/ffindex.c.o -MF CMakeFiles/ffindex.dir/ffindex.c.o.d -o CMakeFiles/ffindex.dir/ffindex.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex.c cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mkdir -p /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/cmake/xxdi.pl context_data.crf > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated/context_data.crf.h [ 3%] Building C object lib/ffindex/src/CMakeFiles/ffindex.dir/ffutil.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex.dir/ffutil.c.o -MF CMakeFiles/ffindex.dir/ffutil.c.o.d -o CMakeFiles/ffindex.dir/ffutil.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffutil.c [ 4%] Linking C static library libffindex.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/lib/ffindex/src && /usr/bin/cmake -P CMakeFiles/ffindex.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libffindex.a CMakeFiles/ffindex.dir/ffindex.c.o CMakeFiles/ffindex.dir/ffutil.c.o /usr/bin/x86_64-linux-gnu-ranlib libffindex.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 4%] Built target ffindex make -f src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/DependInfo.cmake "--color=" hhviterbialgorithm_with_celloff make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' make -f src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 5%] Building CXX object src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DVITERBI_CELLOFF=1 -MD -MT src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o -MF CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o.d -o CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbialgorithm.cpp cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated/context_data.crf.h > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated/context_data.crf.h.tmp cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mv -f /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated/context_data.crf.h.tmp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated/context_data.crf.h [ 6%] Generating ../generated/context_data.lib.h cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mkdir -p /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/cmake/xxdi.pl context_data.lib > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated/context_data.lib.h [ 7%] Linking CXX static library libhhviterbialgorithm_with_celloff.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_with_celloff.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_with_celloff.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libhhviterbialgorithm_with_celloff.a CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o /usr/bin/x86_64-linux-gnu-ranlib libhhviterbialgorithm_with_celloff.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 7%] Built target hhviterbialgorithm_with_celloff make -f src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/DependInfo.cmake "--color=" hhviterbialgorithm_with_celloff_and_ss make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' make -f src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 8%] Building CXX object src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DVITERBI_CELLOFF=1 -DVITERBI_SS_SCORE=1 -MD -MT src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o -MF CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o.d -o CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbialgorithm.cpp cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated/context_data.lib.h > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated/context_data.lib.h.tmp cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mv -f /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated/context_data.lib.h.tmp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated/context_data.lib.h [ 9%] Generating ../generated/cs219.lib.h cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mkdir -p /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/cmake/xxdi.pl cs219.lib > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated/cs219.lib.h cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated/cs219.lib.h > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated/cs219.lib.h.tmp cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mv -f /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated/cs219.lib.h.tmp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated/cs219.lib.h make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 9%] Built target generated make -f src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_and_ss.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src/CMakeFiles/hhviterbialgorithm_and_ss.dir/DependInfo.cmake "--color=" hhviterbialgorithm_and_ss make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' make -f src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 10%] Building CXX object src/CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DVITERBI_SS_SCORE=1 -MD -MT src/CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o -MF CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o.d -o CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbialgorithm.cpp [ 11%] Linking CXX static library libhhviterbialgorithm_with_celloff_and_ss.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libhhviterbialgorithm_with_celloff_and_ss.a CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o /usr/bin/x86_64-linux-gnu-ranlib libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 11%] Built target hhviterbialgorithm_with_celloff_and_ss make -f src/cs/CMakeFiles/CS_OBJECTS.dir/build.make src/cs/CMakeFiles/CS_OBJECTS.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src/cs /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src/cs/CMakeFiles/CS_OBJECTS.dir/DependInfo.cmake "--color=" CS_OBJECTS make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' make -f src/cs/CMakeFiles/CS_OBJECTS.dir/build.make src/cs/CMakeFiles/CS_OBJECTS.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 12%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/aa.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/aa.cc.o -MF CMakeFiles/CS_OBJECTS.dir/aa.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/aa.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/aa.cc [ 13%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/as.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/as.cc.o -MF CMakeFiles/CS_OBJECTS.dir/as.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/as.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/as.cc [ 14%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o -MF CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/assert_helpers.cc [ 15%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o -MF CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/blosum_matrix.cc [ 16%] Linking CXX static library libhhviterbialgorithm_and_ss.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_and_ss.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_and_ss.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libhhviterbialgorithm_and_ss.a CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o /usr/bin/x86_64-linux-gnu-ranlib libhhviterbialgorithm_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 16%] Built target hhviterbialgorithm_and_ss make -f src/CMakeFiles/A3M_COMPRESS.dir/build.make src/CMakeFiles/A3M_COMPRESS.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src/CMakeFiles/A3M_COMPRESS.dir/DependInfo.cmake "--color=" A3M_COMPRESS make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' make -f src/CMakeFiles/A3M_COMPRESS.dir/build.make src/CMakeFiles/A3M_COMPRESS.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 16%] Building CXX object src/CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o -MF CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o.d -o CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_compress.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_compress.cpp: In function ‘std::string& rtrim(std::string&)’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_compress.cpp:504:43: warning: ‘std::pointer_to_unary_function<_Arg, _Result> std::ptr_fun(_Result (*)(_Arg)) [with _Arg = int; _Result = int]’ is deprecated: use 'std::function' instead [-Wdeprecated-declarations] 504 | std::not1(std::ptr_fun(std::isspace))).base(), s.end()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ In file included from /usr/include/c++/16/string:52, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/bits/ostream.h:43, from /usr/include/c++/16/ostream:42, from /usr/include/c++/16/iostream:43, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_compress.h:11, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_compress.cpp:8: /usr/include/c++/16/bits/stl_function.h:1214:5: note: declared here 1214 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ [ 17%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o -MF CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/getopt_pp.cc [ 18%] Linking CXX static library libA3M_COMPRESS.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/cmake -P CMakeFiles/A3M_COMPRESS.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/A3M_COMPRESS.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libA3M_COMPRESS.a CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o /usr/bin/x86_64-linux-gnu-ranlib libA3M_COMPRESS.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 18%] Built target A3M_COMPRESS make -f lib/ffindex/src/CMakeFiles/ffindex_apply.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_apply.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/lib/ffindex/src/CMakeFiles/ffindex_apply.dir/DependInfo.cmake "--color=" ffindex_apply make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' make -f lib/ffindex/src/CMakeFiles/ffindex_apply.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_apply.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 19%] Building C object lib/ffindex/src/CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -UHAVE_MPI -MD -MT lib/ffindex/src/CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o -MF CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o.d -o CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_apply_mpi.c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_apply_mpi.c: In function ‘ffindex_apply_by_entry’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_apply_mpi.c:172:53: warning: format ‘%lld’ expects argument of type ‘long long int’, but argument 6 has type ‘int64_t’ {aka ‘long int’} [-Wformat=] 172 | fprintf(log_file_out, "%s\t%ld\t%ld\t%lld\t%d\n", entry->name, entry->offset, entry->length, end - start, WEXITSTATUS(status)); | ~~~^ ~~~~~~~~~~~ | | | | long long int int64_t {aka long int} | %ld [ 20%] Linking C executable ffindex_apply cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_apply.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-gcc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ffindex_apply.dir/link.d CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o -o ffindex_apply libffindex.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 20%] Built target ffindex_apply make -f lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/DependInfo.cmake "--color=" ffindex_reduce make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' make -f lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 21%] Building C object lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o -MF CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o.d -o CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_reduce.c [ 22%] Linking C executable ffindex_reduce cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_reduce.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-gcc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ffindex_reduce.dir/link.d CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o -o ffindex_reduce libffindex.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 22%] Built target ffindex_reduce [ 23%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/log.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/log.cc.o -MF CMakeFiles/CS_OBJECTS.dir/log.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/log.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/log.cc make -f lib/ffindex/src/CMakeFiles/ffindex_build.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_build.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/lib/ffindex/src/CMakeFiles/ffindex_build.dir/DependInfo.cmake "--color=" ffindex_build make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' make -f lib/ffindex/src/CMakeFiles/ffindex_build.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_build.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 24%] Building C object lib/ffindex/src/CMakeFiles/ffindex_build.dir/ffindex_build.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex_build.dir/ffindex_build.c.o -MF CMakeFiles/ffindex_build.dir/ffindex_build.c.o.d -o CMakeFiles/ffindex_build.dir/ffindex_build.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_build.c [ 25%] Linking C executable ffindex_build cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_build.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-gcc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection 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-Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o -MF CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o.d -o CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_from_fasta.c [ 27%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/application.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/application.cc.o -MF CMakeFiles/CS_OBJECTS.dir/application.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/application.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/application.cc [ 28%] Linking C executable ffindex_from_fasta cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_from_fasta.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-gcc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ffindex_from_fasta.dir/link.d CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o -o 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/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/lib/ffindex/src/CMakeFiles/ffindex_modify.dir/DependInfo.cmake "--color=" ffindex_modify make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' make -f lib/ffindex/src/CMakeFiles/ffindex_modify.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_modify.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 31%] Building C object lib/ffindex/src/CMakeFiles/ffindex_modify.dir/ffindex_modify.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex_modify.dir/ffindex_modify.c.o -MF CMakeFiles/ffindex_modify.dir/ffindex_modify.c.o.d -o CMakeFiles/ffindex_modify.dir/ffindex_modify.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_modify.c [ 32%] Linking C executable ffindex_modify cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_modify.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-gcc 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-std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/ffindex_unpack.c.o -MF CMakeFiles/ffindex_unpack.dir/ffindex_unpack.c.o.d -o CMakeFiles/ffindex_unpack.dir/ffindex_unpack.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_unpack.c [ 34%] Linking C executable ffindex_unpack cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_unpack.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-gcc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ffindex_unpack.dir/link.d CMakeFiles/ffindex_unpack.dir/ffindex_unpack.c.o -o ffindex_unpack libffindex.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 34%] Built target ffindex_unpack make -f lib/ffindex/src/CMakeFiles/ffindex_order.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_order.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/lib/ffindex/src/CMakeFiles/ffindex_order.dir/DependInfo.cmake "--color=" ffindex_order make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' make -f 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lib/ffindex/src/CMakeFiles/ffindex_order.dir/ffindex_order.c.o -MF CMakeFiles/ffindex_order.dir/ffindex_order.c.o.d -o CMakeFiles/ffindex_order.dir/ffindex_order.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_order.c [ 36%] Linking C executable ffindex_order cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_order.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-gcc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ffindex_order.dir/link.d CMakeFiles/ffindex_order.dir/ffindex_order.c.o -o ffindex_order libffindex.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 36%] Built target ffindex_order make -f lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/DependInfo.cmake "--color=" ffindex_from_fasta_with_split make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' make -f lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 37%] Building C object lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/ffindex_from_fasta_with_split.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/ffindex_from_fasta_with_split.c.o -MF CMakeFiles/ffindex_from_fasta_with_split.dir/ffindex_from_fasta_with_split.c.o.d -o CMakeFiles/ffindex_from_fasta_with_split.dir/ffindex_from_fasta_with_split.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_from_fasta_with_split.c [ 38%] Linking CXX static library libCS_OBJECTS.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src/cs && /usr/bin/cmake -P CMakeFiles/CS_OBJECTS.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src/cs && /usr/bin/cmake -E cmake_link_script CMakeFiles/CS_OBJECTS.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libCS_OBJECTS.a CMakeFiles/CS_OBJECTS.dir/aa.cc.o CMakeFiles/CS_OBJECTS.dir/as.cc.o CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o CMakeFiles/CS_OBJECTS.dir/log.cc.o CMakeFiles/CS_OBJECTS.dir/application.cc.o /usr/bin/x86_64-linux-gnu-ranlib libCS_OBJECTS.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 38%] Built target CS_OBJECTS make -f src/CMakeFiles/a3m_extract-avx.dir/build.make src/CMakeFiles/a3m_extract-avx.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src/CMakeFiles/a3m_extract-avx.dir/DependInfo.cmake "--color=" a3m_extract-avx make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' make -f src/CMakeFiles/a3m_extract-avx.dir/build.make src/CMakeFiles/a3m_extract-avx.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 39%] Building CXX object src/CMakeFiles/a3m_extract-avx.dir/a3m_extract.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/a3m_extract-avx.dir/a3m_extract.cpp.o -MF CMakeFiles/a3m_extract-avx.dir/a3m_extract.cpp.o.d -o CMakeFiles/a3m_extract-avx.dir/a3m_extract.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_extract.cpp [ 40%] Linking C executable ffindex_from_fasta_with_split cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_from_fasta_with_split.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-gcc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ffindex_from_fasta_with_split.dir/link.d CMakeFiles/ffindex_from_fasta_with_split.dir/ffindex_from_fasta_with_split.c.o -o ffindex_from_fasta_with_split libffindex.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 40%] Built target ffindex_from_fasta_with_split make -f src/CMakeFiles/a3m_reduce-avx.dir/build.make src/CMakeFiles/a3m_reduce-avx.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src/CMakeFiles/a3m_reduce-avx.dir/DependInfo.cmake "--color=" a3m_reduce-avx make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' make -f src/CMakeFiles/a3m_reduce-avx.dir/build.make src/CMakeFiles/a3m_reduce-avx.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 41%] Building CXX object src/CMakeFiles/a3m_reduce-avx.dir/a3m_reduce.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/a3m_reduce-avx.dir/a3m_reduce.cpp.o -MF CMakeFiles/a3m_reduce-avx.dir/a3m_reduce.cpp.o.d -o CMakeFiles/a3m_reduce-avx.dir/a3m_reduce.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_reduce.cpp [ 42%] Linking CXX executable a3m_extract-avx cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_extract-avx.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/a3m_extract-avx.dir/link.d "CMakeFiles/a3m_extract-avx.dir/a3m_extract.cpp.o" -o a3m_extract-avx ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 42%] Built target a3m_extract-avx make -f src/CMakeFiles/a3m_database_reduce-avx.dir/build.make src/CMakeFiles/a3m_database_reduce-avx.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src/CMakeFiles/a3m_database_reduce-avx.dir/DependInfo.cmake "--color=" a3m_database_reduce-avx [ 43%] Linking CXX executable a3m_reduce-avx cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_reduce-avx.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' make -f src/CMakeFiles/a3m_database_reduce-avx.dir/build.make src/CMakeFiles/a3m_database_reduce-avx.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 44%] Building CXX object src/CMakeFiles/a3m_database_reduce-avx.dir/a3m_database_reduce.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/a3m_database_reduce-avx.dir/a3m_database_reduce.cpp.o -MF CMakeFiles/a3m_database_reduce-avx.dir/a3m_database_reduce.cpp.o.d -o CMakeFiles/a3m_database_reduce-avx.dir/a3m_database_reduce.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_database_reduce.cpp /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/a3m_reduce-avx.dir/link.d "CMakeFiles/a3m_reduce-avx.dir/a3m_reduce.cpp.o" -o a3m_reduce-avx ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 44%] Built target a3m_reduce-avx make -f src/CMakeFiles/a3m_database_extract-avx.dir/build.make src/CMakeFiles/a3m_database_extract-avx.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src/CMakeFiles/a3m_database_extract-avx.dir/DependInfo.cmake "--color=" a3m_database_extract-avx make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' make -f src/CMakeFiles/a3m_database_extract-avx.dir/build.make src/CMakeFiles/a3m_database_extract-avx.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 45%] Building CXX object src/CMakeFiles/a3m_database_extract-avx.dir/a3m_database_extract.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/a3m_database_extract-avx.dir/a3m_database_extract.cpp.o -MF CMakeFiles/a3m_database_extract-avx.dir/a3m_database_extract.cpp.o.d -o CMakeFiles/a3m_database_extract-avx.dir/a3m_database_extract.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_database_extract.cpp [ 46%] Linking CXX executable a3m_database_reduce-avx cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_reduce-avx.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/a3m_database_reduce-avx.dir/link.d "CMakeFiles/a3m_database_reduce-avx.dir/a3m_database_reduce.cpp.o" -o a3m_database_reduce-avx ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 46%] Built target a3m_database_reduce-avx make -f src/CMakeFiles/a3m_database_filter-avx.dir/build.make 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/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_database_filter.cpp [ 48%] Linking CXX executable a3m_database_extract-avx cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_extract-avx.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/a3m_database_extract-avx.dir/link.d "CMakeFiles/a3m_database_extract-avx.dir/a3m_database_extract.cpp.o" -o a3m_database_extract-avx ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 48%] Built target a3m_database_extract-avx make -f src/CMakeFiles/HH_OBJECTS.dir/build.make src/CMakeFiles/HH_OBJECTS.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src/CMakeFiles/HH_OBJECTS.dir/DependInfo.cmake "--color=" HH_OBJECTS make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' make -f src/CMakeFiles/HH_OBJECTS.dir/build.make src/CMakeFiles/HH_OBJECTS.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 49%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits.cpp [ 50%] Linking CXX executable a3m_database_filter-avx cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_filter-avx.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/a3m_database_filter-avx.dir/link.d "CMakeFiles/a3m_database_filter-avx.dir/a3m_database_filter.cpp.o" -o a3m_database_filter-avx ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 50%] Built target a3m_database_filter-avx [ 51%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhdecl.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && 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cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhhit.cpp [ 53%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o.d -o 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src/CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhsearch.cpp [ 55%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 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-DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhhitlist.cpp [ 57%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhposteriordecoder.cpp [ 58%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhutil.cpp [ 59%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/util.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/util.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/util.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/util.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/util.cpp [ 60%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.cpp [ 61%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhforwardalgorithm.cpp [ 62%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhhmm.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.cpp: In member function ‘int Alignment::Filter2(char*, int, int, float, int, int, int, const float (*)[20])’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.cpp:1797:39: warning: ‘%s’ directive writing up to 4095 bytes into a region of size 86 [-Wformat-overflow=] 1797 | sprintf(details, "The alingment %s does not contain any sequences.", | ^~ In file included from /usr/include/stdio.h:974, from /usr/include/c++/16/cstdio:47, from /usr/include/c++/16/ext/string_conversions.h:47, from /usr/include/c++/16/bits/basic_string.h:4499, from /usr/include/c++/16/string:58, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/istream:42, from /usr/include/c++/16/fstream:42, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.h:6, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.cpp:8: In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘int Alignment::Filter2(char*, int, int, float, int, int, int, const float (*)[20])’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.cpp:1797:14: /usr/include/x86_64-linux-gnu/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 47 and 4142 bytes into a destination of size 100 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 63%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhposteriordecoderrunner.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhposteriordecoderrunner.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhposteriordecoderrunner.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhposteriordecoderrunner.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhposteriordecoderrunner.cpp [ 64%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbialgorithm.cpp [ 65%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhfullalignment.cpp [ 66%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhhmmsimd.cpp [ 67%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhposteriormatrix.cpp [ 68%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbi.cpp [ 69%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhbacktracemac.cpp [ 70%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhmacalgorithm.cpp [ 71%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhprefilter.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhprefilter.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhprefilter.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhprefilter.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhprefilter.cpp [ 72%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbimatrix.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated 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-DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhhalfalignment.cpp [ 77%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbirunner.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhviterbirunner.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhviterbirunner.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhviterbirunner.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbirunner.cpp [ 78%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhfunc.cpp [ 79%] Linking CXX static library libHH_OBJECTS.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/cmake -P CMakeFiles/HH_OBJECTS.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/HH_OBJECTS.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libHH_OBJECTS.a CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o CMakeFiles/HH_OBJECTS.dir/hhdecl.cpp.o CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o CMakeFiles/HH_OBJECTS.dir/util.cpp.o CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o CMakeFiles/HH_OBJECTS.dir/hhposteriordecoderrunner.cpp.o CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o CMakeFiles/HH_OBJECTS.dir/hhprefilter.cpp.o CMakeFiles/HH_OBJECTS.dir/hhviterbimatrix.cpp.o CMakeFiles/HH_OBJECTS.dir/hhbackwardalgorithm.cpp.o CMakeFiles/HH_OBJECTS.dir/ffindexdatabase.cpp.o CMakeFiles/HH_OBJECTS.dir/hhdatabase.cpp.o CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o CMakeFiles/HH_OBJECTS.dir/hhviterbirunner.cpp.o CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o /usr/bin/x86_64-linux-gnu-ranlib libHH_OBJECTS.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 79%] Built target HH_OBJECTS make -f src/CMakeFiles/hhblits-avx.dir/build.make src/CMakeFiles/hhblits-avx.dir/depend make -f src/CMakeFiles/hhmake-avx.dir/build.make src/CMakeFiles/hhmake-avx.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src 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libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 84%] Built target hhmake-avx make -f src/CMakeFiles/hhsearch-avx.dir/build.make src/CMakeFiles/hhsearch-avx.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src/CMakeFiles/hhsearch-avx.dir/DependInfo.cmake "--color=" hhsearch-avx make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' make -f src/CMakeFiles/hhsearch-avx.dir/build.make src/CMakeFiles/hhsearch-avx.dir/build make[4]: Entering directory 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"CMakeFiles/hhsearch-avx.dir/hhblits_app.cpp.o" -o hhsearch-avx libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 87%] Built target hhsearch-avx make -f src/CMakeFiles/hhalign-avx.dir/build.make src/CMakeFiles/hhalign-avx.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src/CMakeFiles/hhalign-avx.dir/DependInfo.cmake "--color=" hhalign-avx make[4]: Leaving directory 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make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 88%] Built target hhfilter-avx make -f src/CMakeFiles/hhconsensus-avx.dir/build.make src/CMakeFiles/hhconsensus-avx.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src/CMakeFiles/hhconsensus-avx.dir/DependInfo.cmake "--color=" hhconsensus-avx make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' make -f src/CMakeFiles/hhconsensus-avx.dir/build.make src/CMakeFiles/hhconsensus-avx.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 89%] Building CXX object 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src/CMakeFiles/cstranslate-avx.dir/cs/cstranslate_app.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/cstranslate-avx.dir/cs/cstranslate_app.cc.o -MF CMakeFiles/cstranslate-avx.dir/cs/cstranslate_app.cc.o.d -o CMakeFiles/cstranslate-avx.dir/cs/cstranslate_app.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/cstranslate_app.cc [ 92%] Linking CXX executable hhconsensus-avx cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhconsensus-avx.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhconsensus-avx.dir/link.d "CMakeFiles/hhconsensus-avx.dir/hhconsensus.cpp.o" -o hhconsensus-avx libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 92%] Built target hhconsensus-avx make -f src/CMakeFiles/hhblits_omp-avx.dir/build.make src/CMakeFiles/hhblits_omp-avx.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src/CMakeFiles/hhblits_omp-avx.dir/DependInfo.cmake "--color=" hhblits_omp-avx make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' make -f src/CMakeFiles/hhblits_omp-avx.dir/build.make src/CMakeFiles/hhblits_omp-avx.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 93%] Building CXX object src/CMakeFiles/hhblits_omp-avx.dir/hhblits_omp.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/hhblits_omp-avx.dir/hhblits_omp.cpp.o -MF CMakeFiles/hhblits_omp-avx.dir/hhblits_omp.cpp.o.d -o CMakeFiles/hhblits_omp-avx.dir/hhblits_omp.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:51: warning: ‘.ffindex’ directive output may be truncated writing 8 bytes into a region of size between 1 and 4096 [-Wformat-truncation=] 26 | snprintf(index_filename, FILENAME_MAX, "%s.ffindex", base); | ^~~~~~~~ In file included from /usr/include/stdio.h:974, from /usr/include/c++/16/cstdio:47, from /usr/include/c++/16/ext/string_conversions.h:47, from /usr/include/c++/16/bits/basic_string.h:4499, from /usr/include/c++/16/string:58, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/istream:42, from /usr/include/c++/16/fstream:42, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits.h:11, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhsearch.h:34, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 94%] Linking CXX executable hhblits_omp-avx cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhblits_omp-avx.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhblits_omp-avx.dir/link.d "CMakeFiles/hhblits_omp-avx.dir/hhblits_omp.cpp.o" -o hhblits_omp-avx libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 94%] Built target hhblits_omp-avx make -f src/CMakeFiles/hhsearch_omp-avx.dir/build.make src/CMakeFiles/hhsearch_omp-avx.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src/CMakeFiles/hhsearch_omp-avx.dir/DependInfo.cmake "--color=" hhsearch_omp-avx make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' make -f src/CMakeFiles/hhsearch_omp-avx.dir/build.make src/CMakeFiles/hhsearch_omp-avx.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 95%] Building CXX object src/CMakeFiles/hhsearch_omp-avx.dir/hhblits_omp.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DHHSEARCH=1 -MD -MT src/CMakeFiles/hhsearch_omp-avx.dir/hhblits_omp.cpp.o -MF CMakeFiles/hhsearch_omp-avx.dir/hhblits_omp.cpp.o.d -o CMakeFiles/hhsearch_omp-avx.dir/hhblits_omp.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:51: warning: ‘.ffindex’ directive output may be truncated writing 8 bytes into a region of size between 1 and 4096 [-Wformat-truncation=] 26 | snprintf(index_filename, FILENAME_MAX, "%s.ffindex", base); | ^~~~~~~~ In file included from /usr/include/stdio.h:974, from /usr/include/c++/16/cstdio:47, from /usr/include/c++/16/ext/string_conversions.h:47, from /usr/include/c++/16/bits/basic_string.h:4499, from /usr/include/c++/16/string:58, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/istream:42, from /usr/include/c++/16/fstream:42, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits.h:11, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhsearch.h:34, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 96%] Linking CXX executable hhsearch_omp-avx cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhsearch_omp-avx.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhsearch_omp-avx.dir/link.d "CMakeFiles/hhsearch_omp-avx.dir/hhblits_omp.cpp.o" -o hhsearch_omp-avx libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 96%] Built target hhsearch_omp-avx make -f src/CMakeFiles/hhalign_omp-avx.dir/build.make src/CMakeFiles/hhalign_omp-avx.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src/CMakeFiles/hhalign_omp-avx.dir/DependInfo.cmake "--color=" hhalign_omp-avx make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' make -f src/CMakeFiles/hhalign_omp-avx.dir/build.make src/CMakeFiles/hhalign_omp-avx.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 97%] Building CXX object src/CMakeFiles/hhalign_omp-avx.dir/hhblits_omp.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DHHALIGN=1 -MD -MT src/CMakeFiles/hhalign_omp-avx.dir/hhblits_omp.cpp.o -MF CMakeFiles/hhalign_omp-avx.dir/hhblits_omp.cpp.o.d -o CMakeFiles/hhalign_omp-avx.dir/hhblits_omp.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:51: warning: ‘.ffindex’ directive output may be truncated writing 8 bytes into a region of size between 1 and 4096 [-Wformat-truncation=] 26 | snprintf(index_filename, FILENAME_MAX, "%s.ffindex", base); | ^~~~~~~~ In file included from /usr/include/stdio.h:974, from /usr/include/c++/16/cstdio:47, from /usr/include/c++/16/ext/string_conversions.h:47, from /usr/include/c++/16/bits/basic_string.h:4499, from /usr/include/c++/16/string:58, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/istream:42, from /usr/include/c++/16/fstream:42, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits.h:11, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhsearch.h:34, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 98%] Linking CXX executable hhalign_omp-avx cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhalign_omp-avx.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhalign_omp-avx.dir/link.d "CMakeFiles/hhalign_omp-avx.dir/hhblits_omp.cpp.o" -o hhalign_omp-avx libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 98%] Built target hhalign_omp-avx make -f src/CMakeFiles/hhblits_ca3m-avx.dir/build.make src/CMakeFiles/hhblits_ca3m-avx.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src/CMakeFiles/hhblits_ca3m-avx.dir/DependInfo.cmake "--color=" hhblits_ca3m-avx make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' make -f src/CMakeFiles/hhblits_ca3m-avx.dir/build.make src/CMakeFiles/hhblits_ca3m-avx.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 99%] Building CXX object src/CMakeFiles/hhblits_ca3m-avx.dir/hhblits_ca3m.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/hhblits_ca3m-avx.dir/hhblits_ca3m.cpp.o -MF CMakeFiles/hhblits_ca3m-avx.dir/hhblits_ca3m.cpp.o.d -o CMakeFiles/hhblits_ca3m-avx.dir/hhblits_ca3m.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp [ 99%] Linking CXX executable cstranslate-avx cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/cstranslate-avx.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/cstranslate-avx.dir/link.d "CMakeFiles/cstranslate-avx.dir/cs/cstranslate_app.cc.o" -o cstranslate-avx libHH_OBJECTS.a libA3M_COMPRESS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [ 99%] Built target cstranslate-avx /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp: In function ‘int main(int, const char**)’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp:24:49: warning: ‘.ffindex’ directive output may be truncated writing 8 bytes into a region of size between 1 and 4096 [-Wformat-truncation=] 24 | snprintf(index_filename, FILENAME_MAX, "%s.ffindex", base); | ^~~~~~~~ In file included from /usr/include/stdio.h:974, from /usr/include/c++/16/cstdio:47, from /usr/include/c++/16/ext/string_conversions.h:47, from /usr/include/c++/16/bits/basic_string.h:4499, from /usr/include/c++/16/string:58, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/istream:42, from /usr/include/c++/16/fstream:42, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits.h:11, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp:24:15, inlined from ‘int main(int, const char**)’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp:358:29: /usr/include/x86_64-linux-gnu/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [100%] Linking CXX executable hhblits_ca3m-avx cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhblits_ca3m-avx.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mavx -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhblits_ca3m-avx.dir/link.d "CMakeFiles/hhblits_ca3m-avx.dir/hhblits_ca3m.cpp.o" -o hhblits_ca3m-avx libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' [100%] Built target hhblits_ca3m-avx make[3]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' /usr/bin/cmake -E cmake_progress_start /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx/CMakeFiles 0 make[2]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' cd build_sse4.1 && make -j2 INSTALL="install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' /usr/bin/cmake -S/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds -B/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/CMakeFiles /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' make -f lib/ffindex/src/CMakeFiles/ffindex.dir/build.make lib/ffindex/src/CMakeFiles/ffindex.dir/depend make -f data/CMakeFiles/generated.dir/build.make data/CMakeFiles/generated.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/lib/ffindex/src/CMakeFiles/ffindex.dir/DependInfo.cmake "--color=" ffindex make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/data 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-I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex.dir/ffindex.c.o -MF CMakeFiles/ffindex.dir/ffindex.c.o.d -o CMakeFiles/ffindex.dir/ffindex.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex.c cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mkdir -p /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/cmake/xxdi.pl context_data.crf > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated/context_data.crf.h [ 3%] Building C object lib/ffindex/src/CMakeFiles/ffindex.dir/ffutil.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex.dir/ffutil.c.o -MF CMakeFiles/ffindex.dir/ffutil.c.o.d -o CMakeFiles/ffindex.dir/ffutil.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffutil.c [ 4%] Linking C static library libffindex.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/lib/ffindex/src && /usr/bin/cmake -P CMakeFiles/ffindex.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libffindex.a CMakeFiles/ffindex.dir/ffindex.c.o CMakeFiles/ffindex.dir/ffutil.c.o /usr/bin/x86_64-linux-gnu-ranlib libffindex.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 4%] Built target ffindex make -f src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/DependInfo.cmake "--color=" hhviterbialgorithm_with_celloff make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' make -f src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 5%] Building CXX object src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DVITERBI_CELLOFF=1 -MD -MT src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o -MF CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o.d -o CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbialgorithm.cpp [ 6%] Linking CXX static library libhhviterbialgorithm_with_celloff.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_with_celloff.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_with_celloff.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libhhviterbialgorithm_with_celloff.a CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o /usr/bin/x86_64-linux-gnu-ranlib libhhviterbialgorithm_with_celloff.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 6%] Built target hhviterbialgorithm_with_celloff make -f src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/DependInfo.cmake "--color=" hhviterbialgorithm_with_celloff_and_ss make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' make -f src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 7%] Building CXX object src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DVITERBI_CELLOFF=1 -DVITERBI_SS_SCORE=1 -MD -MT src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o -MF CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o.d -o CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbialgorithm.cpp cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated/context_data.crf.h > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated/context_data.crf.h.tmp cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mv -f /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated/context_data.crf.h.tmp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated/context_data.crf.h [ 8%] Generating ../generated/context_data.lib.h cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mkdir -p /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/cmake/xxdi.pl context_data.lib > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated/context_data.lib.h [ 9%] Linking CXX static library libhhviterbialgorithm_with_celloff_and_ss.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libhhviterbialgorithm_with_celloff_and_ss.a CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o /usr/bin/x86_64-linux-gnu-ranlib libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 9%] Built target hhviterbialgorithm_with_celloff_and_ss make -f src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_and_ss.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src/CMakeFiles/hhviterbialgorithm_and_ss.dir/DependInfo.cmake "--color=" hhviterbialgorithm_and_ss make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' make -f src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 10%] Building CXX object src/CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DVITERBI_SS_SCORE=1 -MD -MT src/CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o -MF CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o.d -o CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbialgorithm.cpp cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated/context_data.lib.h > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated/context_data.lib.h.tmp [ 11%] Linking CXX static library libhhviterbialgorithm_and_ss.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_and_ss.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mv -f /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated/context_data.lib.h.tmp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated/context_data.lib.h cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_and_ss.dir/link.txt --verbose=1 [ 12%] Generating ../generated/cs219.lib.h cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mkdir -p /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/cmake/xxdi.pl cs219.lib > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated/cs219.lib.h /usr/bin/x86_64-linux-gnu-ar qc libhhviterbialgorithm_and_ss.a CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o /usr/bin/x86_64-linux-gnu-ranlib libhhviterbialgorithm_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated/cs219.lib.h > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated/cs219.lib.h.tmp cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mv -f /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated/cs219.lib.h.tmp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated/cs219.lib.h make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 12%] Built target hhviterbialgorithm_and_ss make -f src/cs/CMakeFiles/CS_OBJECTS.dir/build.make src/cs/CMakeFiles/CS_OBJECTS.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src/cs /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src/cs/CMakeFiles/CS_OBJECTS.dir/DependInfo.cmake "--color=" CS_OBJECTS [ 12%] Built target generated make -f src/CMakeFiles/A3M_COMPRESS.dir/build.make src/CMakeFiles/A3M_COMPRESS.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src/CMakeFiles/A3M_COMPRESS.dir/DependInfo.cmake "--color=" A3M_COMPRESS make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' make -f src/cs/CMakeFiles/CS_OBJECTS.dir/build.make src/cs/CMakeFiles/CS_OBJECTS.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 13%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/aa.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/aa.cc.o -MF CMakeFiles/CS_OBJECTS.dir/aa.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/aa.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/aa.cc make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' make -f src/CMakeFiles/A3M_COMPRESS.dir/build.make src/CMakeFiles/A3M_COMPRESS.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 13%] Building CXX object src/CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o -MF CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o.d -o CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_compress.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_compress.cpp: In function ‘std::string& rtrim(std::string&)’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_compress.cpp:504:43: warning: ‘std::pointer_to_unary_function<_Arg, _Result> std::ptr_fun(_Result (*)(_Arg)) [with _Arg = int; _Result = int]’ is deprecated: use 'std::function' instead [-Wdeprecated-declarations] 504 | std::not1(std::ptr_fun(std::isspace))).base(), s.end()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ In file included from /usr/include/c++/16/string:52, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/bits/ostream.h:43, from /usr/include/c++/16/ostream:42, from /usr/include/c++/16/iostream:43, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_compress.h:11, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_compress.cpp:8: /usr/include/c++/16/bits/stl_function.h:1214:5: note: declared here 1214 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ [ 14%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/as.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/as.cc.o -MF CMakeFiles/CS_OBJECTS.dir/as.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/as.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/as.cc [ 15%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o -MF CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/assert_helpers.cc [ 16%] Linking CXX static library libA3M_COMPRESS.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/cmake -P CMakeFiles/A3M_COMPRESS.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/A3M_COMPRESS.dir/link.txt --verbose=1 [ 17%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o -MF CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/blosum_matrix.cc /usr/bin/x86_64-linux-gnu-ar qc libA3M_COMPRESS.a CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o /usr/bin/x86_64-linux-gnu-ranlib libA3M_COMPRESS.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 17%] Built target A3M_COMPRESS make -f lib/ffindex/src/CMakeFiles/ffindex_apply.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_apply.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/lib/ffindex/src/CMakeFiles/ffindex_apply.dir/DependInfo.cmake "--color=" ffindex_apply make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' make -f lib/ffindex/src/CMakeFiles/ffindex_apply.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_apply.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 18%] Building C object lib/ffindex/src/CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -UHAVE_MPI -MD -MT lib/ffindex/src/CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o -MF CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o.d -o CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_apply_mpi.c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_apply_mpi.c: In function ‘ffindex_apply_by_entry’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_apply_mpi.c:172:53: warning: format ‘%lld’ expects argument of type ‘long long int’, but argument 6 has type ‘int64_t’ {aka ‘long int’} [-Wformat=] 172 | fprintf(log_file_out, "%s\t%ld\t%ld\t%lld\t%d\n", entry->name, entry->offset, entry->length, end - start, WEXITSTATUS(status)); | ~~~^ ~~~~~~~~~~~ | | | | long long int int64_t {aka long int} | %ld [ 19%] Linking C executable ffindex_apply cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_apply.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-gcc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ffindex_apply.dir/link.d CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o -o ffindex_apply libffindex.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 19%] Built target ffindex_apply make -f lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/DependInfo.cmake "--color=" ffindex_reduce make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' make -f lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 20%] Building C object lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o -MF CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o.d -o CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_reduce.c [ 21%] Linking C executable ffindex_reduce cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_reduce.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-gcc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ffindex_reduce.dir/link.d CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o -o ffindex_reduce libffindex.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 21%] Built target ffindex_reduce make -f lib/ffindex/src/CMakeFiles/ffindex_build.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_build.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/lib/ffindex/src/CMakeFiles/ffindex_build.dir/DependInfo.cmake "--color=" ffindex_build make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' make -f lib/ffindex/src/CMakeFiles/ffindex_build.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_build.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 22%] Building C object lib/ffindex/src/CMakeFiles/ffindex_build.dir/ffindex_build.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex_build.dir/ffindex_build.c.o -MF CMakeFiles/ffindex_build.dir/ffindex_build.c.o.d -o CMakeFiles/ffindex_build.dir/ffindex_build.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_build.c [ 23%] Linking C executable ffindex_build cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_build.dir/link.txt --verbose=1 [ 24%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o -MF CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/getopt_pp.cc /usr/bin/x86_64-linux-gnu-gcc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ffindex_build.dir/link.d CMakeFiles/ffindex_build.dir/ffindex_build.c.o -o ffindex_build libffindex.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 24%] Built target ffindex_build make -f lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/DependInfo.cmake "--color=" ffindex_from_fasta make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' make -f lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 25%] Building C object lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o -MF CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o.d -o CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_from_fasta.c [ 26%] Linking C executable ffindex_from_fasta cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_from_fasta.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-gcc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ffindex_from_fasta.dir/link.d CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o -o ffindex_from_fasta libffindex.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 26%] Built target ffindex_from_fasta make -f lib/ffindex/src/CMakeFiles/ffindex_get.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_get.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 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-std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex_get.dir/ffindex_get.c.o -MF CMakeFiles/ffindex_get.dir/ffindex_get.c.o.d -o CMakeFiles/ffindex_get.dir/ffindex_get.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_get.c [ 28%] Linking C executable ffindex_get cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_get.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-gcc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now 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lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/ffindex_unpack.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/ffindex_unpack.c.o -MF CMakeFiles/ffindex_unpack.dir/ffindex_unpack.c.o.d -o CMakeFiles/ffindex_unpack.dir/ffindex_unpack.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_unpack.c [ 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-I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex_order.dir/ffindex_order.c.o -MF CMakeFiles/ffindex_order.dir/ffindex_order.c.o.d -o CMakeFiles/ffindex_order.dir/ffindex_order.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_order.c [ 34%] Linking C executable ffindex_order cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_order.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-gcc -std=c99 -g 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-I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/ffindex_from_fasta_with_split.c.o -MF CMakeFiles/ffindex_from_fasta_with_split.dir/ffindex_from_fasta_with_split.c.o.d -o CMakeFiles/ffindex_from_fasta_with_split.dir/ffindex_from_fasta_with_split.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_from_fasta_with_split.c [ 36%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/log.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/log.cc.o -MF CMakeFiles/CS_OBJECTS.dir/log.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/log.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/log.cc [ 37%] Linking C executable ffindex_from_fasta_with_split cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_from_fasta_with_split.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-gcc 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-I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/application.cc.o -MF CMakeFiles/CS_OBJECTS.dir/application.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/application.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/application.cc make -f src/CMakeFiles/a3m_extract-sse4.1.dir/build.make src/CMakeFiles/a3m_extract-sse4.1.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src/CMakeFiles/a3m_extract-sse4.1.dir/DependInfo.cmake "--color=" a3m_extract-sse4.1 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' make -f src/CMakeFiles/a3m_extract-sse4.1.dir/build.make src/CMakeFiles/a3m_extract-sse4.1.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 39%] Building CXX object src/CMakeFiles/a3m_extract-sse4.1.dir/a3m_extract.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/a3m_extract-sse4.1.dir/a3m_extract.cpp.o -MF CMakeFiles/a3m_extract-sse4.1.dir/a3m_extract.cpp.o.d -o CMakeFiles/a3m_extract-sse4.1.dir/a3m_extract.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_extract.cpp [ 40%] Linking CXX static library libCS_OBJECTS.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src/cs && /usr/bin/cmake -P CMakeFiles/CS_OBJECTS.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src/cs && /usr/bin/cmake -E cmake_link_script CMakeFiles/CS_OBJECTS.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libCS_OBJECTS.a CMakeFiles/CS_OBJECTS.dir/aa.cc.o CMakeFiles/CS_OBJECTS.dir/as.cc.o CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o CMakeFiles/CS_OBJECTS.dir/log.cc.o CMakeFiles/CS_OBJECTS.dir/application.cc.o /usr/bin/x86_64-linux-gnu-ranlib libCS_OBJECTS.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 41%] Linking CXX executable a3m_extract-sse4.1 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_extract-sse4.1.dir/link.txt --verbose=1 [ 41%] Built target CS_OBJECTS make -f src/CMakeFiles/a3m_reduce-sse4.1.dir/build.make src/CMakeFiles/a3m_reduce-sse4.1.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src/CMakeFiles/a3m_reduce-sse4.1.dir/DependInfo.cmake "--color=" a3m_reduce-sse4.1 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' make -f src/CMakeFiles/a3m_reduce-sse4.1.dir/build.make src/CMakeFiles/a3m_reduce-sse4.1.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 42%] Building CXX object src/CMakeFiles/a3m_reduce-sse4.1.dir/a3m_reduce.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/a3m_reduce-sse4.1.dir/a3m_reduce.cpp.o -MF CMakeFiles/a3m_reduce-sse4.1.dir/a3m_reduce.cpp.o.d -o CMakeFiles/a3m_reduce-sse4.1.dir/a3m_reduce.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_reduce.cpp /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/a3m_extract-sse4.1.dir/link.d "CMakeFiles/a3m_extract-sse4.1.dir/a3m_extract.cpp.o" -o a3m_extract-sse4.1 ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 42%] Built target a3m_extract-sse4.1 make -f src/CMakeFiles/a3m_database_reduce-sse4.1.dir/build.make src/CMakeFiles/a3m_database_reduce-sse4.1.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src/CMakeFiles/a3m_database_reduce-sse4.1.dir/DependInfo.cmake "--color=" a3m_database_reduce-sse4.1 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' make -f src/CMakeFiles/a3m_database_reduce-sse4.1.dir/build.make src/CMakeFiles/a3m_database_reduce-sse4.1.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 43%] Building CXX object src/CMakeFiles/a3m_database_reduce-sse4.1.dir/a3m_database_reduce.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/a3m_database_reduce-sse4.1.dir/a3m_database_reduce.cpp.o -MF CMakeFiles/a3m_database_reduce-sse4.1.dir/a3m_database_reduce.cpp.o.d -o CMakeFiles/a3m_database_reduce-sse4.1.dir/a3m_database_reduce.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_database_reduce.cpp [ 44%] Linking CXX executable a3m_reduce-sse4.1 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_reduce-sse4.1.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/a3m_reduce-sse4.1.dir/link.d "CMakeFiles/a3m_reduce-sse4.1.dir/a3m_reduce.cpp.o" -o a3m_reduce-sse4.1 ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 44%] Built target a3m_reduce-sse4.1 make -f src/CMakeFiles/a3m_database_extract-sse4.1.dir/build.make src/CMakeFiles/a3m_database_extract-sse4.1.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src/CMakeFiles/a3m_database_extract-sse4.1.dir/DependInfo.cmake "--color=" a3m_database_extract-sse4.1 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' make -f src/CMakeFiles/a3m_database_extract-sse4.1.dir/build.make src/CMakeFiles/a3m_database_extract-sse4.1.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 45%] Building CXX object src/CMakeFiles/a3m_database_extract-sse4.1.dir/a3m_database_extract.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/a3m_database_extract-sse4.1.dir/a3m_database_extract.cpp.o -MF CMakeFiles/a3m_database_extract-sse4.1.dir/a3m_database_extract.cpp.o.d -o CMakeFiles/a3m_database_extract-sse4.1.dir/a3m_database_extract.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_database_extract.cpp [ 46%] Linking CXX executable a3m_database_reduce-sse4.1 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_reduce-sse4.1.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/a3m_database_reduce-sse4.1.dir/link.d "CMakeFiles/a3m_database_reduce-sse4.1.dir/a3m_database_reduce.cpp.o" -o a3m_database_reduce-sse4.1 ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 46%] Built target a3m_database_reduce-sse4.1 make -f src/CMakeFiles/a3m_database_filter-sse4.1.dir/build.make src/CMakeFiles/a3m_database_filter-sse4.1.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src/CMakeFiles/a3m_database_filter-sse4.1.dir/DependInfo.cmake "--color=" a3m_database_filter-sse4.1 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' make -f src/CMakeFiles/a3m_database_filter-sse4.1.dir/build.make src/CMakeFiles/a3m_database_filter-sse4.1.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 47%] Building CXX object src/CMakeFiles/a3m_database_filter-sse4.1.dir/a3m_database_filter.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/a3m_database_filter-sse4.1.dir/a3m_database_filter.cpp.o -MF CMakeFiles/a3m_database_filter-sse4.1.dir/a3m_database_filter.cpp.o.d -o CMakeFiles/a3m_database_filter-sse4.1.dir/a3m_database_filter.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_database_filter.cpp [ 48%] Linking CXX executable a3m_database_extract-sse4.1 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_extract-sse4.1.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/a3m_database_extract-sse4.1.dir/link.d "CMakeFiles/a3m_database_extract-sse4.1.dir/a3m_database_extract.cpp.o" -o a3m_database_extract-sse4.1 ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 48%] Built target a3m_database_extract-sse4.1 make -f src/CMakeFiles/HH_OBJECTS.dir/build.make src/CMakeFiles/HH_OBJECTS.dir/depend make[4]: 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-I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits.cpp [ 50%] Linking CXX executable a3m_database_filter-sse4.1 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script 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src/CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhsearch.cpp [ 55%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time 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-fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhposteriordecoder.cpp [ 58%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhutil.cpp [ 59%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/util.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/util.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/util.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/util.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/util.cpp [ 60%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.cpp [ 61%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && 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Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhhmm.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.cpp: In member function ‘int Alignment::Filter2(char*, int, int, float, int, int, int, const float (*)[20])’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.cpp:1797:39: warning: ‘%s’ directive writing up to 4095 bytes into a region of size 86 [-Wformat-overflow=] 1797 | sprintf(details, "The alingment %s does not contain any sequences.", | ^~ In file included from /usr/include/stdio.h:974, from /usr/include/c++/16/cstdio:47, from /usr/include/c++/16/ext/string_conversions.h:47, from /usr/include/c++/16/bits/basic_string.h:4499, from /usr/include/c++/16/string:58, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/istream:42, from /usr/include/c++/16/fstream:42, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.h:6, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.cpp:8: In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘int Alignment::Filter2(char*, int, int, float, int, int, int, const float (*)[20])’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.cpp:1797:14: /usr/include/x86_64-linux-gnu/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 47 and 4142 bytes into a destination of size 100 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 63%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhposteriordecoderrunner.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src 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src/CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhfullalignment.cpp [ 66%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 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-Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhposteriormatrix.cpp [ 68%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 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-I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhbacktracemac.cpp [ 70%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhmacalgorithm.cpp [ 71%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhprefilter.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhprefilter.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhprefilter.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhprefilter.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhprefilter.cpp [ 72%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbimatrix.cpp.o 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-fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/ffindexdatabase.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/ffindexdatabase.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/ffindexdatabase.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/ffindexdatabase.cpp [ 75%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhdatabase.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhdatabase.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhdatabase.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhdatabase.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhdatabase.cpp [ 76%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhhalfalignment.cpp [ 77%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbirunner.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src 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/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/cmake -P CMakeFiles/HH_OBJECTS.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/HH_OBJECTS.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libHH_OBJECTS.a CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o CMakeFiles/HH_OBJECTS.dir/hhdecl.cpp.o CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o CMakeFiles/HH_OBJECTS.dir/util.cpp.o CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o CMakeFiles/HH_OBJECTS.dir/hhposteriordecoderrunner.cpp.o CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o 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make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src/CMakeFiles/hhmake-sse4.1.dir/DependInfo.cmake "--color=" hhmake-sse4.1 make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src/CMakeFiles/hhblits-sse4.1.dir/DependInfo.cmake "--color=" hhblits-sse4.1 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' make -f src/CMakeFiles/hhmake-sse4.1.dir/build.make src/CMakeFiles/hhmake-sse4.1.dir/build make -f src/CMakeFiles/hhblits-sse4.1.dir/build.make src/CMakeFiles/hhblits-sse4.1.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 80%] Building CXX object src/CMakeFiles/hhmake-sse4.1.dir/hhmake.cpp.o [ 81%] Building CXX object src/CMakeFiles/hhblits-sse4.1.dir/hhblits_app.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde 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-I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/hhblits-sse4.1.dir/hhblits_app.cpp.o -MF CMakeFiles/hhblits-sse4.1.dir/hhblits_app.cpp.o.d -o CMakeFiles/hhblits-sse4.1.dir/hhblits_app.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_app.cpp [ 82%] Linking CXX executable hhblits-sse4.1 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhblits-sse4.1.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 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--verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhmake-sse4.1.dir/link.d "CMakeFiles/hhmake-sse4.1.dir/hhmake.cpp.o" -o hhmake-sse4.1 libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 84%] Built target hhmake-sse4.1 make -f src/CMakeFiles/hhsearch-sse4.1.dir/build.make src/CMakeFiles/hhsearch-sse4.1.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' cd 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src/CMakeFiles/hhalign-sse4.1.dir/hhblits_app.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DHHALIGN=1 -MD -MT src/CMakeFiles/hhalign-sse4.1.dir/hhblits_app.cpp.o -MF CMakeFiles/hhalign-sse4.1.dir/hhblits_app.cpp.o.d -o 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/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/cstranslate_app.cc [ 92%] Linking CXX executable hhconsensus-sse4.1 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhconsensus-sse4.1.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhconsensus-sse4.1.dir/link.d "CMakeFiles/hhconsensus-sse4.1.dir/hhconsensus.cpp.o" -o hhconsensus-sse4.1 libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 92%] Built target hhconsensus-sse4.1 make -f src/CMakeFiles/hhblits_omp-sse4.1.dir/build.make src/CMakeFiles/hhblits_omp-sse4.1.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src/CMakeFiles/hhblits_omp-sse4.1.dir/DependInfo.cmake "--color=" hhblits_omp-sse4.1 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' make -f src/CMakeFiles/hhblits_omp-sse4.1.dir/build.make src/CMakeFiles/hhblits_omp-sse4.1.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 93%] Building CXX object src/CMakeFiles/hhblits_omp-sse4.1.dir/hhblits_omp.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/hhblits_omp-sse4.1.dir/hhblits_omp.cpp.o -MF CMakeFiles/hhblits_omp-sse4.1.dir/hhblits_omp.cpp.o.d -o CMakeFiles/hhblits_omp-sse4.1.dir/hhblits_omp.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:51: warning: ‘.ffindex’ directive output may be truncated writing 8 bytes into a region of size between 1 and 4096 [-Wformat-truncation=] 26 | snprintf(index_filename, FILENAME_MAX, "%s.ffindex", base); | ^~~~~~~~ In file included from /usr/include/stdio.h:974, from /usr/include/c++/16/cstdio:47, from /usr/include/c++/16/ext/string_conversions.h:47, from /usr/include/c++/16/bits/basic_string.h:4499, from /usr/include/c++/16/string:58, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/istream:42, from /usr/include/c++/16/fstream:42, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits.h:11, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhsearch.h:34, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 94%] Linking CXX executable hhblits_omp-sse4.1 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhblits_omp-sse4.1.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhblits_omp-sse4.1.dir/link.d "CMakeFiles/hhblits_omp-sse4.1.dir/hhblits_omp.cpp.o" -o hhblits_omp-sse4.1 libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 94%] Built target hhblits_omp-sse4.1 make -f src/CMakeFiles/hhsearch_omp-sse4.1.dir/build.make src/CMakeFiles/hhsearch_omp-sse4.1.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src/CMakeFiles/hhsearch_omp-sse4.1.dir/DependInfo.cmake "--color=" hhsearch_omp-sse4.1 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' make -f src/CMakeFiles/hhsearch_omp-sse4.1.dir/build.make src/CMakeFiles/hhsearch_omp-sse4.1.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 95%] Building CXX object src/CMakeFiles/hhsearch_omp-sse4.1.dir/hhblits_omp.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DHHSEARCH=1 -MD -MT src/CMakeFiles/hhsearch_omp-sse4.1.dir/hhblits_omp.cpp.o -MF CMakeFiles/hhsearch_omp-sse4.1.dir/hhblits_omp.cpp.o.d -o CMakeFiles/hhsearch_omp-sse4.1.dir/hhblits_omp.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:51: warning: ‘.ffindex’ directive output may be truncated writing 8 bytes into a region of size between 1 and 4096 [-Wformat-truncation=] 26 | snprintf(index_filename, FILENAME_MAX, "%s.ffindex", base); | ^~~~~~~~ In file included from /usr/include/stdio.h:974, from /usr/include/c++/16/cstdio:47, from /usr/include/c++/16/ext/string_conversions.h:47, from /usr/include/c++/16/bits/basic_string.h:4499, from /usr/include/c++/16/string:58, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/istream:42, from /usr/include/c++/16/fstream:42, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits.h:11, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhsearch.h:34, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 96%] Linking CXX executable hhsearch_omp-sse4.1 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhsearch_omp-sse4.1.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhsearch_omp-sse4.1.dir/link.d "CMakeFiles/hhsearch_omp-sse4.1.dir/hhblits_omp.cpp.o" -o hhsearch_omp-sse4.1 libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 96%] Built target hhsearch_omp-sse4.1 make -f src/CMakeFiles/hhalign_omp-sse4.1.dir/build.make src/CMakeFiles/hhalign_omp-sse4.1.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src/CMakeFiles/hhalign_omp-sse4.1.dir/DependInfo.cmake "--color=" hhalign_omp-sse4.1 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' make -f src/CMakeFiles/hhalign_omp-sse4.1.dir/build.make src/CMakeFiles/hhalign_omp-sse4.1.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 97%] Building CXX object src/CMakeFiles/hhalign_omp-sse4.1.dir/hhblits_omp.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DHHALIGN=1 -MD -MT src/CMakeFiles/hhalign_omp-sse4.1.dir/hhblits_omp.cpp.o -MF CMakeFiles/hhalign_omp-sse4.1.dir/hhblits_omp.cpp.o.d -o CMakeFiles/hhalign_omp-sse4.1.dir/hhblits_omp.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:51: warning: ‘.ffindex’ directive output may be truncated writing 8 bytes into a region of size between 1 and 4096 [-Wformat-truncation=] 26 | snprintf(index_filename, FILENAME_MAX, "%s.ffindex", base); | ^~~~~~~~ In file included from /usr/include/stdio.h:974, from /usr/include/c++/16/cstdio:47, from /usr/include/c++/16/ext/string_conversions.h:47, from /usr/include/c++/16/bits/basic_string.h:4499, from /usr/include/c++/16/string:58, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/istream:42, from /usr/include/c++/16/fstream:42, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits.h:11, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhsearch.h:34, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 98%] Linking CXX executable hhalign_omp-sse4.1 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhalign_omp-sse4.1.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhalign_omp-sse4.1.dir/link.d "CMakeFiles/hhalign_omp-sse4.1.dir/hhblits_omp.cpp.o" -o hhalign_omp-sse4.1 libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 98%] Built target hhalign_omp-sse4.1 make -f src/CMakeFiles/hhblits_ca3m-sse4.1.dir/build.make src/CMakeFiles/hhblits_ca3m-sse4.1.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src/CMakeFiles/hhblits_ca3m-sse4.1.dir/DependInfo.cmake "--color=" hhblits_ca3m-sse4.1 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' make -f src/CMakeFiles/hhblits_ca3m-sse4.1.dir/build.make src/CMakeFiles/hhblits_ca3m-sse4.1.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [ 99%] Building CXX object src/CMakeFiles/hhblits_ca3m-sse4.1.dir/hhblits_ca3m.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/hhblits_ca3m-sse4.1.dir/hhblits_ca3m.cpp.o -MF CMakeFiles/hhblits_ca3m-sse4.1.dir/hhblits_ca3m.cpp.o.d -o CMakeFiles/hhblits_ca3m-sse4.1.dir/hhblits_ca3m.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp: In function ‘int main(int, const char**)’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp:24:49: warning: ‘.ffindex’ directive output may be truncated writing 8 bytes into a region of size between 1 and 4096 [-Wformat-truncation=] 24 | snprintf(index_filename, FILENAME_MAX, "%s.ffindex", base); | ^~~~~~~~ In file included from /usr/include/stdio.h:974, from /usr/include/c++/16/cstdio:47, from /usr/include/c++/16/ext/string_conversions.h:47, from /usr/include/c++/16/bits/basic_string.h:4499, from /usr/include/c++/16/string:58, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/istream:42, from /usr/include/c++/16/fstream:42, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits.h:11, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp:24:15, inlined from ‘int main(int, const char**)’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp:358:29: /usr/include/x86_64-linux-gnu/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [100%] Linking CXX executable hhblits_ca3m-sse4.1 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhblits_ca3m-sse4.1.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhblits_ca3m-sse4.1.dir/link.d "CMakeFiles/hhblits_ca3m-sse4.1.dir/hhblits_ca3m.cpp.o" -o hhblits_ca3m-sse4.1 libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [100%] Built target hhblits_ca3m-sse4.1 [100%] Linking CXX executable cstranslate-sse4.1 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/cstranslate-sse4.1.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse4.1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/cstranslate-sse4.1.dir/link.d "CMakeFiles/cstranslate-sse4.1.dir/cs/cstranslate_app.cc.o" -o cstranslate-sse4.1 libHH_OBJECTS.a libA3M_COMPRESS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' [100%] Built target cstranslate-sse4.1 make[3]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' /usr/bin/cmake -E cmake_progress_start /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1/CMakeFiles 0 make[2]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' cd build_ssse3 && make -j2 INSTALL="install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' /usr/bin/cmake -S/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds -B/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/CMakeFiles /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' make -f lib/ffindex/src/CMakeFiles/ffindex.dir/build.make lib/ffindex/src/CMakeFiles/ffindex.dir/depend make -f data/CMakeFiles/generated.dir/build.make data/CMakeFiles/generated.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/data /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/data/CMakeFiles/generated.dir/DependInfo.cmake "--color=" generated make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/lib/ffindex/src/CMakeFiles/ffindex.dir/DependInfo.cmake "--color=" ffindex make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' make -f lib/ffindex/src/CMakeFiles/ffindex.dir/build.make lib/ffindex/src/CMakeFiles/ffindex.dir/build make -f data/CMakeFiles/generated.dir/build.make data/CMakeFiles/generated.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 1%] Generating ../generated/context_data.crf.h cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mkdir -p /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/cmake/xxdi.pl context_data.crf > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated/context_data.crf.h [ 2%] Building C object lib/ffindex/src/CMakeFiles/ffindex.dir/ffindex.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex.dir/ffindex.c.o -MF CMakeFiles/ffindex.dir/ffindex.c.o.d -o CMakeFiles/ffindex.dir/ffindex.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex.c [ 3%] Building C object lib/ffindex/src/CMakeFiles/ffindex.dir/ffutil.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex.dir/ffutil.c.o -MF CMakeFiles/ffindex.dir/ffutil.c.o.d -o CMakeFiles/ffindex.dir/ffutil.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffutil.c [ 4%] Linking C static library libffindex.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/lib/ffindex/src && /usr/bin/cmake -P CMakeFiles/ffindex.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libffindex.a CMakeFiles/ffindex.dir/ffindex.c.o CMakeFiles/ffindex.dir/ffutil.c.o /usr/bin/x86_64-linux-gnu-ranlib libffindex.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 4%] Built target ffindex [ 5%] Generating ../generated/context_data.lib.h cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mkdir -p /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/cmake/xxdi.pl context_data.lib > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated/context_data.lib.h cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated/context_data.lib.h > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated/context_data.lib.h.tmp cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated/context_data.crf.h > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated/context_data.crf.h.tmp cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mv -f /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated/context_data.lib.h.tmp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated/context_data.lib.h make -f src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/DependInfo.cmake "--color=" hhviterbialgorithm_with_celloff make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' make -f src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 6%] Building CXX object src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DVITERBI_CELLOFF=1 -MD -MT src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o -MF CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o.d -o CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbialgorithm.cpp cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mv -f /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated/context_data.crf.h.tmp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated/context_data.crf.h [ 7%] Generating ../generated/cs219.lib.h cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mkdir -p /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/cmake/xxdi.pl cs219.lib > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated/cs219.lib.h cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated/cs219.lib.h > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated/cs219.lib.h.tmp cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mv -f /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated/cs219.lib.h.tmp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated/cs219.lib.h make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 7%] Built target generated make -f src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/DependInfo.cmake "--color=" hhviterbialgorithm_with_celloff_and_ss make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' make -f src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 8%] Building CXX object src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DVITERBI_CELLOFF=1 -DVITERBI_SS_SCORE=1 -MD -MT src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o -MF CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o.d -o CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbialgorithm.cpp [ 9%] Linking CXX static library libhhviterbialgorithm_with_celloff.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_with_celloff.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_with_celloff.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libhhviterbialgorithm_with_celloff.a CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o /usr/bin/x86_64-linux-gnu-ranlib libhhviterbialgorithm_with_celloff.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 9%] Built target hhviterbialgorithm_with_celloff make -f src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_and_ss.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src/CMakeFiles/hhviterbialgorithm_and_ss.dir/DependInfo.cmake "--color=" hhviterbialgorithm_and_ss make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' make -f src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 10%] Building CXX object src/CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DVITERBI_SS_SCORE=1 -MD -MT src/CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o -MF CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o.d -o CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbialgorithm.cpp [ 11%] Linking CXX static library libhhviterbialgorithm_with_celloff_and_ss.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libhhviterbialgorithm_with_celloff_and_ss.a CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o /usr/bin/x86_64-linux-gnu-ranlib libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 11%] Built target hhviterbialgorithm_with_celloff_and_ss make -f src/cs/CMakeFiles/CS_OBJECTS.dir/build.make src/cs/CMakeFiles/CS_OBJECTS.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src/cs /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src/cs/CMakeFiles/CS_OBJECTS.dir/DependInfo.cmake "--color=" CS_OBJECTS make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' make -f src/cs/CMakeFiles/CS_OBJECTS.dir/build.make src/cs/CMakeFiles/CS_OBJECTS.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 12%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/aa.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/aa.cc.o -MF CMakeFiles/CS_OBJECTS.dir/aa.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/aa.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/aa.cc [ 13%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/as.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/as.cc.o -MF CMakeFiles/CS_OBJECTS.dir/as.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/as.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/as.cc [ 14%] Linking CXX static library libhhviterbialgorithm_and_ss.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_and_ss.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_and_ss.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libhhviterbialgorithm_and_ss.a CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o /usr/bin/x86_64-linux-gnu-ranlib libhhviterbialgorithm_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 14%] Built target hhviterbialgorithm_and_ss make -f src/CMakeFiles/A3M_COMPRESS.dir/build.make src/CMakeFiles/A3M_COMPRESS.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src/CMakeFiles/A3M_COMPRESS.dir/DependInfo.cmake "--color=" A3M_COMPRESS make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' make -f src/CMakeFiles/A3M_COMPRESS.dir/build.make src/CMakeFiles/A3M_COMPRESS.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 15%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o [ 15%] Building CXX object src/CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o -MF CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/assert_helpers.cc cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o -MF CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o.d -o CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_compress.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_compress.cpp: In function ‘std::string& rtrim(std::string&)’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_compress.cpp:504:43: warning: ‘std::pointer_to_unary_function<_Arg, _Result> std::ptr_fun(_Result (*)(_Arg)) [with _Arg = int; _Result = int]’ is deprecated: use 'std::function' instead [-Wdeprecated-declarations] 504 | std::not1(std::ptr_fun(std::isspace))).base(), s.end()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ In file included from /usr/include/c++/16/string:52, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/bits/ostream.h:43, from /usr/include/c++/16/ostream:42, from /usr/include/c++/16/iostream:43, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_compress.h:11, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_compress.cpp:8: /usr/include/c++/16/bits/stl_function.h:1214:5: note: declared here 1214 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ [ 16%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o -MF CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/blosum_matrix.cc [ 17%] Linking CXX static library libA3M_COMPRESS.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/cmake -P CMakeFiles/A3M_COMPRESS.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/A3M_COMPRESS.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libA3M_COMPRESS.a CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o /usr/bin/x86_64-linux-gnu-ranlib libA3M_COMPRESS.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 17%] Built target A3M_COMPRESS make -f lib/ffindex/src/CMakeFiles/ffindex_apply.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_apply.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/lib/ffindex/src/CMakeFiles/ffindex_apply.dir/DependInfo.cmake "--color=" ffindex_apply make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' make -f lib/ffindex/src/CMakeFiles/ffindex_apply.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_apply.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 18%] Building C object lib/ffindex/src/CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -UHAVE_MPI -MD -MT lib/ffindex/src/CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o -MF CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o.d -o CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_apply_mpi.c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_apply_mpi.c: In function ‘ffindex_apply_by_entry’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_apply_mpi.c:172:53: warning: format ‘%lld’ expects argument of type ‘long long int’, but argument 6 has type ‘int64_t’ {aka ‘long int’} [-Wformat=] 172 | fprintf(log_file_out, "%s\t%ld\t%ld\t%lld\t%d\n", entry->name, entry->offset, entry->length, end - start, WEXITSTATUS(status)); | ~~~^ ~~~~~~~~~~~ | | | | long long int int64_t {aka long int} | %ld [ 19%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o -MF CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/getopt_pp.cc [ 20%] Linking C executable ffindex_apply cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_apply.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-gcc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ffindex_apply.dir/link.d CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o -o ffindex_apply libffindex.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 20%] Built target ffindex_apply make -f lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/lib/ffindex/src 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-ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o -MF CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o.d -o CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_reduce.c [ 22%] Linking C executable ffindex_reduce cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_reduce.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-gcc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now 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lib/ffindex/src/CMakeFiles/ffindex_build.dir/ffindex_build.c.o -MF CMakeFiles/ffindex_build.dir/ffindex_build.c.o.d -o CMakeFiles/ffindex_build.dir/ffindex_build.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_build.c [ 24%] Linking C executable ffindex_build cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_build.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-gcc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ffindex_build.dir/link.d CMakeFiles/ffindex_build.dir/ffindex_build.c.o -o ffindex_build libffindex.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 24%] Built target ffindex_build make -f 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lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o -MF CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o.d -o CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o -c 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-I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex_get.dir/ffindex_get.c.o -MF CMakeFiles/ffindex_get.dir/ffindex_get.c.o.d -o CMakeFiles/ffindex_get.dir/ffindex_get.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_get.c [ 28%] Linking C executable ffindex_get cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_get.dir/link.txt 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src/CMakeFiles/a3m_extract-ssse3.dir/build.make src/CMakeFiles/a3m_extract-ssse3.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src/CMakeFiles/a3m_extract-ssse3.dir/DependInfo.cmake "--color=" a3m_extract-ssse3 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' make -f src/CMakeFiles/a3m_extract-ssse3.dir/build.make src/CMakeFiles/a3m_extract-ssse3.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 38%] Building CXX object src/CMakeFiles/a3m_extract-ssse3.dir/a3m_extract.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/a3m_extract-ssse3.dir/a3m_extract.cpp.o -MF CMakeFiles/a3m_extract-ssse3.dir/a3m_extract.cpp.o.d -o CMakeFiles/a3m_extract-ssse3.dir/a3m_extract.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_extract.cpp [ 39%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/application.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/application.cc.o -MF CMakeFiles/CS_OBJECTS.dir/application.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/application.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/application.cc [ 40%] Linking CXX executable a3m_extract-ssse3 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_extract-ssse3.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/a3m_extract-ssse3.dir/link.d "CMakeFiles/a3m_extract-ssse3.dir/a3m_extract.cpp.o" -o a3m_extract-ssse3 ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 40%] Built target a3m_extract-ssse3 make -f src/CMakeFiles/a3m_reduce-ssse3.dir/build.make src/CMakeFiles/a3m_reduce-ssse3.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src/CMakeFiles/a3m_reduce-ssse3.dir/DependInfo.cmake "--color=" a3m_reduce-ssse3 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' make -f src/CMakeFiles/a3m_reduce-ssse3.dir/build.make src/CMakeFiles/a3m_reduce-ssse3.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 41%] Building CXX object src/CMakeFiles/a3m_reduce-ssse3.dir/a3m_reduce.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/a3m_reduce-ssse3.dir/a3m_reduce.cpp.o -MF CMakeFiles/a3m_reduce-ssse3.dir/a3m_reduce.cpp.o.d -o CMakeFiles/a3m_reduce-ssse3.dir/a3m_reduce.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_reduce.cpp [ 42%] Linking CXX executable a3m_reduce-ssse3 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_reduce-ssse3.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/a3m_reduce-ssse3.dir/link.d "CMakeFiles/a3m_reduce-ssse3.dir/a3m_reduce.cpp.o" -o a3m_reduce-ssse3 ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 42%] Built target a3m_reduce-ssse3 make -f src/CMakeFiles/a3m_database_reduce-ssse3.dir/build.make src/CMakeFiles/a3m_database_reduce-ssse3.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src/CMakeFiles/a3m_database_reduce-ssse3.dir/DependInfo.cmake "--color=" a3m_database_reduce-ssse3 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' make -f src/CMakeFiles/a3m_database_reduce-ssse3.dir/build.make src/CMakeFiles/a3m_database_reduce-ssse3.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 43%] Building CXX object src/CMakeFiles/a3m_database_reduce-ssse3.dir/a3m_database_reduce.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/a3m_database_reduce-ssse3.dir/a3m_database_reduce.cpp.o -MF CMakeFiles/a3m_database_reduce-ssse3.dir/a3m_database_reduce.cpp.o.d -o CMakeFiles/a3m_database_reduce-ssse3.dir/a3m_database_reduce.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_database_reduce.cpp [ 44%] Linking CXX static library libCS_OBJECTS.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src/cs && /usr/bin/cmake -P CMakeFiles/CS_OBJECTS.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src/cs && /usr/bin/cmake -E cmake_link_script CMakeFiles/CS_OBJECTS.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libCS_OBJECTS.a CMakeFiles/CS_OBJECTS.dir/aa.cc.o CMakeFiles/CS_OBJECTS.dir/as.cc.o CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o CMakeFiles/CS_OBJECTS.dir/log.cc.o CMakeFiles/CS_OBJECTS.dir/application.cc.o /usr/bin/x86_64-linux-gnu-ranlib libCS_OBJECTS.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 44%] Built target CS_OBJECTS make -f src/CMakeFiles/a3m_database_extract-ssse3.dir/build.make src/CMakeFiles/a3m_database_extract-ssse3.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src/CMakeFiles/a3m_database_extract-ssse3.dir/DependInfo.cmake "--color=" a3m_database_extract-ssse3 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' make -f src/CMakeFiles/a3m_database_extract-ssse3.dir/build.make src/CMakeFiles/a3m_database_extract-ssse3.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 45%] Building CXX object src/CMakeFiles/a3m_database_extract-ssse3.dir/a3m_database_extract.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/a3m_database_extract-ssse3.dir/a3m_database_extract.cpp.o -MF CMakeFiles/a3m_database_extract-ssse3.dir/a3m_database_extract.cpp.o.d -o CMakeFiles/a3m_database_extract-ssse3.dir/a3m_database_extract.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_database_extract.cpp [ 46%] Linking CXX executable a3m_database_reduce-ssse3 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_reduce-ssse3.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/a3m_database_reduce-ssse3.dir/link.d "CMakeFiles/a3m_database_reduce-ssse3.dir/a3m_database_reduce.cpp.o" -o a3m_database_reduce-ssse3 ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 46%] Built target a3m_database_reduce-ssse3 make -f src/CMakeFiles/a3m_database_filter-ssse3.dir/build.make src/CMakeFiles/a3m_database_filter-ssse3.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src/CMakeFiles/a3m_database_filter-ssse3.dir/DependInfo.cmake "--color=" a3m_database_filter-ssse3 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' make -f src/CMakeFiles/a3m_database_filter-ssse3.dir/build.make src/CMakeFiles/a3m_database_filter-ssse3.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 47%] Building CXX object src/CMakeFiles/a3m_database_filter-ssse3.dir/a3m_database_filter.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/a3m_database_filter-ssse3.dir/a3m_database_filter.cpp.o -MF CMakeFiles/a3m_database_filter-ssse3.dir/a3m_database_filter.cpp.o.d -o CMakeFiles/a3m_database_filter-ssse3.dir/a3m_database_filter.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_database_filter.cpp [ 48%] Linking CXX executable a3m_database_extract-ssse3 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_extract-ssse3.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/a3m_database_extract-ssse3.dir/link.d "CMakeFiles/a3m_database_extract-ssse3.dir/a3m_database_extract.cpp.o" -o a3m_database_extract-ssse3 ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 48%] Built target a3m_database_extract-ssse3 make -f src/CMakeFiles/HH_OBJECTS.dir/build.make src/CMakeFiles/HH_OBJECTS.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src/CMakeFiles/HH_OBJECTS.dir/DependInfo.cmake "--color=" HH_OBJECTS make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' make -f src/CMakeFiles/HH_OBJECTS.dir/build.make src/CMakeFiles/HH_OBJECTS.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 49%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o -MF 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-fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhmatrices.cpp [ 54%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhsearch.cpp [ 55%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalign.cpp [ 56%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhhitlist.cpp [ 57%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhposteriordecoder.cpp [ 58%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP 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Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.cpp [ 61%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhforwardalgorithm.cpp [ 62%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhhmm.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.cpp: In member function ‘int Alignment::Filter2(char*, int, int, float, int, int, int, const float (*)[20])’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.cpp:1797:39: warning: ‘%s’ directive writing up to 4095 bytes into a region of size 86 [-Wformat-overflow=] 1797 | sprintf(details, "The alingment %s does not contain any sequences.", | ^~ In file included from /usr/include/stdio.h:974, from /usr/include/c++/16/cstdio:47, from /usr/include/c++/16/ext/string_conversions.h:47, from /usr/include/c++/16/bits/basic_string.h:4499, from /usr/include/c++/16/string:58, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/istream:42, from /usr/include/c++/16/fstream:42, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.h:6, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.cpp:8: In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘int Alignment::Filter2(char*, int, int, float, int, int, int, const float (*)[20])’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.cpp:1797:14: /usr/include/x86_64-linux-gnu/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 47 and 4142 bytes into a destination of size 100 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 63%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhposteriordecoderrunner.cpp.o cd 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/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhposteriordecoderrunner.cpp [ 64%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbialgorithm.cpp [ 65%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhfullalignment.cpp [ 66%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhhmmsimd.cpp [ 67%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhposteriormatrix.cpp [ 68%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbi.cpp [ 69%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhbacktracemac.cpp [ 70%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhmacalgorithm.cpp [ 71%] Building CXX object 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CMakeFiles/HH_OBJECTS.dir/hhprefilter.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhprefilter.cpp [ 72%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbimatrix.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhviterbimatrix.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhviterbimatrix.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhviterbimatrix.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbimatrix.cpp [ 73%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhbackwardalgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 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/usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src/CMakeFiles/hhfilter-ssse3.dir/DependInfo.cmake "--color=" hhfilter-ssse3 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' make -f src/CMakeFiles/hhfilter-ssse3.dir/build.make src/CMakeFiles/hhfilter-ssse3.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 83%] Building CXX object src/CMakeFiles/hhfilter-ssse3.dir/hhfilter.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/hhfilter-ssse3.dir/hhfilter.cpp.o -MF CMakeFiles/hhfilter-ssse3.dir/hhfilter.cpp.o.d -o CMakeFiles/hhfilter-ssse3.dir/hhfilter.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhfilter.cpp [ 84%] Linking CXX executable hhmake-ssse3 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhmake-ssse3.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 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/usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src/CMakeFiles/hhsearch-ssse3.dir/DependInfo.cmake "--color=" hhsearch-ssse3 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' make -f src/CMakeFiles/hhsearch-ssse3.dir/build.make src/CMakeFiles/hhsearch-ssse3.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 85%] Building CXX object src/CMakeFiles/hhsearch-ssse3.dir/hhblits_app.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DHHSEARCH=1 -MD -MT src/CMakeFiles/hhsearch-ssse3.dir/hhblits_app.cpp.o -MF CMakeFiles/hhsearch-ssse3.dir/hhblits_app.cpp.o.d -o CMakeFiles/hhsearch-ssse3.dir/hhblits_app.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_app.cpp [ 86%] Linking CXX executable hhsearch-ssse3 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhsearch-ssse3.dir/link.txt --verbose=1 [ 87%] Linking CXX executable hhfilter-ssse3 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhfilter-ssse3.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhfilter-ssse3.dir/link.d "CMakeFiles/hhfilter-ssse3.dir/hhfilter.cpp.o" -o hhfilter-ssse3 libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 87%] Built target hhfilter-ssse3 make -f src/CMakeFiles/hhalign-ssse3.dir/build.make src/CMakeFiles/hhalign-ssse3.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src/CMakeFiles/hhalign-ssse3.dir/DependInfo.cmake "--color=" hhalign-ssse3 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' make -f src/CMakeFiles/hhalign-ssse3.dir/build.make src/CMakeFiles/hhalign-ssse3.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 88%] Building CXX object src/CMakeFiles/hhalign-ssse3.dir/hhblits_app.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DHHALIGN=1 -MD -MT src/CMakeFiles/hhalign-ssse3.dir/hhblits_app.cpp.o -MF CMakeFiles/hhalign-ssse3.dir/hhblits_app.cpp.o.d -o CMakeFiles/hhalign-ssse3.dir/hhblits_app.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_app.cpp /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhsearch-ssse3.dir/link.d "CMakeFiles/hhsearch-ssse3.dir/hhblits_app.cpp.o" -o hhsearch-ssse3 libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 88%] Built target hhsearch-ssse3 make -f src/CMakeFiles/hhconsensus-ssse3.dir/build.make src/CMakeFiles/hhconsensus-ssse3.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src/CMakeFiles/hhconsensus-ssse3.dir/DependInfo.cmake "--color=" hhconsensus-ssse3 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' make -f src/CMakeFiles/hhconsensus-ssse3.dir/build.make src/CMakeFiles/hhconsensus-ssse3.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 89%] Building CXX object src/CMakeFiles/hhconsensus-ssse3.dir/hhconsensus.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/hhconsensus-ssse3.dir/hhconsensus.cpp.o -MF CMakeFiles/hhconsensus-ssse3.dir/hhconsensus.cpp.o.d -o CMakeFiles/hhconsensus-ssse3.dir/hhconsensus.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhconsensus.cpp [ 90%] Linking CXX executable hhalign-ssse3 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhalign-ssse3.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhalign-ssse3.dir/link.d "CMakeFiles/hhalign-ssse3.dir/hhblits_app.cpp.o" -o hhalign-ssse3 libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 90%] Built target hhalign-ssse3 make -f src/CMakeFiles/cstranslate-ssse3.dir/build.make src/CMakeFiles/cstranslate-ssse3.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src/CMakeFiles/cstranslate-ssse3.dir/DependInfo.cmake "--color=" cstranslate-ssse3 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' make -f src/CMakeFiles/cstranslate-ssse3.dir/build.make src/CMakeFiles/cstranslate-ssse3.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 91%] Building CXX object src/CMakeFiles/cstranslate-ssse3.dir/cs/cstranslate_app.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/cstranslate-ssse3.dir/cs/cstranslate_app.cc.o -MF CMakeFiles/cstranslate-ssse3.dir/cs/cstranslate_app.cc.o.d -o CMakeFiles/cstranslate-ssse3.dir/cs/cstranslate_app.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/cstranslate_app.cc [ 92%] Linking CXX executable hhconsensus-ssse3 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhconsensus-ssse3.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhconsensus-ssse3.dir/link.d "CMakeFiles/hhconsensus-ssse3.dir/hhconsensus.cpp.o" -o hhconsensus-ssse3 libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 92%] Built target hhconsensus-ssse3 make -f src/CMakeFiles/hhblits_omp-ssse3.dir/build.make src/CMakeFiles/hhblits_omp-ssse3.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src/CMakeFiles/hhblits_omp-ssse3.dir/DependInfo.cmake "--color=" hhblits_omp-ssse3 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' make -f src/CMakeFiles/hhblits_omp-ssse3.dir/build.make src/CMakeFiles/hhblits_omp-ssse3.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 93%] Building CXX object src/CMakeFiles/hhblits_omp-ssse3.dir/hhblits_omp.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/hhblits_omp-ssse3.dir/hhblits_omp.cpp.o -MF CMakeFiles/hhblits_omp-ssse3.dir/hhblits_omp.cpp.o.d -o CMakeFiles/hhblits_omp-ssse3.dir/hhblits_omp.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:51: warning: ‘.ffindex’ directive output may be truncated writing 8 bytes into a region of size between 1 and 4096 [-Wformat-truncation=] 26 | snprintf(index_filename, FILENAME_MAX, "%s.ffindex", base); | ^~~~~~~~ In file included from /usr/include/stdio.h:974, from /usr/include/c++/16/cstdio:47, from /usr/include/c++/16/ext/string_conversions.h:47, from /usr/include/c++/16/bits/basic_string.h:4499, from /usr/include/c++/16/string:58, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/istream:42, from /usr/include/c++/16/fstream:42, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits.h:11, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhsearch.h:34, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 94%] Linking CXX executable hhblits_omp-ssse3 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhblits_omp-ssse3.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhblits_omp-ssse3.dir/link.d "CMakeFiles/hhblits_omp-ssse3.dir/hhblits_omp.cpp.o" -o hhblits_omp-ssse3 libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 94%] Built target hhblits_omp-ssse3 make -f src/CMakeFiles/hhsearch_omp-ssse3.dir/build.make src/CMakeFiles/hhsearch_omp-ssse3.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src/CMakeFiles/hhsearch_omp-ssse3.dir/DependInfo.cmake "--color=" hhsearch_omp-ssse3 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' make -f src/CMakeFiles/hhsearch_omp-ssse3.dir/build.make src/CMakeFiles/hhsearch_omp-ssse3.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 95%] Building CXX object src/CMakeFiles/hhsearch_omp-ssse3.dir/hhblits_omp.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DHHSEARCH=1 -MD -MT src/CMakeFiles/hhsearch_omp-ssse3.dir/hhblits_omp.cpp.o -MF CMakeFiles/hhsearch_omp-ssse3.dir/hhblits_omp.cpp.o.d -o CMakeFiles/hhsearch_omp-ssse3.dir/hhblits_omp.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:51: warning: ‘.ffindex’ directive output may be truncated writing 8 bytes into a region of size between 1 and 4096 [-Wformat-truncation=] 26 | snprintf(index_filename, FILENAME_MAX, "%s.ffindex", base); | ^~~~~~~~ In file included from /usr/include/stdio.h:974, from /usr/include/c++/16/cstdio:47, from /usr/include/c++/16/ext/string_conversions.h:47, from /usr/include/c++/16/bits/basic_string.h:4499, from /usr/include/c++/16/string:58, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/istream:42, from /usr/include/c++/16/fstream:42, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits.h:11, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhsearch.h:34, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 96%] Linking CXX executable hhsearch_omp-ssse3 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhsearch_omp-ssse3.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhsearch_omp-ssse3.dir/link.d "CMakeFiles/hhsearch_omp-ssse3.dir/hhblits_omp.cpp.o" -o hhsearch_omp-ssse3 libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 96%] Built target hhsearch_omp-ssse3 make -f src/CMakeFiles/hhalign_omp-ssse3.dir/build.make src/CMakeFiles/hhalign_omp-ssse3.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src/CMakeFiles/hhalign_omp-ssse3.dir/DependInfo.cmake "--color=" hhalign_omp-ssse3 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' make -f src/CMakeFiles/hhalign_omp-ssse3.dir/build.make src/CMakeFiles/hhalign_omp-ssse3.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 97%] Building CXX object src/CMakeFiles/hhalign_omp-ssse3.dir/hhblits_omp.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DHHALIGN=1 -MD -MT src/CMakeFiles/hhalign_omp-ssse3.dir/hhblits_omp.cpp.o -MF CMakeFiles/hhalign_omp-ssse3.dir/hhblits_omp.cpp.o.d -o CMakeFiles/hhalign_omp-ssse3.dir/hhblits_omp.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:51: warning: ‘.ffindex’ directive output may be truncated writing 8 bytes into a region of size between 1 and 4096 [-Wformat-truncation=] 26 | snprintf(index_filename, FILENAME_MAX, "%s.ffindex", base); | ^~~~~~~~ In file included from /usr/include/stdio.h:974, from /usr/include/c++/16/cstdio:47, from /usr/include/c++/16/ext/string_conversions.h:47, from /usr/include/c++/16/bits/basic_string.h:4499, from /usr/include/c++/16/string:58, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/istream:42, from /usr/include/c++/16/fstream:42, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits.h:11, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhsearch.h:34, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 98%] Linking CXX executable hhalign_omp-ssse3 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhalign_omp-ssse3.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhalign_omp-ssse3.dir/link.d "CMakeFiles/hhalign_omp-ssse3.dir/hhblits_omp.cpp.o" -o hhalign_omp-ssse3 libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 98%] Built target hhalign_omp-ssse3 make -f src/CMakeFiles/hhblits_ca3m-ssse3.dir/build.make src/CMakeFiles/hhblits_ca3m-ssse3.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src/CMakeFiles/hhblits_ca3m-ssse3.dir/DependInfo.cmake "--color=" hhblits_ca3m-ssse3 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' make -f src/CMakeFiles/hhblits_ca3m-ssse3.dir/build.make src/CMakeFiles/hhblits_ca3m-ssse3.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [ 99%] Building CXX object src/CMakeFiles/hhblits_ca3m-ssse3.dir/hhblits_ca3m.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/hhblits_ca3m-ssse3.dir/hhblits_ca3m.cpp.o -MF CMakeFiles/hhblits_ca3m-ssse3.dir/hhblits_ca3m.cpp.o.d -o CMakeFiles/hhblits_ca3m-ssse3.dir/hhblits_ca3m.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp: In function ‘int main(int, const char**)’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp:24:49: warning: ‘.ffindex’ directive output may be truncated writing 8 bytes into a region of size between 1 and 4096 [-Wformat-truncation=] 24 | snprintf(index_filename, FILENAME_MAX, "%s.ffindex", base); | ^~~~~~~~ In file included from /usr/include/stdio.h:974, from /usr/include/c++/16/cstdio:47, from /usr/include/c++/16/ext/string_conversions.h:47, from /usr/include/c++/16/bits/basic_string.h:4499, from /usr/include/c++/16/string:58, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/istream:42, from /usr/include/c++/16/fstream:42, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits.h:11, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp:24:15, inlined from ‘int main(int, const char**)’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp:358:29: /usr/include/x86_64-linux-gnu/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [100%] Linking CXX executable hhblits_ca3m-ssse3 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhblits_ca3m-ssse3.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhblits_ca3m-ssse3.dir/link.d "CMakeFiles/hhblits_ca3m-ssse3.dir/hhblits_ca3m.cpp.o" -o hhblits_ca3m-ssse3 libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [100%] Built target hhblits_ca3m-ssse3 [100%] Linking CXX executable cstranslate-ssse3 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/cstranslate-ssse3.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -mssse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/cstranslate-ssse3.dir/link.d "CMakeFiles/cstranslate-ssse3.dir/cs/cstranslate_app.cc.o" -o cstranslate-ssse3 libHH_OBJECTS.a libA3M_COMPRESS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' [100%] Built target cstranslate-ssse3 make[3]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' /usr/bin/cmake -E cmake_progress_start /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3/CMakeFiles 0 make[2]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' cd build_sse3 && make -j2 INSTALL="install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' /usr/bin/cmake -S/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds -B/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/CMakeFiles /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' make -f lib/ffindex/src/CMakeFiles/ffindex.dir/build.make lib/ffindex/src/CMakeFiles/ffindex.dir/depend make -f data/CMakeFiles/generated.dir/build.make data/CMakeFiles/generated.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/data /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/data/CMakeFiles/generated.dir/DependInfo.cmake "--color=" generated make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src/CMakeFiles/ffindex.dir/DependInfo.cmake "--color=" ffindex make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' make -f data/CMakeFiles/generated.dir/build.make data/CMakeFiles/generated.dir/build make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' make -f lib/ffindex/src/CMakeFiles/ffindex.dir/build.make lib/ffindex/src/CMakeFiles/ffindex.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 1%] Generating ../generated/context_data.crf.h [ 2%] Building C object lib/ffindex/src/CMakeFiles/ffindex.dir/ffindex.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mkdir -p /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex.dir/ffindex.c.o -MF CMakeFiles/ffindex.dir/ffindex.c.o.d -o CMakeFiles/ffindex.dir/ffindex.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex.c cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/cmake/xxdi.pl context_data.crf > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated/context_data.crf.h [ 3%] Building C object lib/ffindex/src/CMakeFiles/ffindex.dir/ffutil.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex.dir/ffutil.c.o -MF CMakeFiles/ffindex.dir/ffutil.c.o.d -o CMakeFiles/ffindex.dir/ffutil.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffutil.c [ 4%] Linking C static library libffindex.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src && /usr/bin/cmake -P CMakeFiles/ffindex.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libffindex.a CMakeFiles/ffindex.dir/ffindex.c.o CMakeFiles/ffindex.dir/ffutil.c.o /usr/bin/x86_64-linux-gnu-ranlib libffindex.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 4%] Built target ffindex [ 5%] Generating ../generated/context_data.lib.h cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mkdir -p /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/cmake/xxdi.pl context_data.lib > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated/context_data.lib.h cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated/context_data.crf.h > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated/context_data.crf.h.tmp cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mv -f /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated/context_data.crf.h.tmp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated/context_data.crf.h make -f src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/depend cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated/context_data.lib.h > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated/context_data.lib.h.tmp make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/DependInfo.cmake "--color=" hhviterbialgorithm_with_celloff make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' make -f src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 6%] Building CXX object src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DVITERBI_CELLOFF=1 -MD -MT src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o -MF CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o.d -o CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbialgorithm.cpp cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mv -f /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated/context_data.lib.h.tmp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated/context_data.lib.h [ 7%] Generating ../generated/cs219.lib.h cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mkdir -p /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/cmake/xxdi.pl cs219.lib > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated/cs219.lib.h cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated/cs219.lib.h > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated/cs219.lib.h.tmp cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mv -f /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated/cs219.lib.h.tmp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated/cs219.lib.h make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 7%] Built target generated make -f src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/DependInfo.cmake "--color=" hhviterbialgorithm_with_celloff_and_ss make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' make -f src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 8%] Building CXX object src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DVITERBI_CELLOFF=1 -DVITERBI_SS_SCORE=1 -MD -MT src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o -MF CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o.d -o CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbialgorithm.cpp [ 9%] Linking CXX static library libhhviterbialgorithm_with_celloff.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_with_celloff.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_with_celloff.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libhhviterbialgorithm_with_celloff.a CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o /usr/bin/x86_64-linux-gnu-ranlib libhhviterbialgorithm_with_celloff.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 9%] Built target hhviterbialgorithm_with_celloff make -f src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_and_ss.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src/CMakeFiles/hhviterbialgorithm_and_ss.dir/DependInfo.cmake "--color=" hhviterbialgorithm_and_ss make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' make -f src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 10%] Building CXX object src/CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DVITERBI_SS_SCORE=1 -MD -MT src/CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o -MF CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o.d -o CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbialgorithm.cpp [ 11%] Linking CXX static library libhhviterbialgorithm_with_celloff_and_ss.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libhhviterbialgorithm_with_celloff_and_ss.a CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o /usr/bin/x86_64-linux-gnu-ranlib libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 11%] Built target hhviterbialgorithm_with_celloff_and_ss make -f src/cs/CMakeFiles/CS_OBJECTS.dir/build.make src/cs/CMakeFiles/CS_OBJECTS.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src/cs /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src/cs/CMakeFiles/CS_OBJECTS.dir/DependInfo.cmake "--color=" CS_OBJECTS make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' make -f src/cs/CMakeFiles/CS_OBJECTS.dir/build.make src/cs/CMakeFiles/CS_OBJECTS.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 12%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/aa.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/aa.cc.o -MF CMakeFiles/CS_OBJECTS.dir/aa.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/aa.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/aa.cc [ 13%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/as.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/as.cc.o -MF CMakeFiles/CS_OBJECTS.dir/as.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/as.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/as.cc [ 14%] Linking CXX static library libhhviterbialgorithm_and_ss.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_and_ss.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_and_ss.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libhhviterbialgorithm_and_ss.a CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o /usr/bin/x86_64-linux-gnu-ranlib libhhviterbialgorithm_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 14%] Built target hhviterbialgorithm_and_ss make -f src/CMakeFiles/A3M_COMPRESS.dir/build.make src/CMakeFiles/A3M_COMPRESS.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src/CMakeFiles/A3M_COMPRESS.dir/DependInfo.cmake "--color=" A3M_COMPRESS make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' make -f src/CMakeFiles/A3M_COMPRESS.dir/build.make src/CMakeFiles/A3M_COMPRESS.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 14%] Building CXX object src/CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o -MF CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o.d -o CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_compress.cpp [ 15%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o -MF CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/assert_helpers.cc /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_compress.cpp: In function ‘std::string& rtrim(std::string&)’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_compress.cpp:504:43: warning: ‘std::pointer_to_unary_function<_Arg, _Result> std::ptr_fun(_Result (*)(_Arg)) [with _Arg = int; _Result = int]’ is deprecated: use 'std::function' instead [-Wdeprecated-declarations] 504 | std::not1(std::ptr_fun(std::isspace))).base(), s.end()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ In file included from /usr/include/c++/16/string:52, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/bits/ostream.h:43, from /usr/include/c++/16/ostream:42, from /usr/include/c++/16/iostream:43, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_compress.h:11, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_compress.cpp:8: /usr/include/c++/16/bits/stl_function.h:1214:5: note: declared here 1214 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ [ 16%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o -MF CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/blosum_matrix.cc [ 17%] Linking CXX static library libA3M_COMPRESS.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/cmake -P CMakeFiles/A3M_COMPRESS.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/A3M_COMPRESS.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libA3M_COMPRESS.a CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o /usr/bin/x86_64-linux-gnu-ranlib libA3M_COMPRESS.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 17%] Built target A3M_COMPRESS make -f lib/ffindex/src/CMakeFiles/ffindex_apply.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_apply.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src/CMakeFiles/ffindex_apply.dir/DependInfo.cmake "--color=" ffindex_apply make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' make -f lib/ffindex/src/CMakeFiles/ffindex_apply.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_apply.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 18%] Building C object lib/ffindex/src/CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -UHAVE_MPI -MD -MT lib/ffindex/src/CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o -MF CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o.d -o CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_apply_mpi.c [ 19%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o -MF CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/getopt_pp.cc /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_apply_mpi.c: In function ‘ffindex_apply_by_entry’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_apply_mpi.c:172:53: warning: format ‘%lld’ expects argument of type ‘long long int’, but argument 6 has type ‘int64_t’ {aka ‘long int’} [-Wformat=] 172 | fprintf(log_file_out, "%s\t%ld\t%ld\t%lld\t%d\n", entry->name, entry->offset, entry->length, end - start, WEXITSTATUS(status)); | ~~~^ ~~~~~~~~~~~ | | | | long long int int64_t {aka long int} | %ld [ 20%] Linking C executable ffindex_apply cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_apply.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-gcc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ffindex_apply.dir/link.d CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o -o ffindex_apply libffindex.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 20%] Built target ffindex_apply make -f lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/DependInfo.cmake "--color=" ffindex_reduce make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' make -f lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 21%] Building C object lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o -MF CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o.d -o CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_reduce.c [ 22%] Linking C executable ffindex_reduce cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_reduce.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-gcc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ffindex_reduce.dir/link.d CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o -o ffindex_reduce libffindex.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 22%] Built target ffindex_reduce make -f lib/ffindex/src/CMakeFiles/ffindex_build.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_build.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src/CMakeFiles/ffindex_build.dir/DependInfo.cmake "--color=" ffindex_build make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' make -f lib/ffindex/src/CMakeFiles/ffindex_build.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_build.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 23%] Building C object lib/ffindex/src/CMakeFiles/ffindex_build.dir/ffindex_build.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex_build.dir/ffindex_build.c.o -MF CMakeFiles/ffindex_build.dir/ffindex_build.c.o.d -o CMakeFiles/ffindex_build.dir/ffindex_build.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_build.c [ 24%] Linking C executable ffindex_build cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_build.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-gcc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ffindex_build.dir/link.d CMakeFiles/ffindex_build.dir/ffindex_build.c.o -o ffindex_build libffindex.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 24%] Built target ffindex_build make -f lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/DependInfo.cmake "--color=" ffindex_from_fasta make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' make -f lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 25%] Building C object lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o -MF CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o.d -o CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_from_fasta.c [ 26%] Linking C executable ffindex_from_fasta cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_from_fasta.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-gcc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ffindex_from_fasta.dir/link.d CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o -o ffindex_from_fasta libffindex.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 26%] Built target ffindex_from_fasta make -f lib/ffindex/src/CMakeFiles/ffindex_get.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_get.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src/CMakeFiles/ffindex_get.dir/DependInfo.cmake "--color=" ffindex_get make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' make -f lib/ffindex/src/CMakeFiles/ffindex_get.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_get.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 27%] Building C object lib/ffindex/src/CMakeFiles/ffindex_get.dir/ffindex_get.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex_get.dir/ffindex_get.c.o -MF CMakeFiles/ffindex_get.dir/ffindex_get.c.o.d -o CMakeFiles/ffindex_get.dir/ffindex_get.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_get.c [ 28%] Linking C executable ffindex_get cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_get.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-gcc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ffindex_get.dir/link.d CMakeFiles/ffindex_get.dir/ffindex_get.c.o -o ffindex_get libffindex.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 28%] Built target ffindex_get make -f lib/ffindex/src/CMakeFiles/ffindex_modify.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_modify.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src/CMakeFiles/ffindex_modify.dir/DependInfo.cmake "--color=" ffindex_modify make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' make -f lib/ffindex/src/CMakeFiles/ffindex_modify.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_modify.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 29%] Building C object lib/ffindex/src/CMakeFiles/ffindex_modify.dir/ffindex_modify.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex_modify.dir/ffindex_modify.c.o -MF CMakeFiles/ffindex_modify.dir/ffindex_modify.c.o.d -o CMakeFiles/ffindex_modify.dir/ffindex_modify.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_modify.c [ 30%] Linking C executable ffindex_modify cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_modify.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-gcc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ffindex_modify.dir/link.d CMakeFiles/ffindex_modify.dir/ffindex_modify.c.o -o ffindex_modify libffindex.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 30%] Built target ffindex_modify [ 31%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/log.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/log.cc.o -MF CMakeFiles/CS_OBJECTS.dir/log.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/log.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/log.cc [ 32%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/application.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP 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Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/DependInfo.cmake "--color=" ffindex_unpack make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' make -f lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 33%] Building C object lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/ffindex_unpack.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc 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"CMakeFiles/a3m_extract-sse3.dir/a3m_extract.cpp.o" -o a3m_extract-sse3 ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 43%] Built target a3m_extract-sse3 make -f src/CMakeFiles/a3m_database_reduce-sse3.dir/build.make src/CMakeFiles/a3m_database_reduce-sse3.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src/CMakeFiles/a3m_database_reduce-sse3.dir/DependInfo.cmake "--color=" a3m_database_reduce-sse3 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' make -f src/CMakeFiles/a3m_database_reduce-sse3.dir/build.make src/CMakeFiles/a3m_database_reduce-sse3.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 44%] Building CXX object src/CMakeFiles/a3m_database_reduce-sse3.dir/a3m_database_reduce.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time 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'/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 44%] Built target a3m_reduce-sse3 make -f src/CMakeFiles/a3m_database_extract-sse3.dir/build.make src/CMakeFiles/a3m_database_extract-sse3.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src/CMakeFiles/a3m_database_extract-sse3.dir/DependInfo.cmake "--color=" a3m_database_extract-sse3 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' make -f src/CMakeFiles/a3m_database_extract-sse3.dir/build.make src/CMakeFiles/a3m_database_extract-sse3.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 45%] Building CXX object src/CMakeFiles/a3m_database_extract-sse3.dir/a3m_database_extract.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/a3m_database_extract-sse3.dir/a3m_database_extract.cpp.o -MF CMakeFiles/a3m_database_extract-sse3.dir/a3m_database_extract.cpp.o.d -o CMakeFiles/a3m_database_extract-sse3.dir/a3m_database_extract.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_database_extract.cpp [ 46%] Linking CXX executable a3m_database_reduce-sse3 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_reduce-sse3.dir/link.txt --verbose=1 [ 47%] Linking CXX executable a3m_database_extract-sse3 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_extract-sse3.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/a3m_database_reduce-sse3.dir/link.d "CMakeFiles/a3m_database_reduce-sse3.dir/a3m_database_reduce.cpp.o" -o a3m_database_reduce-sse3 ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 47%] Built target a3m_database_reduce-sse3 make -f src/CMakeFiles/a3m_database_filter-sse3.dir/build.make src/CMakeFiles/a3m_database_filter-sse3.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src/CMakeFiles/a3m_database_filter-sse3.dir/DependInfo.cmake "--color=" a3m_database_filter-sse3 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/a3m_database_extract-sse3.dir/link.d "CMakeFiles/a3m_database_extract-sse3.dir/a3m_database_extract.cpp.o" -o a3m_database_extract-sse3 ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 47%] Built target a3m_database_extract-sse3 make -f src/CMakeFiles/HH_OBJECTS.dir/build.make src/CMakeFiles/HH_OBJECTS.dir/depend make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' make -f src/CMakeFiles/a3m_database_filter-sse3.dir/build.make src/CMakeFiles/a3m_database_filter-sse3.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src/CMakeFiles/HH_OBJECTS.dir/DependInfo.cmake "--color=" HH_OBJECTS [ 48%] Building CXX object src/CMakeFiles/a3m_database_filter-sse3.dir/a3m_database_filter.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/a3m_database_filter-sse3.dir/a3m_database_filter.cpp.o -MF CMakeFiles/a3m_database_filter-sse3.dir/a3m_database_filter.cpp.o.d -o CMakeFiles/a3m_database_filter-sse3.dir/a3m_database_filter.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_database_filter.cpp make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' make -f src/CMakeFiles/HH_OBJECTS.dir/build.make src/CMakeFiles/HH_OBJECTS.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 49%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits.cpp [ 50%] Linking CXX executable a3m_database_filter-sse3 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_filter-sse3.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/a3m_database_filter-sse3.dir/link.d "CMakeFiles/a3m_database_filter-sse3.dir/a3m_database_filter.cpp.o" -o a3m_database_filter-sse3 ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 50%] Built target a3m_database_filter-sse3 [ 51%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhdecl.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhdecl.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhdecl.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhdecl.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhdecl.cpp [ 52%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x 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-fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhmatrices.cpp [ 54%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat 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-ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalign.cpp [ 56%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhhitlist.cpp [ 57%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhposteriordecoder.cpp [ 58%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP 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CXX object src/CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.cpp [ 61%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhforwardalgorithm.cpp [ 62%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhhmm.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.cpp: In member function ‘int Alignment::Filter2(char*, int, int, float, int, int, int, const float (*)[20])’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.cpp:1797:39: warning: ‘%s’ directive writing up to 4095 bytes into a region of size 86 [-Wformat-overflow=] 1797 | sprintf(details, "The alingment %s does not contain any sequences.", | ^~ In file included from /usr/include/stdio.h:974, from /usr/include/c++/16/cstdio:47, from /usr/include/c++/16/ext/string_conversions.h:47, from /usr/include/c++/16/bits/basic_string.h:4499, from /usr/include/c++/16/string:58, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/istream:42, from /usr/include/c++/16/fstream:42, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.h:6, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.cpp:8: In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘int Alignment::Filter2(char*, int, int, float, int, int, int, const float (*)[20])’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.cpp:1797:14: /usr/include/x86_64-linux-gnu/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 47 and 4142 bytes into a destination of size 100 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 63%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhposteriordecoderrunner.cpp.o cd 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/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhposteriordecoderrunner.cpp [ 64%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbialgorithm.cpp [ 65%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd 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-Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhhmmsimd.cpp [ 67%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhposteriormatrix.cpp [ 68%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbi.cpp [ 69%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhbacktracemac.cpp [ 70%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhmacalgorithm.cpp [ 71%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhprefilter.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && 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src/CMakeFiles/HH_OBJECTS.dir/hhviterbimatrix.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhviterbimatrix.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhviterbimatrix.cpp.o.d -o 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-MT src/CMakeFiles/HH_OBJECTS.dir/hhbackwardalgorithm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhbackwardalgorithm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhbackwardalgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhbackwardalgorithm.cpp [ 74%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/ffindexdatabase.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/ffindexdatabase.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/ffindexdatabase.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/ffindexdatabase.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/ffindexdatabase.cpp [ 75%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhdatabase.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhdatabase.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhdatabase.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhdatabase.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhdatabase.cpp [ 76%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhhalfalignment.cpp [ 77%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbirunner.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhviterbirunner.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhviterbirunner.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhviterbirunner.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbirunner.cpp [ 78%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhfunc.cpp [ 79%] Linking CXX static library libHH_OBJECTS.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/cmake -P CMakeFiles/HH_OBJECTS.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/cmake -E 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-fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/hhfilter-sse3.dir/hhfilter.cpp.o -MF CMakeFiles/hhfilter-sse3.dir/hhfilter.cpp.o.d -o CMakeFiles/hhfilter-sse3.dir/hhfilter.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhfilter.cpp [ 84%] Linking CXX executable hhmake-sse3 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhmake-sse3.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp 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-fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DHHALIGN=1 -MD -MT src/CMakeFiles/hhalign-sse3.dir/hhblits_app.cpp.o -MF CMakeFiles/hhalign-sse3.dir/hhblits_app.cpp.o.d -o CMakeFiles/hhalign-sse3.dir/hhblits_app.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_app.cpp [ 88%] Linking CXX executable hhfilter-sse3 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhfilter-sse3.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhfilter-sse3.dir/link.d "CMakeFiles/hhfilter-sse3.dir/hhfilter.cpp.o" -o hhfilter-sse3 libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 88%] Built target hhfilter-sse3 make -f src/CMakeFiles/hhconsensus-sse3.dir/build.make src/CMakeFiles/hhconsensus-sse3.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src/CMakeFiles/hhconsensus-sse3.dir/DependInfo.cmake "--color=" hhconsensus-sse3 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' make -f src/CMakeFiles/hhconsensus-sse3.dir/build.make src/CMakeFiles/hhconsensus-sse3.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 89%] Building CXX object src/CMakeFiles/hhconsensus-sse3.dir/hhconsensus.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/hhconsensus-sse3.dir/hhconsensus.cpp.o -MF CMakeFiles/hhconsensus-sse3.dir/hhconsensus.cpp.o.d -o CMakeFiles/hhconsensus-sse3.dir/hhconsensus.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhconsensus.cpp [ 90%] Linking CXX executable hhalign-sse3 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhalign-sse3.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhalign-sse3.dir/link.d "CMakeFiles/hhalign-sse3.dir/hhblits_app.cpp.o" -o hhalign-sse3 libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 90%] Built target hhalign-sse3 make -f src/CMakeFiles/cstranslate-sse3.dir/build.make src/CMakeFiles/cstranslate-sse3.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src/CMakeFiles/cstranslate-sse3.dir/DependInfo.cmake "--color=" cstranslate-sse3 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' make -f src/CMakeFiles/cstranslate-sse3.dir/build.make src/CMakeFiles/cstranslate-sse3.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 91%] Building CXX object src/CMakeFiles/cstranslate-sse3.dir/cs/cstranslate_app.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/cstranslate-sse3.dir/cs/cstranslate_app.cc.o -MF CMakeFiles/cstranslate-sse3.dir/cs/cstranslate_app.cc.o.d -o CMakeFiles/cstranslate-sse3.dir/cs/cstranslate_app.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/cstranslate_app.cc [ 92%] Linking CXX executable hhconsensus-sse3 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhconsensus-sse3.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhconsensus-sse3.dir/link.d "CMakeFiles/hhconsensus-sse3.dir/hhconsensus.cpp.o" -o hhconsensus-sse3 libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 92%] Built target hhconsensus-sse3 make -f src/CMakeFiles/hhblits_omp-sse3.dir/build.make src/CMakeFiles/hhblits_omp-sse3.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src/CMakeFiles/hhblits_omp-sse3.dir/DependInfo.cmake "--color=" hhblits_omp-sse3 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' make -f src/CMakeFiles/hhblits_omp-sse3.dir/build.make src/CMakeFiles/hhblits_omp-sse3.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 93%] Building CXX object src/CMakeFiles/hhblits_omp-sse3.dir/hhblits_omp.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/hhblits_omp-sse3.dir/hhblits_omp.cpp.o -MF CMakeFiles/hhblits_omp-sse3.dir/hhblits_omp.cpp.o.d -o CMakeFiles/hhblits_omp-sse3.dir/hhblits_omp.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:51: warning: ‘.ffindex’ directive output may be truncated writing 8 bytes into a region of size between 1 and 4096 [-Wformat-truncation=] 26 | snprintf(index_filename, FILENAME_MAX, "%s.ffindex", base); | ^~~~~~~~ In file included from /usr/include/stdio.h:974, from /usr/include/c++/16/cstdio:47, from /usr/include/c++/16/ext/string_conversions.h:47, from /usr/include/c++/16/bits/basic_string.h:4499, from /usr/include/c++/16/string:58, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/istream:42, from /usr/include/c++/16/fstream:42, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits.h:11, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhsearch.h:34, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 94%] Linking CXX executable hhblits_omp-sse3 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhblits_omp-sse3.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhblits_omp-sse3.dir/link.d "CMakeFiles/hhblits_omp-sse3.dir/hhblits_omp.cpp.o" -o hhblits_omp-sse3 libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 94%] Built target hhblits_omp-sse3 make -f src/CMakeFiles/hhsearch_omp-sse3.dir/build.make src/CMakeFiles/hhsearch_omp-sse3.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src/CMakeFiles/hhsearch_omp-sse3.dir/DependInfo.cmake "--color=" hhsearch_omp-sse3 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' make -f src/CMakeFiles/hhsearch_omp-sse3.dir/build.make src/CMakeFiles/hhsearch_omp-sse3.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 95%] Building CXX object src/CMakeFiles/hhsearch_omp-sse3.dir/hhblits_omp.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DHHSEARCH=1 -MD -MT src/CMakeFiles/hhsearch_omp-sse3.dir/hhblits_omp.cpp.o -MF CMakeFiles/hhsearch_omp-sse3.dir/hhblits_omp.cpp.o.d -o CMakeFiles/hhsearch_omp-sse3.dir/hhblits_omp.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:51: warning: ‘.ffindex’ directive output may be truncated writing 8 bytes into a region of size between 1 and 4096 [-Wformat-truncation=] 26 | snprintf(index_filename, FILENAME_MAX, "%s.ffindex", base); | ^~~~~~~~ In file included from /usr/include/stdio.h:974, from /usr/include/c++/16/cstdio:47, from /usr/include/c++/16/ext/string_conversions.h:47, from /usr/include/c++/16/bits/basic_string.h:4499, from /usr/include/c++/16/string:58, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/istream:42, from /usr/include/c++/16/fstream:42, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits.h:11, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhsearch.h:34, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 96%] Linking CXX executable hhsearch_omp-sse3 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhsearch_omp-sse3.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhsearch_omp-sse3.dir/link.d "CMakeFiles/hhsearch_omp-sse3.dir/hhblits_omp.cpp.o" -o hhsearch_omp-sse3 libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 96%] Built target hhsearch_omp-sse3 make -f src/CMakeFiles/hhalign_omp-sse3.dir/build.make src/CMakeFiles/hhalign_omp-sse3.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src/CMakeFiles/hhalign_omp-sse3.dir/DependInfo.cmake "--color=" hhalign_omp-sse3 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' make -f src/CMakeFiles/hhalign_omp-sse3.dir/build.make src/CMakeFiles/hhalign_omp-sse3.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 97%] Building CXX object src/CMakeFiles/hhalign_omp-sse3.dir/hhblits_omp.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DHHALIGN=1 -MD -MT src/CMakeFiles/hhalign_omp-sse3.dir/hhblits_omp.cpp.o -MF CMakeFiles/hhalign_omp-sse3.dir/hhblits_omp.cpp.o.d -o CMakeFiles/hhalign_omp-sse3.dir/hhblits_omp.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:51: warning: ‘.ffindex’ directive output may be truncated writing 8 bytes into a region of size between 1 and 4096 [-Wformat-truncation=] 26 | snprintf(index_filename, FILENAME_MAX, "%s.ffindex", base); | ^~~~~~~~ In file included from /usr/include/stdio.h:974, from /usr/include/c++/16/cstdio:47, from /usr/include/c++/16/ext/string_conversions.h:47, from /usr/include/c++/16/bits/basic_string.h:4499, from /usr/include/c++/16/string:58, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/istream:42, from /usr/include/c++/16/fstream:42, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits.h:11, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhsearch.h:34, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 98%] Linking CXX executable hhalign_omp-sse3 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhalign_omp-sse3.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhalign_omp-sse3.dir/link.d "CMakeFiles/hhalign_omp-sse3.dir/hhblits_omp.cpp.o" -o hhalign_omp-sse3 libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 98%] Built target hhalign_omp-sse3 make -f src/CMakeFiles/hhblits_ca3m-sse3.dir/build.make src/CMakeFiles/hhblits_ca3m-sse3.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src/CMakeFiles/hhblits_ca3m-sse3.dir/DependInfo.cmake "--color=" hhblits_ca3m-sse3 make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' make -f src/CMakeFiles/hhblits_ca3m-sse3.dir/build.make src/CMakeFiles/hhblits_ca3m-sse3.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [ 99%] Building CXX object src/CMakeFiles/hhblits_ca3m-sse3.dir/hhblits_ca3m.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/hhblits_ca3m-sse3.dir/hhblits_ca3m.cpp.o -MF CMakeFiles/hhblits_ca3m-sse3.dir/hhblits_ca3m.cpp.o.d -o CMakeFiles/hhblits_ca3m-sse3.dir/hhblits_ca3m.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp: In function ‘int main(int, const char**)’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp:24:49: warning: ‘.ffindex’ directive output may be truncated writing 8 bytes into a region of size between 1 and 4096 [-Wformat-truncation=] 24 | snprintf(index_filename, FILENAME_MAX, "%s.ffindex", base); | ^~~~~~~~ In file included from /usr/include/stdio.h:974, from /usr/include/c++/16/cstdio:47, from /usr/include/c++/16/ext/string_conversions.h:47, from /usr/include/c++/16/bits/basic_string.h:4499, from /usr/include/c++/16/string:58, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/istream:42, from /usr/include/c++/16/fstream:42, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits.h:11, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp:24:15, inlined from ‘int main(int, const char**)’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp:358:29: /usr/include/x86_64-linux-gnu/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 99%] Linking CXX executable cstranslate-sse3 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/cstranslate-sse3.dir/link.txt --verbose=1 [100%] Linking CXX executable hhblits_ca3m-sse3 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhblits_ca3m-sse3.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/cstranslate-sse3.dir/link.d "CMakeFiles/cstranslate-sse3.dir/cs/cstranslate_app.cc.o" -o cstranslate-sse3 libHH_OBJECTS.a libA3M_COMPRESS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [100%] Built target cstranslate-sse3 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -msse3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhblits_ca3m-sse3.dir/link.d "CMakeFiles/hhblits_ca3m-sse3.dir/hhblits_ca3m.cpp.o" -o hhblits_ca3m-sse3 libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' [100%] Built target hhblits_ca3m-sse3 make[3]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' /usr/bin/cmake -E cmake_progress_start /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3/CMakeFiles 0 make[2]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' cd build_plain && make -j2 INSTALL="install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' /usr/bin/cmake -S/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds -B/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/CMakeFiles /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' make -f lib/ffindex/src/CMakeFiles/ffindex.dir/build.make lib/ffindex/src/CMakeFiles/ffindex.dir/depend make -f data/CMakeFiles/generated.dir/build.make data/CMakeFiles/generated.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data 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'/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' make -f data/CMakeFiles/generated.dir/build.make data/CMakeFiles/generated.dir/build [ 1%] Building C object lib/ffindex/src/CMakeFiles/ffindex.dir/ffindex.c.o make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex.dir/ffindex.c.o -MF CMakeFiles/ffindex.dir/ffindex.c.o.d -o CMakeFiles/ffindex.dir/ffindex.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex.c [ 2%] Generating ../generated/context_data.crf.h cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mkdir -p /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/cmake/xxdi.pl context_data.crf > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated/context_data.crf.h [ 3%] Building C object lib/ffindex/src/CMakeFiles/ffindex.dir/ffutil.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex.dir/ffutil.c.o -MF CMakeFiles/ffindex.dir/ffutil.c.o.d -o CMakeFiles/ffindex.dir/ffutil.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffutil.c [ 4%] Linking C static library libffindex.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/lib/ffindex/src && /usr/bin/cmake -P CMakeFiles/ffindex.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libffindex.a CMakeFiles/ffindex.dir/ffindex.c.o CMakeFiles/ffindex.dir/ffutil.c.o /usr/bin/x86_64-linux-gnu-ranlib libffindex.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' [ 4%] Built target ffindex make -f src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/DependInfo.cmake "--color=" hhviterbialgorithm_with_celloff make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' make -f src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' [ 5%] Building CXX object src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DVITERBI_CELLOFF=1 -MD -MT src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o -MF CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o.d -o CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbialgorithm.cpp [ 6%] Linking CXX static library libhhviterbialgorithm_with_celloff.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_with_celloff.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_with_celloff.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libhhviterbialgorithm_with_celloff.a CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o /usr/bin/x86_64-linux-gnu-ranlib libhhviterbialgorithm_with_celloff.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' [ 6%] Built target hhviterbialgorithm_with_celloff [ 7%] Generating ../generated/context_data.lib.h cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mkdir -p /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/cmake/xxdi.pl context_data.lib > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated/context_data.lib.h cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated/context_data.crf.h > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated/context_data.crf.h.tmp cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mv -f /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated/context_data.crf.h.tmp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated/context_data.crf.h [ 8%] Generating ../generated/cs219.lib.h cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mkdir -p /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/cmake/xxdi.pl cs219.lib > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated/cs219.lib.h cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated/cs219.lib.h > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated/cs219.lib.h.tmp cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mv -f /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated/cs219.lib.h.tmp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated/cs219.lib.h make -f src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/DependInfo.cmake "--color=" hhviterbialgorithm_with_celloff_and_ss make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' make -f src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' [ 9%] Building CXX object src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DVITERBI_CELLOFF=1 -DVITERBI_SS_SCORE=1 -MD -MT src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o -MF CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o.d -o CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbialgorithm.cpp cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated/context_data.lib.h > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated/context_data.lib.h.tmp cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mv -f /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated/context_data.lib.h.tmp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated/context_data.lib.h make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' [ 9%] Built target generated make -f src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_and_ss.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src/CMakeFiles/hhviterbialgorithm_and_ss.dir/DependInfo.cmake "--color=" hhviterbialgorithm_and_ss make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' make -f src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' [ 10%] Building CXX object src/CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DVITERBI_SS_SCORE=1 -MD -MT src/CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o -MF CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o.d -o CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbialgorithm.cpp [ 11%] Linking CXX static library libhhviterbialgorithm_with_celloff_and_ss.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libhhviterbialgorithm_with_celloff_and_ss.a CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o /usr/bin/x86_64-linux-gnu-ranlib libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' [ 11%] Built target hhviterbialgorithm_with_celloff_and_ss make -f src/cs/CMakeFiles/CS_OBJECTS.dir/build.make src/cs/CMakeFiles/CS_OBJECTS.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src/cs /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src/cs/CMakeFiles/CS_OBJECTS.dir/DependInfo.cmake "--color=" CS_OBJECTS make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' make -f src/cs/CMakeFiles/CS_OBJECTS.dir/build.make src/cs/CMakeFiles/CS_OBJECTS.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' [ 12%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/aa.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/aa.cc.o -MF CMakeFiles/CS_OBJECTS.dir/aa.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/aa.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/aa.cc [ 13%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/as.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/as.cc.o -MF CMakeFiles/CS_OBJECTS.dir/as.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/as.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/as.cc [ 14%] Linking CXX static library libhhviterbialgorithm_and_ss.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_and_ss.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_and_ss.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libhhviterbialgorithm_and_ss.a CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o /usr/bin/x86_64-linux-gnu-ranlib libhhviterbialgorithm_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' [ 14%] Built target hhviterbialgorithm_and_ss make -f src/CMakeFiles/A3M_COMPRESS.dir/build.make src/CMakeFiles/A3M_COMPRESS.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src/CMakeFiles/A3M_COMPRESS.dir/DependInfo.cmake "--color=" A3M_COMPRESS make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' make -f src/CMakeFiles/A3M_COMPRESS.dir/build.make src/CMakeFiles/A3M_COMPRESS.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' [ 14%] Building CXX object src/CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o -MF CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o.d -o CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_compress.cpp [ 15%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o -MF CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/assert_helpers.cc /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_compress.cpp: In function ‘std::string& rtrim(std::string&)’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_compress.cpp:504:43: warning: ‘std::pointer_to_unary_function<_Arg, _Result> std::ptr_fun(_Result (*)(_Arg)) [with _Arg = int; _Result = int]’ is deprecated: use 'std::function' instead [-Wdeprecated-declarations] 504 | std::not1(std::ptr_fun(std::isspace))).base(), s.end()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ In file included from /usr/include/c++/16/string:52, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/bits/ostream.h:43, from /usr/include/c++/16/ostream:42, from /usr/include/c++/16/iostream:43, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_compress.h:11, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/a3m_compress.cpp:8: /usr/include/c++/16/bits/stl_function.h:1214:5: note: declared here 1214 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ [ 16%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o -MF CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/blosum_matrix.cc [ 17%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src/cs && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o -MF CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/getopt_pp.cc [ 18%] Linking CXX static library libA3M_COMPRESS.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/cmake -P CMakeFiles/A3M_COMPRESS.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && 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make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' make -f lib/ffindex/src/CMakeFiles/ffindex_apply.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_apply.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' [ 19%] Building C object lib/ffindex/src/CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/lib/ffindex/src && /usr/bin/x86_64-linux-gnu-gcc -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -UHAVE_MPI -MD -MT lib/ffindex/src/CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o -MF CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o.d -o CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_apply_mpi.c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_apply_mpi.c: In function ‘ffindex_apply_by_entry’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_apply_mpi.c:172:53: warning: format ‘%lld’ expects argument of type ‘long long int’, but argument 6 has type ‘int64_t’ {aka ‘long int’} [-Wformat=] 172 | fprintf(log_file_out, "%s\t%ld\t%ld\t%lld\t%d\n", entry->name, entry->offset, entry->length, end - start, WEXITSTATUS(status)); | ~~~^ ~~~~~~~~~~~ | | | | long long int int64_t {aka long int} | %ld [ 20%] Linking C executable ffindex_apply cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/lib/ffindex/src && /usr/bin/cmake -E 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-Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/cs/CMakeFiles/CS_OBJECTS.dir/application.cc.o -MF CMakeFiles/CS_OBJECTS.dir/application.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/application.cc.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs/application.cc [ 28%] Linking C executable ffindex_from_fasta cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_from_fasta.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-gcc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ffindex_from_fasta.dir/link.d CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o -o ffindex_from_fasta libffindex.a make[4]: Leaving 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-I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex_modify.dir/ffindex_modify.c.o -MF CMakeFiles/ffindex_modify.dir/ffindex_modify.c.o.d -o CMakeFiles/ffindex_modify.dir/ffindex_modify.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_modify.c [ 32%] Linking C executable ffindex_modify cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script 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-ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT lib/ffindex/src/CMakeFiles/ffindex_order.dir/ffindex_order.c.o -MF CMakeFiles/ffindex_order.dir/ffindex_order.c.o.d -o CMakeFiles/ffindex_order.dir/ffindex_order.c.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src/ffindex_order.c [ 36%] Linking CXX static library libCS_OBJECTS.a cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src/cs && /usr/bin/cmake -P CMakeFiles/CS_OBJECTS.dir/cmake_clean_target.cmake cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src/cs && /usr/bin/cmake -E cmake_link_script CMakeFiles/CS_OBJECTS.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-ar qc libCS_OBJECTS.a CMakeFiles/CS_OBJECTS.dir/aa.cc.o CMakeFiles/CS_OBJECTS.dir/as.cc.o CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o 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src/CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits.cpp [ 40%] Linking C executable ffindex_from_fasta_with_split cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_from_fasta_with_split.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-gcc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ffindex_from_fasta_with_split.dir/link.d CMakeFiles/ffindex_from_fasta_with_split.dir/ffindex_from_fasta_with_split.c.o -o ffindex_from_fasta_with_split libffindex.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' 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-Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhhit.cpp [ 53%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhmatrices.cpp [ 54%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhsearch.cpp [ 55%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalign.cpp [ 56%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhhitlist.cpp [ 57%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP 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-fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhforwardalgorithm.cpp [ 62%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhhmm.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.cpp: In member function ‘int Alignment::Filter2(char*, int, int, float, int, int, int, const float (*)[20])’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.cpp:1797:39: warning: ‘%s’ directive writing up to 4095 bytes into a region of size 86 [-Wformat-overflow=] 1797 | sprintf(details, "The alingment %s does not contain any sequences.", | ^~ In file included from /usr/include/stdio.h:974, from /usr/include/c++/16/cstdio:47, from /usr/include/c++/16/ext/string_conversions.h:47, from /usr/include/c++/16/bits/basic_string.h:4499, from /usr/include/c++/16/string:58, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/istream:42, from /usr/include/c++/16/fstream:42, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.h:6, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.cpp:8: In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘int Alignment::Filter2(char*, int, int, float, int, int, int, const float (*)[20])’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhalignment.cpp:1797:14: /usr/include/x86_64-linux-gnu/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 47 and 4142 bytes into a destination of size 100 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 63%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhposteriordecoderrunner.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhposteriordecoderrunner.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhposteriordecoderrunner.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhposteriordecoderrunner.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhposteriordecoderrunner.cpp [ 64%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbialgorithm.cpp [ 65%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhfullalignment.cpp [ 66%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 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-I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhposteriormatrix.cpp [ 68%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhviterbi.cpp [ 69%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhbacktracemac.cpp [ 70%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o -c 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src/CMakeFiles/hhblits_omp-plain.dir/build.make src/CMakeFiles/hhblits_omp-plain.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src/CMakeFiles/hhblits_omp-plain.dir/DependInfo.cmake "--color=" hhblits_omp-plain make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' make -f src/CMakeFiles/hhblits_omp-plain.dir/build.make src/CMakeFiles/hhblits_omp-plain.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' [ 93%] Building CXX object src/CMakeFiles/hhblits_omp-plain.dir/hhblits_omp.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/hhblits_omp-plain.dir/hhblits_omp.cpp.o -MF CMakeFiles/hhblits_omp-plain.dir/hhblits_omp.cpp.o.d -o CMakeFiles/hhblits_omp-plain.dir/hhblits_omp.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:51: warning: ‘.ffindex’ directive output may be truncated writing 8 bytes into a region of size between 1 and 4096 [-Wformat-truncation=] 26 | snprintf(index_filename, FILENAME_MAX, "%s.ffindex", base); | ^~~~~~~~ In file included from /usr/include/stdio.h:974, from /usr/include/c++/16/cstdio:47, from /usr/include/c++/16/ext/string_conversions.h:47, from /usr/include/c++/16/bits/basic_string.h:4499, from /usr/include/c++/16/string:58, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/istream:42, from /usr/include/c++/16/fstream:42, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits.h:11, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhsearch.h:34, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 94%] Linking CXX executable hhblits_omp-plain cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhblits_omp-plain.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhblits_omp-plain.dir/link.d "CMakeFiles/hhblits_omp-plain.dir/hhblits_omp.cpp.o" -o hhblits_omp-plain libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' [ 94%] Built target hhblits_omp-plain make -f src/CMakeFiles/hhsearch_omp-plain.dir/build.make src/CMakeFiles/hhsearch_omp-plain.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src/CMakeFiles/hhsearch_omp-plain.dir/DependInfo.cmake "--color=" hhsearch_omp-plain make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' make -f src/CMakeFiles/hhsearch_omp-plain.dir/build.make src/CMakeFiles/hhsearch_omp-plain.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' [ 95%] Building CXX object src/CMakeFiles/hhsearch_omp-plain.dir/hhblits_omp.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DHHSEARCH=1 -MD -MT src/CMakeFiles/hhsearch_omp-plain.dir/hhblits_omp.cpp.o -MF CMakeFiles/hhsearch_omp-plain.dir/hhblits_omp.cpp.o.d -o CMakeFiles/hhsearch_omp-plain.dir/hhblits_omp.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:51: warning: ‘.ffindex’ directive output may be truncated writing 8 bytes into a region of size between 1 and 4096 [-Wformat-truncation=] 26 | snprintf(index_filename, FILENAME_MAX, "%s.ffindex", base); | ^~~~~~~~ In file included from /usr/include/stdio.h:974, from /usr/include/c++/16/cstdio:47, from /usr/include/c++/16/ext/string_conversions.h:47, from /usr/include/c++/16/bits/basic_string.h:4499, from /usr/include/c++/16/string:58, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/istream:42, from /usr/include/c++/16/fstream:42, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits.h:11, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhsearch.h:34, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 96%] Linking CXX executable hhsearch_omp-plain cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhsearch_omp-plain.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhsearch_omp-plain.dir/link.d "CMakeFiles/hhsearch_omp-plain.dir/hhblits_omp.cpp.o" -o hhsearch_omp-plain libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' [ 96%] Built target hhsearch_omp-plain make -f src/CMakeFiles/hhalign_omp-plain.dir/build.make src/CMakeFiles/hhalign_omp-plain.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src/CMakeFiles/hhalign_omp-plain.dir/DependInfo.cmake "--color=" hhalign_omp-plain make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' make -f src/CMakeFiles/hhalign_omp-plain.dir/build.make src/CMakeFiles/hhalign_omp-plain.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' [ 97%] Building CXX object src/CMakeFiles/hhalign_omp-plain.dir/hhblits_omp.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -DHHALIGN=1 -MD -MT src/CMakeFiles/hhalign_omp-plain.dir/hhblits_omp.cpp.o -MF CMakeFiles/hhalign_omp-plain.dir/hhblits_omp.cpp.o.d -o CMakeFiles/hhalign_omp-plain.dir/hhblits_omp.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:51: warning: ‘.ffindex’ directive output may be truncated writing 8 bytes into a region of size between 1 and 4096 [-Wformat-truncation=] 26 | snprintf(index_filename, FILENAME_MAX, "%s.ffindex", base); | ^~~~~~~~ In file included from /usr/include/stdio.h:974, from /usr/include/c++/16/cstdio:47, from /usr/include/c++/16/ext/string_conversions.h:47, from /usr/include/c++/16/bits/basic_string.h:4499, from /usr/include/c++/16/string:58, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/istream:42, from /usr/include/c++/16/fstream:42, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits.h:11, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhsearch.h:34, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 98%] Linking CXX executable hhalign_omp-plain cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhalign_omp-plain.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhalign_omp-plain.dir/link.d "CMakeFiles/hhalign_omp-plain.dir/hhblits_omp.cpp.o" -o hhalign_omp-plain libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' [ 98%] Built target hhalign_omp-plain make -f src/CMakeFiles/hhblits_ca3m-plain.dir/build.make src/CMakeFiles/hhblits_ca3m-plain.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src/CMakeFiles/hhblits_ca3m-plain.dir/DependInfo.cmake "--color=" hhblits_ca3m-plain make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' make -f src/CMakeFiles/hhblits_ca3m-plain.dir/build.make src/CMakeFiles/hhblits_ca3m-plain.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' [ 99%] Building CXX object src/CMakeFiles/hhblits_ca3m-plain.dir/hhblits_ca3m.cpp.o cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/x86_64-linux-gnu-g++ -DOPENMP -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/generated -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/ffindex/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simde -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/lib/simd -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src -I/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/cs -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/hhblits_ca3m-plain.dir/hhblits_ca3m.cpp.o -MF CMakeFiles/hhblits_ca3m-plain.dir/hhblits_ca3m.cpp.o.d -o CMakeFiles/hhblits_ca3m-plain.dir/hhblits_ca3m.cpp.o -c /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp: In function ‘int main(int, const char**)’: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp:24:49: warning: ‘.ffindex’ directive output may be truncated writing 8 bytes into a region of size between 1 and 4096 [-Wformat-truncation=] 24 | snprintf(index_filename, FILENAME_MAX, "%s.ffindex", base); | ^~~~~~~~ In file included from /usr/include/stdio.h:974, from /usr/include/c++/16/cstdio:47, from /usr/include/c++/16/ext/string_conversions.h:47, from /usr/include/c++/16/bits/basic_string.h:4499, from /usr/include/c++/16/string:58, from /usr/include/c++/16/bits/locale_classes.h:43, from /usr/include/c++/16/bits/ios_base.h:43, from /usr/include/c++/16/ios:46, from /usr/include/c++/16/istream:42, from /usr/include/c++/16/fstream:42, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits.h:11, from /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp:24:15, inlined from ‘int main(int, const char**)’ at /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/src/hhblits_ca3m.cpp:358:29: /usr/include/x86_64-linux-gnu/bits/stdio2.h:68:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [100%] Linking CXX executable hhblits_ca3m-plain cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhblits_ca3m-plain.dir/link.txt --verbose=1 [100%] Linking CXX executable cstranslate-plain cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/cstranslate-plain.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hhblits_ca3m-plain.dir/link.d "CMakeFiles/hhblits_ca3m-plain.dir/hhblits_ca3m.cpp.o" -o hhblits_ca3m-plain libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' [100%] Built target hhblits_ca3m-plain /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/cstranslate-plain.dir/link.d "CMakeFiles/cstranslate-plain.dir/cs/cstranslate_app.cc.o" -o cstranslate-plain libHH_OBJECTS.a libA3M_COMPRESS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' [100%] Built target cstranslate-plain make[3]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' /usr/bin/cmake -E cmake_progress_start /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/CMakeFiles 0 make[2]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' make[1]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds' debian/rules override_dh_auto_build-indep make[1]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds' dh_auto_build --builddirectory mybuild/data cd mybuild/data && make -j2 INSTALL="install --strip-program=true" make[2]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild/data' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild && /usr/bin/cmake -S/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds -B/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild --check-build-system CMakeFiles/Makefile.cmake 0 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild && /usr/bin/cmake -E cmake_progress_start /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild/CMakeFiles /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild/data//CMakeFiles/progress.marks cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild && make -f CMakeFiles/Makefile2 data/all make[3]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild' make -f data/CMakeFiles/generated.dir/build.make data/CMakeFiles/generated.dir/depend make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild/data /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild/data/CMakeFiles/generated.dir/DependInfo.cmake "--color=" generated make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild' make -f data/CMakeFiles/generated.dir/build.make data/CMakeFiles/generated.dir/build make[4]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild' [ 33%] Generating ../generated/context_data.crf.h cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mkdir -p /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild/generated cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/cmake/xxdi.pl context_data.crf > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild/generated/context_data.crf.h [ 66%] Generating ../generated/context_data.lib.h cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mkdir -p /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild/generated cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/cmake/xxdi.pl context_data.lib > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild/generated/context_data.lib.h cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild/generated/context_data.lib.h > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild/generated/context_data.lib.h.tmp cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mv -f /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild/generated/context_data.lib.h.tmp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild/generated/context_data.lib.h [100%] Generating ../generated/cs219.lib.h cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mkdir -p /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild/generated cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/cmake/xxdi.pl cs219.lib > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild/generated/cs219.lib.h cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild/generated/cs219.lib.h > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild/generated/cs219.lib.h.tmp cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mv -f /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild/generated/cs219.lib.h.tmp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild/generated/cs219.lib.h cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild/generated/context_data.crf.h > /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild/generated/context_data.crf.h.tmp cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && mv -f /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild/generated/context_data.crf.h.tmp /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild/generated/context_data.crf.h make[4]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild' [100%] Built target generated make[3]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild' /usr/bin/cmake -E cmake_progress_start /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild/CMakeFiles 0 make[2]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild/data' make[1]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds' debian/rules override_dh_auto_test-arch make[1]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds' rm -Rf /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/testdir mkdir -p /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/testdir cd build_plain/src && \ for file in *-plain ; \ do ln -s /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/src/${file} /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/testdir/${file%%-plain} ; done cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/data && PATH=$PATH:/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain/lib/ffindex/src/:/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/testdir ./test.sh - 23:40:54.442 INFO: query.a3m is in A2M, A3M or FASTA format - 23:40:55.225 INFO: Alternative alignment: 0 - 23:40:55.232 INFO: 1 alignments done - 23:40:55.270 INFO: Realigning 1 HMM-HMM alignments using Maximum Accuracy algorithm Query sp|Q5VUD6|FA69B_HUMAN Protein FAM69B OS=Homo sapiens GN=FAM69B PE=2 SV=3 Match_columns 431 No_of_seqs 49 out of 118 Neff 4.29221 Searched_HMMs 1 Date Sat Sep 19 23:40:55 2026 Command hhalign -i query.a3m -o result.hhr -t query.a3m No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 sp|Q5VUD6|FA69B_HUMAN Protein 100.0 9E-168 9E-168 1246.9 0.0 431 1-431 1-431 (431) query.a3m 0 32127 875 0 query.a3m 0 32666 11 0 query.a3m 0 32666 147 0 Reading context library for pseudocounts from internal ... Reading abstract state alphabet from internal ... Processing entry: query.a3m Adding cs-pseudocounts (admix=0.30) ... - 23:40:57.650 INFO: Searching 1 column state sequences. - 23:40:57.757 INFO: query.a3m is in A2M, A3M or FASTA format - 23:40:57.785 INFO: Iteration 1 - 23:40:58.490 INFO: Prefiltering database - 23:40:59.178 INFO: HMMs passed 1st prefilter (gapless profile-profile alignment) : 1 - 23:40:59.178 INFO: HMMs passed 2nd prefilter (gapped profile-profile alignment) : 1 - 23:40:59.178 INFO: HMMs passed 2nd prefilter and not found in previous iterations : 1 - 23:40:59.178 INFO: Scoring 1 HMMs using HMM-HMM Viterbi alignment - 23:40:59.272 INFO: Alternative alignment: 0 - 23:40:59.287 INFO: 1 alignments done - 23:40:59.287 INFO: Alternative alignment: 1 - 23:40:59.301 INFO: 1 alignments done - 23:40:59.301 INFO: Alternative alignment: 2 - 23:40:59.301 INFO: Alternative alignment: 3 - 23:41:00.025 INFO: Premerge done - 23:41:00.027 INFO: Realigning 2 HMM-HMM alignments using Maximum Accuracy algorithm - 23:41:00.054 INFO: 2 sequences belonging to 2 database HMMs found with an E-value < 0.001 Query sp|Q5VUD6|FA69B_HUMAN Protein FAM69B OS=Homo sapiens GN=FAM69B PE=2 SV=3 Match_columns 431 No_of_seqs 59 out of 118 Neff 4.2743 Searched_HMMs 1 Date Sat Sep 19 23:41:00 2026 Command hhblits -i query.a3m -o result.hhr -d single -blasttab blits_app_res -n 1 No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 sp|Q5VUD6|FA69B_HUMAN Protein 100.0 1E-167 5E-169 1249.5 0.0 431 1-431 1-431 (431) 2 sp|Q5VUD6|FA69B_HUMAN Protein 0.2 8.3 0.38 16.3 0.0 17 78-97 344-360 (431) - 23:41:00.075 INFO: Searching 1 column state sequences. - 23:41:00.156 INFO: Thread 0 query.a3m - 23:41:00.177 INFO: query.a3m is in A2M, A3M or FASTA format - 23:41:00.192 INFO: Iteration 1 - 23:41:01.218 INFO: Prefiltering database - 23:41:02.565 INFO: HMMs passed 1st prefilter (gapless profile-profile alignment) : 1 - 23:41:02.566 INFO: HMMs passed 2nd prefilter (gapped profile-profile alignment) : 1 - 23:41:02.566 INFO: HMMs passed 2nd prefilter and not found in previous iterations : 1 - 23:41:02.566 INFO: Scoring 1 HMMs using HMM-HMM Viterbi alignment - 23:41:02.608 INFO: Alternative alignment: 0 - 23:41:02.621 INFO: 1 alignments done - 23:41:02.621 INFO: Alternative alignment: 1 - 23:41:02.631 INFO: 1 alignments done - 23:41:02.631 INFO: Alternative alignment: 2 - 23:41:02.631 INFO: Alternative alignment: 3 - 23:41:03.832 INFO: Premerge done - 23:41:03.832 INFO: Realigning 2 HMM-HMM alignments using Maximum Accuracy algorithm - 23:41:03.878 INFO: 2 sequences belonging to 2 database HMMs found with an E-value < 0.001 - 23:41:04.033 INFO: query.a3m is in A2M, A3M or FASTA format - 23:41:04.058 INFO: Searching 1 database HHMs without prefiltering - 23:41:04.058 INFO: Iteration 1 - 23:41:04.802 INFO: Scoring 1 HMMs using HMM-HMM Viterbi alignment - 23:41:04.885 INFO: Alternative alignment: 0 - 23:41:04.896 INFO: 1 alignments done - 23:41:04.896 INFO: Alternative alignment: 1 - 23:41:04.905 INFO: 1 alignments done - 23:41:04.905 INFO: Alternative alignment: 2 - 23:41:04.905 INFO: Alternative alignment: 3 - 23:41:05.705 INFO: Premerge done - 23:41:05.705 INFO: Realigning 2 HMM-HMM alignments using Maximum Accuracy algorithm - 23:41:05.763 INFO: 2 sequences belonging to 2 database HMMs found with an E-value < 0.001 Query sp|Q5VUD6|FA69B_HUMAN Protein FAM69B OS=Homo sapiens GN=FAM69B PE=2 SV=3 Match_columns 431 No_of_seqs 49 out of 118 Neff 4.29221 Searched_HMMs 1 Date Sat Sep 19 23:41:05 2026 Command hhsearch -i query.a3m -o result.hhr -d single -blasttab search_app_res No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 sp|Q5VUD6|FA69B_HUMAN Protein 100.0 5E-169 5E-169 1249.5 0.0 431 1-431 1-431 (431) 2 sp|Q5VUD6|FA69B_HUMAN Protein 0.2 0.38 0.38 16.3 0.0 17 78-97 344-360 (431) - 23:41:05.908 INFO: Thread 1 query.a3m - 23:41:05.956 INFO: query.a3m is in A2M, A3M or FASTA format - 23:41:05.984 INFO: Searching 1 database HHMs without prefiltering - 23:41:05.989 INFO: Iteration 1 - 23:41:07.098 INFO: Scoring 1 HMMs using HMM-HMM Viterbi alignment - 23:41:07.137 INFO: Alternative alignment: 0 - 23:41:07.144 INFO: 1 alignments done - 23:41:07.144 INFO: Alternative alignment: 1 - 23:41:07.150 INFO: 1 alignments done - 23:41:07.150 INFO: Alternative alignment: 2 - 23:41:07.150 INFO: Alternative alignment: 3 - 23:41:08.114 INFO: Premerge done - 23:41:08.114 INFO: Realigning 2 HMM-HMM alignments using Maximum Accuracy algorithm - 23:41:08.134 INFO: 2 sequences belonging to 2 database HMMs found with an E-value < 0.001 make[1]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds' create-stamp debian/debhelper-build-stamp dh_prep debian/rules override_dh_auto_install-arch make[1]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds' mkdir -p /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/hhsuite/usr/libexec/hhsuite/bin for SIMD in avx2 avx sse4.1 ssse3 sse3 plain ; do \ dh_auto_install --builddirectory build_${SIMD} ; \ done cd build_avx2 && make -j2 install DESTDIR=/build/hhsuite-VUQq7h/hhsuite-3.3.0\+ds/debian/tmp AM_UPDATE_INFO_DIR=no INSTALL="install --strip-program=true" make[2]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' /usr/bin/cmake -S/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds -B/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2 --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_reduce -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_apply -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_build -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_from_fasta -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_get -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_modify -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_unpack -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_order -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_from_fasta_with_split -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/context_data.crf -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/context_data.lib -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/cs219.lib -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/do_not_delete -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/do_not_delete.phr -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/do_not_delete.pin -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/do_not_delete.psq -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhblits-avx2 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhmake-avx2 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhfilter-avx2 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhsearch-avx2 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhalign-avx2 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhconsensus-avx2 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/a3m_extract-avx2 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/a3m_reduce-avx2 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/a3m_database_reduce-avx2 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/a3m_database_extract-avx2 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/a3m_database_filter-avx2 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/cstranslate-avx2 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhblits_omp-avx2 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhsearch_omp-avx2 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhalign_omp-avx2 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhblits_ca3m-avx2 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/a3m.py -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/addss.pl -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/Align.pm -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/check_a3m.py -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/cif2fasta.py -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/create_profile_from_hhm.pl -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/create_profile_from_hmmer.pl -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/ffindex.py -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/get_a3m_size.py -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/hh_reader.py -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/hhmakemodel.pl -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/hhmakemodel.py -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/HHPaths.pm -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/hhsuitedb.py -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/mergeali.pl -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/multithread.pl -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/pdb2fasta.pl -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/pdbfilter.pl -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/pdbfilter.py -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/reformat.pl -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/renumberpdb.pl -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/splitfasta.pl make[2]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx2' cd build_avx && make -j2 install DESTDIR=/build/hhsuite-VUQq7h/hhsuite-3.3.0\+ds/debian/tmp AM_UPDATE_INFO_DIR=no INSTALL="install --strip-program=true" make[2]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' /usr/bin/cmake -S/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds -B/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_reduce -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_apply -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_build -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_from_fasta -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_get -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_modify -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_unpack -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_order -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_from_fasta_with_split -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/context_data.crf -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/context_data.lib -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/cs219.lib -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/do_not_delete -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/do_not_delete.phr -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/do_not_delete.pin -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/do_not_delete.psq -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhblits-avx -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhmake-avx -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhfilter-avx -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhsearch-avx -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhalign-avx -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhconsensus-avx -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/a3m_extract-avx -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/a3m_reduce-avx -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/a3m_database_reduce-avx -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/a3m_database_extract-avx -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/a3m_database_filter-avx -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/cstranslate-avx -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhblits_omp-avx -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhsearch_omp-avx -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhalign_omp-avx -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhblits_ca3m-avx -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/a3m.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/addss.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/Align.pm -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/check_a3m.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/cif2fasta.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/create_profile_from_hhm.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/create_profile_from_hmmer.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/ffindex.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/get_a3m_size.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/hh_reader.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/hhmakemodel.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/hhmakemodel.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/HHPaths.pm -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/hhsuitedb.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/mergeali.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/multithread.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/pdb2fasta.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/pdbfilter.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/pdbfilter.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/reformat.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/renumberpdb.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/splitfasta.pl make[2]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_avx' cd build_sse4.1 && make -j2 install DESTDIR=/build/hhsuite-VUQq7h/hhsuite-3.3.0\+ds/debian/tmp AM_UPDATE_INFO_DIR=no INSTALL="install --strip-program=true" make[2]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' /usr/bin/cmake -S/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds -B/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1 --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_reduce -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_apply -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_build -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_from_fasta -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_get -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_modify -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_unpack -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_order -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_from_fasta_with_split -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/context_data.crf -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/context_data.lib -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/cs219.lib -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/do_not_delete -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/do_not_delete.phr -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/do_not_delete.pin -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/do_not_delete.psq -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhblits-sse4.1 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhmake-sse4.1 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhfilter-sse4.1 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhsearch-sse4.1 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhalign-sse4.1 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhconsensus-sse4.1 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/a3m_extract-sse4.1 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/a3m_reduce-sse4.1 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/a3m_database_reduce-sse4.1 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/a3m_database_extract-sse4.1 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/a3m_database_filter-sse4.1 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/cstranslate-sse4.1 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhblits_omp-sse4.1 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhsearch_omp-sse4.1 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhalign_omp-sse4.1 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhblits_ca3m-sse4.1 -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/a3m.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/addss.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/Align.pm -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/check_a3m.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/cif2fasta.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/create_profile_from_hhm.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/create_profile_from_hmmer.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/ffindex.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/get_a3m_size.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/hh_reader.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/hhmakemodel.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/hhmakemodel.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/HHPaths.pm -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/hhsuitedb.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/mergeali.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/multithread.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/pdb2fasta.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/pdbfilter.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/pdbfilter.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/reformat.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/renumberpdb.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/splitfasta.pl make[2]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse4.1' cd build_ssse3 && make -j2 install DESTDIR=/build/hhsuite-VUQq7h/hhsuite-3.3.0\+ds/debian/tmp AM_UPDATE_INFO_DIR=no INSTALL="install --strip-program=true" make[2]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' /usr/bin/cmake -S/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds -B/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3 --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_reduce -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_apply -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_build -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_from_fasta -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_get -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_modify -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_unpack -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_order -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_from_fasta_with_split -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/context_data.crf -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/context_data.lib -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/cs219.lib -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/do_not_delete -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/do_not_delete.phr -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/do_not_delete.pin -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/do_not_delete.psq -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhblits-ssse3 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhmake-ssse3 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhfilter-ssse3 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhsearch-ssse3 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhalign-ssse3 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhconsensus-ssse3 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/a3m_extract-ssse3 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/a3m_reduce-ssse3 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/a3m_database_reduce-ssse3 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/a3m_database_extract-ssse3 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/a3m_database_filter-ssse3 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/cstranslate-ssse3 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhblits_omp-ssse3 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhsearch_omp-ssse3 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhalign_omp-ssse3 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhblits_ca3m-ssse3 -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/a3m.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/addss.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/Align.pm -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/check_a3m.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/cif2fasta.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/create_profile_from_hhm.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/create_profile_from_hmmer.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/ffindex.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/get_a3m_size.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/hh_reader.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/hhmakemodel.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/hhmakemodel.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/HHPaths.pm -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/hhsuitedb.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/mergeali.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/multithread.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/pdb2fasta.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/pdbfilter.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/pdbfilter.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/reformat.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/renumberpdb.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/splitfasta.pl make[2]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_ssse3' cd build_sse3 && make -j2 install DESTDIR=/build/hhsuite-VUQq7h/hhsuite-3.3.0\+ds/debian/tmp AM_UPDATE_INFO_DIR=no INSTALL="install --strip-program=true" make[2]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' /usr/bin/cmake -S/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds -B/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3 --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_reduce -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_apply -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_build -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_from_fasta -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_get -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_modify -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_unpack -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_order -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_from_fasta_with_split -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/context_data.crf -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/context_data.lib -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/cs219.lib -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/do_not_delete -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/do_not_delete.phr -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/do_not_delete.pin -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/do_not_delete.psq -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhblits-sse3 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhmake-sse3 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhfilter-sse3 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhsearch-sse3 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhalign-sse3 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhconsensus-sse3 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/a3m_extract-sse3 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/a3m_reduce-sse3 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/a3m_database_reduce-sse3 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/a3m_database_extract-sse3 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/a3m_database_filter-sse3 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/cstranslate-sse3 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhblits_omp-sse3 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhsearch_omp-sse3 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhalign_omp-sse3 -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhblits_ca3m-sse3 -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/a3m.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/addss.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/Align.pm -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/check_a3m.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/cif2fasta.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/create_profile_from_hhm.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/create_profile_from_hmmer.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/ffindex.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/get_a3m_size.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/hh_reader.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/hhmakemodel.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/hhmakemodel.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/HHPaths.pm -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/hhsuitedb.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/mergeali.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/multithread.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/pdb2fasta.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/pdbfilter.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/pdbfilter.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/reformat.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/renumberpdb.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/splitfasta.pl make[2]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_sse3' cd build_plain && make -j2 install DESTDIR=/build/hhsuite-VUQq7h/hhsuite-3.3.0\+ds/debian/tmp AM_UPDATE_INFO_DIR=no INSTALL="install --strip-program=true" make[2]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' /usr/bin/cmake -S/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds -B/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_reduce -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_apply -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_build -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_from_fasta -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_get -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_modify -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_unpack -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_order -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/ffindex_from_fasta_with_split -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/context_data.crf -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/context_data.lib -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/cs219.lib -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/do_not_delete -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/do_not_delete.phr -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/do_not_delete.pin -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/do_not_delete.psq -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhblits-plain -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhmake-plain -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhfilter-plain -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhsearch-plain -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhalign-plain -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhconsensus-plain -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/a3m_extract-plain -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/a3m_reduce-plain -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/a3m_database_reduce-plain -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/a3m_database_extract-plain -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/a3m_database_filter-plain -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/cstranslate-plain -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhblits_omp-plain -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhsearch_omp-plain -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhalign_omp-plain -- Installing: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/bin/hhblits_ca3m-plain -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/a3m.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/addss.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/Align.pm -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/check_a3m.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/cif2fasta.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/create_profile_from_hhm.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/create_profile_from_hmmer.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/ffindex.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/get_a3m_size.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/hh_reader.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/hhmakemodel.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/hhmakemodel.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/HHPaths.pm -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/hhsuitedb.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/mergeali.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/multithread.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/pdb2fasta.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/pdbfilter.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/pdbfilter.py -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/reformat.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/renumberpdb.pl -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/scripts/splitfasta.pl make[2]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/build_plain' mkdir -p /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/hhsuite/usr/bin dh_install -phhsuite debian/bin/simd-dispatch /usr/libexec/hhsuite/ for prog in hhalign hhalign_omp hhblits hhblits_omp hhblits_ca3m hhconsensus hhfilter hhmake hhsearch hhsearch_omp a3m_extract a3m_reduce a3m_database_reduce a3m_database_extract a3m_database_filter cstranslate ; do dh_install usr/bin/${prog}* /usr/libexec/hhsuite/; done cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/hhsuite/usr/bin \ && for prog in hhalign hhalign_omp hhblits hhblits_omp hhblits_ca3m hhconsensus hhfilter hhmake hhsearch hhsearch_omp a3m_extract a3m_reduce a3m_database_reduce a3m_database_extract a3m_database_filter; do \ ln -s ../libexec/hhsuite/simd-dispatch ${prog} ; done cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/hhsuite/usr/libexec/hhsuite/bin \ && for prog in cstranslate ; do \ ln -s ../simd-dispatch ${prog} ; done dh_install -phhsuite usr/bin/ffindex_* usr/bin/ make[1]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds' debian/rules override_dh_auto_install-indep make[1]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds' dh_auto_install --builddirectory mybuild/data cd mybuild/data && make -j2 install DESTDIR=/build/hhsuite-VUQq7h/hhsuite-3.3.0\+ds/debian/tmp AM_UPDATE_INFO_DIR=no INSTALL="install --strip-program=true" make[2]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild/data' cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild && /usr/bin/cmake -S/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds -B/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild --check-build-system CMakeFiles/Makefile.cmake 0 cd /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild && make -f CMakeFiles/Makefile2 data/preinstall make[3]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild' make[3]: Nothing to be done for 'data/preinstall'. make[3]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/context_data.crf -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/context_data.lib -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/cs219.lib -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/do_not_delete -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/do_not_delete.phr -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/do_not_delete.pin -- Up-to-date: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/debian/tmp/usr/data/do_not_delete.psq make[2]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds/mybuild/data' make[1]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds' dh_install dh_installdocs dh_installchangelogs dh_installexamples debian/rules override_dh_installman-arch make[1]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds' export HHLIB=. && help2man --no-info --help-option '-h all' --version-string 3.3.0+ds -n "$n_hhalign" 'debian/hhsuite/usr/bin/hhalign' | sed -e 's/\(^\|[^\]\)-/\1\\-/g;' > 'hhalign.1' export HHLIB=. && help2man --no-info --help-option '-h all' --version-string 3.3.0+ds -n "$n_hhblits" 'debian/hhsuite/usr/bin/hhblits' | sed -e 's/\(^\|[^\]\)-/\1\\-/g;' > 'hhblits.1' export HHLIB=. && help2man --no-info --help-option '-h all' --version-string 3.3.0+ds -n "$n_hhblits_omp" 'debian/hhsuite/usr/bin/hhblits_omp' | sed -e 's/\(^\|[^\]\)-/\1\\-/g;' > 'hhblits_omp.1' export HHLIB=. && help2man --no-info --help-option '-h all' --version-string 3.3.0+ds -n "$n_hhconsensus" 'debian/hhsuite/usr/bin/hhconsensus' | sed -e 's/\(^\|[^\]\)-/\1\\-/g;' > 'hhconsensus.1' export HHLIB=. && help2man --no-info --help-option '-h all' --version-string 3.3.0+ds -n "$n_hhfilter" 'debian/hhsuite/usr/bin/hhfilter' | sed -e 's/\(^\|[^\]\)-/\1\\-/g;' > 'hhfilter.1' export HHLIB=. && help2man --no-info --help-option '-h all' --version-string 3.3.0+ds -n "$n_hhmake" 'debian/hhsuite/usr/bin/hhmake' | sed -e 's/\(^\|[^\]\)-/\1\\-/g;' > 'hhmake.1' export HHLIB=. && help2man --no-info --help-option '-h all' --version-string 3.3.0+ds -n "$n_hhsearch" 'debian/hhsuite/usr/bin/hhsearch' | sed -e 's/\(^\|[^\]\)-/\1\\-/g;' > 'hhsearch.1' dh_installman --arch make[1]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds' dh_installman -Nhhsuite dh_perl dh_link dh_strip_nondeterminism dh_compress debian/rules override_dh_fixperms-arch make[1]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds' dh_fixperms chmod -x debian/hhsuite/usr/share/hhsuite/scripts/*.pm make[1]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds' dh_fixperms -Nhhsuite dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb debian/rules override_dh_gencontrol make[1]: Entering directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds' dh_gencontrol -- -Vsimde:Built-Using="simde (= 0.8.4~rc3-5), " make[1]: Leaving directory '/build/hhsuite-VUQq7h/hhsuite-3.3.0+ds' dh_md5sums dh_builddeb dpkg-deb: building package 'hhsuite-data' in '../hhsuite-data_3.3.0+ds-10_all.deb'. dpkg-deb: building package 'hhsuite' in '../hhsuite_3.3.0+ds-10_amd64.deb'. dpkg-deb: building package 'hhsuite-dbgsym' in '../hhsuite-dbgsym_3.3.0+ds-10_amd64.deb'. dpkg-genbuildinfo -O../hhsuite_3.3.0+ds-10_amd64.buildinfo dpkg-genchanges -O../hhsuite_3.3.0+ds-10_amd64.changes dpkg-genchanges: info: not including original source code in upload dpkg-source -Zxz --after-build . dpkg-buildpackage: info: binary and diff upload (original source NOT included) -------------------------------------------------------------------------------- Build finished at 2026-09-19T23:51:12Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes Sat, 19 Sep 2026 23:51:12 +0000 | +------------------------------------------------------------------------------+ hhsuite_3.3.0+ds-10_amd64.changes: ---------------------------------- Format: 1.8 Date: Mon, 16 Feb 2026 22:15:00 +0100 Source: hhsuite Binary: hhsuite hhsuite-data hhsuite-dbgsym Architecture: source all amd64 Version: 3.3.0+ds-10 Distribution: perl-5.44-throwaway Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Santiago Vila Description: hhsuite - sensitive protein sequence searching based on HMM-HMM alignment hhsuite-data - sensitive protein sequence searching based on HMM-HMM alignment ( Changes: hhsuite (3.3.0+ds-10) unstable; urgency=medium . * Team upload. * Fix clean target. * Drop "Rules-Requires-Root: no" (default). * Drop "Priority: optional" (default). * Update standards-version. * Simplify salsa-ci.yml. Checksums-Sha1: 24c5276ff901487790fa2d1f3a17112b06874495 1247 hhsuite_3.3.0+ds-10.dsc 0ac8f75e74d5370e90922694edb5b1fca2aabc6f 17020 hhsuite_3.3.0+ds-10.debian.tar.xz 7e8162e45c579771e6f572db4fb216b56a9f82ee 4401360 hhsuite-data_3.3.0+ds-10_all.deb a05ae5a8605f7e08add7ca18e3c4651f8c481a0e 134477868 hhsuite-dbgsym_3.3.0+ds-10_amd64.deb 5512c3bb9fbdc2ba391bb318668e82b3cf86696e 7681 hhsuite_3.3.0+ds-10_amd64.buildinfo 300c6743c5c8aa18c1ed158a26ea2932425aba1f 57907100 hhsuite_3.3.0+ds-10_amd64.deb Checksums-Sha256: 7fff841bff273a2f16ab74d8a1f6d50e7a75ab0a2ca42fb9973a51de0b9952f2 1247 hhsuite_3.3.0+ds-10.dsc 0b90cfe299f3facecfef9dd0acd0f9ee3a1ff5097c4f771b325357bac5b440fc 17020 hhsuite_3.3.0+ds-10.debian.tar.xz 802f1bcd44fea9690b31a9ced400e456c5a04ddc8f8128d204d6dd9afdbe0cf1 4401360 hhsuite-data_3.3.0+ds-10_all.deb 56c0f83fd6ec76eb32cd026334b6aa439a63122e1be1f7c8af389ed868b7477f 134477868 hhsuite-dbgsym_3.3.0+ds-10_amd64.deb fa938dfb918092033f9e07bb2a6751ea656c1b313d0cb24fd2c7048f0ffe3321 7681 hhsuite_3.3.0+ds-10_amd64.buildinfo e3e853313e7c4588b671ebf2869f04997d9ef008749ee29ea17eedf5e0dfa6f1 57907100 hhsuite_3.3.0+ds-10_amd64.deb Files: 5b5baedf12cede0d56c2bbbc87ddaade 1247 science optional hhsuite_3.3.0+ds-10.dsc c448f1a77e1c1220515976ea0e1c3d3b 17020 science optional hhsuite_3.3.0+ds-10.debian.tar.xz 7293815e17c7c29592387a22da8b61fd 4401360 science optional hhsuite-data_3.3.0+ds-10_all.deb 9d2ade8ec954ff532dbb177feb7b0418 134477868 debug optional hhsuite-dbgsym_3.3.0+ds-10_amd64.deb de084f9fd226d61d53365728f7f83ad2 7681 science optional hhsuite_3.3.0+ds-10_amd64.buildinfo 8a3d91bf2b210f1c4f34ed313a5bf648 57907100 science optional hhsuite_3.3.0+ds-10_amd64.deb +------------------------------------------------------------------------------+ | Buildinfo Sat, 19 Sep 2026 23:51:13 +0000 | +------------------------------------------------------------------------------+ Format: 1.0 Source: hhsuite Binary: hhsuite hhsuite-data hhsuite-dbgsym Architecture: all amd64 source Version: 3.3.0+ds-10 Checksums-Md5: 5b5baedf12cede0d56c2bbbc87ddaade 1247 hhsuite_3.3.0+ds-10.dsc 7293815e17c7c29592387a22da8b61fd 4401360 hhsuite-data_3.3.0+ds-10_all.deb 9d2ade8ec954ff532dbb177feb7b0418 134477868 hhsuite-dbgsym_3.3.0+ds-10_amd64.deb 8a3d91bf2b210f1c4f34ed313a5bf648 57907100 hhsuite_3.3.0+ds-10_amd64.deb Checksums-Sha1: 24c5276ff901487790fa2d1f3a17112b06874495 1247 hhsuite_3.3.0+ds-10.dsc 7e8162e45c579771e6f572db4fb216b56a9f82ee 4401360 hhsuite-data_3.3.0+ds-10_all.deb a05ae5a8605f7e08add7ca18e3c4651f8c481a0e 134477868 hhsuite-dbgsym_3.3.0+ds-10_amd64.deb 300c6743c5c8aa18c1ed158a26ea2932425aba1f 57907100 hhsuite_3.3.0+ds-10_amd64.deb Checksums-Sha256: 7fff841bff273a2f16ab74d8a1f6d50e7a75ab0a2ca42fb9973a51de0b9952f2 1247 hhsuite_3.3.0+ds-10.dsc 802f1bcd44fea9690b31a9ced400e456c5a04ddc8f8128d204d6dd9afdbe0cf1 4401360 hhsuite-data_3.3.0+ds-10_all.deb 56c0f83fd6ec76eb32cd026334b6aa439a63122e1be1f7c8af389ed868b7477f 134477868 hhsuite-dbgsym_3.3.0+ds-10_amd64.deb e3e853313e7c4588b671ebf2869f04997d9ef008749ee29ea17eedf5e0dfa6f1 57907100 hhsuite_3.3.0+ds-10_amd64.deb Build-Origin: Debian Build-Architecture: amd64 Build-Date: Sat, 19 Sep 2026 23:51:08 +0000 Build-Path: /build/hhsuite-VUQq7h/hhsuite-3.3.0+ds Build-Tainted-By: usr-local-has-programs Installed-Build-Depends: autoconf (= 2.73-2), automake (= 1:1.19-2), autopoint (= 1.0-5), autotools-dev (= 20240727.1+nmu1), base-files (= 14.2), base-passwd (= 3.6.8), bash (= 5.3-4), binutils (= 2.47-6), binutils-common (= 2.47-6), binutils-x86-64-linux-gnu (= 2.47-6), bsdextrautils (= 2.42.3-1), build-essential (= 12.12), bzip2 (= 1.0.8-6+b2), cmake (= 4.3.4-1), coreutils (= 9.10-1), cpp (= 4:16.1.0-3), cpp-15 (= 15.3.0-4), cpp-15-x86-64-linux-gnu (= 15.3.0-4), cpp-16 (= 16.2.0-3), cpp-16-x86-64-linux-gnu (= 16.2.0-3), cpp-x86-64-linux-gnu (= 4:16.1.0-3), dash (= 0.5.12-12), debconf (= 1.5.92), debhelper (= 14.5), debianutils (= 5.24), dh-autoreconf (= 23), dh-strip-nondeterminism (= 1.15.1-1), diffutils (= 1:3.12-1), dpkg (= 1.23.11), dpkg-dev (= 1.23.11), dwz (= 0.17-1), file (= 1:5.47-4), findutils (= 4.11.0-2), fontconfig-config (= 2.17.1-5), fonts-dejavu-core (= 2.37-9), fonts-dejavu-mono (= 2.37-9), g++ (= 4:16.1.0-3), g++-16 (= 16.2.0-3), g++-16-x86-64-linux-gnu (= 16.2.0-3), g++-x86-64-linux-gnu (= 4:16.1.0-3), gcc (= 4:16.1.0-3), gcc-15 (= 15.3.0-4), gcc-15-base (= 15.3.0-4), gcc-15-x86-64-linux-gnu (= 15.3.0-4), gcc-16 (= 16.2.0-3), gcc-16-base (= 16.2.0-3), gcc-16-x86-64-linux-gnu (= 16.2.0-3), gcc-x86-64-linux-gnu (= 4:16.1.0-3), gettext (= 1.0-5), gettext-base (= 1.0-5), grep (= 3.12-1), groff-base (= 1.24.1-1), gzip (= 1.14-1), help2man (= 1.49.3), hicolor-icon-theme (= 0.18-2), hostname (= 3.25), imagemagick (= 8:7.1.2.31+dfsg1-1+b2), imagemagick-7-common (= 8:7.1.2.31+dfsg1-1), imagemagick-7.q16 (= 8:7.1.2.31+dfsg1-1+b2), init-system-helpers (= 1.69+nmu1), intltool-debian (= 0.35.0+20060710.6), libacl1 (= 2.4.0-1), libarchive-zip-perl (= 1.68-1), libarchive13t64 (= 3.8.9-1), libasan8 (= 16.2.0-3), libatomic1 (= 16.2.0-3), libattr1 (= 1:2.6.0-1), libaudit-common (= 1:4.1.2-1), libaudit1 (= 1:4.1.2-1+b2), libbinutils (= 2.47-6), libblkid1 (= 2.42.3-1), libbrotli1 (= 1.2.0-4+b1), libbz2-1.0 (= 1.0.8-6+b2), libc-bin (= 2.43-5), libc-dev-bin (= 2.43-5), libc-gconv-modules-extra (= 2.43-5), libc6 (= 2.43-5), libc6-dev (= 2.43-5), libcap-ng0 (= 0.9.6-1), libcc1-0 (= 16.2.0-3), libcom-err2 (= 1.47.4-1+b1), libcrypt1 (= 1:4.5.2+20251210-1), libctf-nobfd0 (= 2.47-6), libctf0 (= 2.47-6), libcurl4t64 (= 8.22.0-1), libdav1d7 (= 1.5.4-1), libdb5.3t64 (= 5.3.28+dfsg2-11+b1), libde265-0 (= 1.1.3-1), libdebconfclient0 (= 0.283), libdebhelper-perl (= 14.5), libdeflate0 (= 1.25-1), libdpkg-perl (= 1.23.11), libelf1t64 (= 0.196-1), libexpat1 (= 2.8.4-1), libffi8 (= 3.8.0-2), libfftw3-double3 (= 3.3.11-1), libfile-stripnondeterminism-perl (= 1.15.1-1), libfontconfig1 (= 2.17.1-5), libfreetype6 (= 2.14.3+dfsg-2), libgcc-15-dev (= 15.3.0-4), libgcc-16-dev (= 16.2.0-3), libgcc-s1 (= 16.2.0-3), libgdbm-compat4t64 (= 1.26-1+b2), libgdbm6t64 (= 1.26-1+b2), libglib2.0-0t64 (= 2.90.0-1), libgmp10 (= 2:6.3.0+dfsg-5+b2), libgomp1 (= 16.2.0-3), libgprofng0 (= 2.47-6), libgssapi-krb5-2 (= 1.22.1-3), libheif-plugin-dav1d (= 1.23.4-1), libheif-plugin-libde265 (= 1.23.4-1), libheif1 (= 1.23.4-1), libhwasan0 (= 16.2.0-3), libidn2-0 (= 2.3.8-5), libisl23 (= 0.28-1), libitm1 (= 16.2.0-3), libjansson4 (= 2.15.1-1), libjbig0 (= 2.1-6.1+b3), libjpeg62-turbo (= 1:3.1.3-4), libjsoncpp26 (= 1.9.8-2), libk5crypto3 (= 1.22.1-3), libkeyutils1 (= 1.6.3-6+b2), libkrb5-3 (= 1.22.1-3), libkrb5support0 (= 1.22.1-3), liblcms2-2 (= 2.19.1-1), libldap2 (= 2.6.14+dfsg-2+b1), liblerc4 (= 4.2.0+ds-1), liblocale-gettext-perl (= 1.07-10+b2), liblqr-1-0 (= 0.4.2-2.2+b1), liblsan0 (= 16.2.0-3), libltdl7 (= 2.6.2-3), liblz4-1 (= 1.10.0-10), liblzma5 (= 5.8.4-1), libmagic-mgc (= 1:5.47-4), libmagic1t64 (= 1:5.47-4), libmagickcore-7.q16-10 (= 8:7.1.2.31+dfsg1-1+b2), libmagickwand-7.q16-10 (= 8:7.1.2.31+dfsg1-1+b2), libmd0 (= 1.2.0-2), libmount1 (= 2.42.3-1), libmpc3 (= 1.3.1-3), libmpfr6 (= 4.2.2-3), libncursesw6 (= 6.6+20260608-2), libnettle8t64 (= 3.10.2-1+b1), libnghttp2-14 (= 1.70.0-1), libnghttp3-9 (= 1.17.0-1), libngtcp2-16 (= 1.24.0-1), libngtcp2-crypto-ossl0 (= 1.24.0-1), libopenjp2-7 (= 2.5.4-1.1), libpam-modules (= 1.7.0-8), libpam-modules-bin (= 1.7.0-8), libpam-runtime (= 1.7.0-8), libpam0g (= 1.7.0-8), libpcre2-8-0 (= 10.48-3), libperl5.44 (= 5.44.0-1), libpipeline1 (= 1.5.8-3), libpng16-16t64 (= 1.6.58-1), libproc2-1 (= 2:4.0.7-1), libpsl5t64 (= 0.23.3-1), libquadmath0 (= 16.2.0-3), libraw25 (= 0.22.1-1), librhash1 (= 1.4.6-1.1+b1), libsasl2-2 (= 2.1.28+dfsg1-11), libsasl2-modules-db (= 2.1.28+dfsg1-11), libseccomp2 (= 2.6.1-1+b1), libselinux1 (= 3.11-2), libsframe3 (= 2.47-6), libsharpyuv0 (= 1.6.0-0.1), libsimde-dev (= 0.8.4~rc3-5), libsmartcols1 (= 2.42.3-1), libssh2-1t64 (= 1.11.1-6), libssl3t64 (= 3.6.4-1), libstdc++-16-dev (= 16.2.0-3), libstdc++6 (= 16.2.0-3), libsystemd0 (= 262~rc3-1), libtiff6 (= 4.7.2-1), libtinfo6 (= 6.6+20260608-2), libtool (= 2.6.2-3), libtsan2 (= 16.2.0-3), libubsan1 (= 16.2.0-3), libuchardet0 (= 0.0.8-2+b2), libudev1 (= 262~rc3-1), libunistring5 (= 1.4.2-1), libuuid1 (= 2.42.3-1), libuv1t64 (= 1.52.1-4), libwebp7 (= 1.6.0-0.1), libwebpdemux2 (= 1.6.0-0.1), libwebpmux3 (= 1.6.0-0.1), libx11-6 (= 2:1.8.13-1), libx11-data (= 2:1.8.13-1), libxau6 (= 1:1.0.11-1+b2), libxcb1 (= 1.17.0-2+b2), libxdmcp6 (= 1:1.1.5-2+b1), libxext6 (= 2:1.3.4-1+b4), libxml2-16 (= 2.15.4+dfsg-1), libxxhash0 (= 0.8.3-2+b2), libzstd1 (= 1.5.7+dfsg-4), linux-libc-dev (= 7.2.6-1), m4 (= 1.4.21-1), make (= 4.4.1-3), man-db (= 2.13.1-1), mawk (= 1.3.4.20260302-1), ncurses-base (= 6.6+20260608-2), ncurses-bin (= 6.6+20260608-2), openssl-provider-legacy (= 3.6.4-1), patch (= 2.8-2), perl (= 5.44.0-1), perl-base (= 5.44.0-1), perl-modules-5.44 (= 5.44.0-1), po-debconf (= 1.0.22), procps (= 2:4.0.7-1), sed (= 4.9-3), sensible-utils (= 0.0.26), sysvinit-utils (= 3.18-1), tar (= 1.35+dfsg-6), util-linux (= 2.42.3-1), xz-utils (= 5.8.4-1), zlib1g (= 1:1.3.dfsg+really1.3.2-3) Environment: DEB_BUILD_OPTIONS="parallel=2" LANG="C.UTF-8" LANGUAGE="en_GB:en" LC_COLLATE="C.UTF-8" LC_CTYPE="C.UTF-8" LD_LIBRARY_PATH="/usr/lib/libeatmydata" LD_PRELOAD="libeatmydata.so" SOURCE_DATE_EPOCH="1771276500" +------------------------------------------------------------------------------+ | Package contents Sat, 19 Sep 2026 23:51:13 +0000 | +------------------------------------------------------------------------------+ hhsuite-data_3.3.0+ds-10_all.deb -------------------------------- new Debian package, version 2.0. size 4401360 bytes: control archive=796 bytes. 594 bytes, 15 lines control 367 bytes, 5 lines md5sums Package: hhsuite-data Source: hhsuite Version: 3.3.0+ds-10 Architecture: all Maintainer: Debian Med Packaging Team Installed-Size: 12889 Section: science Priority: optional Multi-Arch: foreign Homepage: https://toolkit.tuebingen.mpg.de/ Description: sensitive protein sequence searching based on HMM-HMM alignment (data) HH-suite is an open-source software package for sensitive protein sequence searching based on the pairwise alignment of hidden Markov models (HMMs). . This package contains architecture independent scripts and data files. drwxr-xr-x root/root 0 2026-02-16 21:15 ./ drwxr-xr-x root/root 0 2026-02-16 21:15 ./usr/ drwxr-xr-x root/root 0 2026-02-16 21:15 ./usr/lib/ drwxr-xr-x root/root 0 2026-02-16 21:15 ./usr/lib/hhsuite/ drwxr-xr-x root/root 0 2026-02-16 21:15 ./usr/lib/hhsuite/data/ lrwxrwxrwx root/root 0 2026-02-16 21:15 ./usr/lib/hhsuite/data/context_data.crf -> ../../../share/hhsuite/data/context_data.crf lrwxrwxrwx root/root 0 2026-02-16 21:15 ./usr/lib/hhsuite/data/context_data.lib -> ../../../share/hhsuite/data/context_data.lib lrwxrwxrwx root/root 0 2026-02-16 21:15 ./usr/lib/hhsuite/data/cs219.lib -> ../../../share/hhsuite/data/cs219.lib drwxr-xr-x root/root 0 2026-02-16 21:15 ./usr/share/ drwxr-xr-x root/root 0 2026-02-16 21:15 ./usr/share/doc/ drwxr-xr-x root/root 0 2026-02-16 21:15 ./usr/share/doc/hhsuite-data/ -rw-r--r-- root/root 615 2026-02-16 21:15 ./usr/share/doc/hhsuite-data/changelog.Debian.gz -rw-r--r-- root/root 20399 2026-02-16 19:00 ./usr/share/doc/hhsuite-data/copyright drwxr-xr-x root/root 0 2026-02-16 21:15 ./usr/share/hhsuite/ drwxr-xr-x root/root 0 2026-02-16 21:15 ./usr/share/hhsuite/data/ -rw-r--r-- root/root 7186806 2020-08-16 23:16 ./usr/share/hhsuite/data/context_data.crf -rw-r--r-- root/root 5922161 2020-08-16 23:16 ./usr/share/hhsuite/data/context_data.lib -rw-r--r-- root/root 51634 2020-08-16 23:16 ./usr/share/hhsuite/data/cs219.lib hhsuite-dbgsym_3.3.0+ds-10_amd64.deb ------------------------------------ new Debian package, version 2.0. size 134477868 bytes: control archive=5188 bytes. 4645 bytes, 12 lines control 11214 bytes, 106 lines md5sums Package: hhsuite-dbgsym Source: hhsuite Version: 3.3.0+ds-10 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 558272 Depends: hhsuite (= 3.3.0+ds-10) Section: debug Priority: optional Description: debug symbols for hhsuite Build-Ids: 05f2a915628cf8c40726265567022959f08293d6 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./usr/lib/debug/.build-id/f9/69989a24034c06540aa7e36c09b4760023cefe.debug drwxr-xr-x root/root 0 2026-02-16 21:15 ./usr/lib/debug/.build-id/fa/ -rw-r--r-- root/root 832816 2026-02-16 21:15 ./usr/lib/debug/.build-id/fa/eacdf2abf22a5c5929c59d331598d78a6510aa.debug drwxr-xr-x root/root 0 2026-02-16 21:15 ./usr/lib/debug/.dwz/ drwxr-xr-x root/root 0 2026-02-16 21:15 ./usr/lib/debug/.dwz/x86_64-linux-gnu/ -rw-r--r-- root/root 851472 2026-02-16 21:15 ./usr/lib/debug/.dwz/x86_64-linux-gnu/hhsuite.debug drwxr-xr-x root/root 0 2026-02-16 21:15 ./usr/share/ drwxr-xr-x root/root 0 2026-02-16 21:15 ./usr/share/doc/ lrwxrwxrwx root/root 0 2026-02-16 21:15 ./usr/share/doc/hhsuite-dbgsym -> hhsuite hhsuite_3.3.0+ds-10_amd64.deb ----------------------------- new Debian package, version 2.0. size 57907100 bytes: control archive=4588 bytes. 1478 bytes, 29 lines control 10398 bytes, 146 lines md5sums Package: hhsuite Version: 3.3.0+ds-10 Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 468694 Depends: libc6 (>= 2.43), libgcc-s1 (>= 3.0), libgomp1 (>= 6), libstdc++6 (>= 14), perl:any, hhsuite-data (= 3.3.0+ds-10), python3 Conflicts: ffindex Built-Using: simde (= 0.8.4~rc3-5) Section: science Priority: optional Homepage: https://toolkit.tuebingen.mpg.de/ Description: sensitive protein sequence searching based on HMM-HMM alignment HH-suite is an open-source software package for sensitive protein sequence searching based on the pairwise alignment of hidden Markov models (HMMs). . This package contains HHsearch and HHblits among other programs and utilities. . HHsearch takes as input a multiple sequence alignment (MSA) or profile HMM and searches a database of HMMs (e.g. PDB, Pfam, or InterPro) for homologous proteins. HHsearch is often used for protein structure prediction to detect homologous templates and to build highly accurate query-template pairwise alignments for homology modeling. . HHblits can build high-quality MSAs starting from single sequences or from MSAs. It transforms these into a query HMM and, using an iterative search strategy, adds significantly similar sequences from the previous search to the updated query HMM for the next search iteration. Compared to PSI-BLAST, HHblits is faster, up to twice as sensitive and produces more accurate alignments. drwxr-xr-x root/root 0 2026-02-16 21:15 ./ drwxr-xr-x root/root 0 2026-02-16 21:15 ./usr/ drwxr-xr-x root/root 0 2026-02-16 21:15 ./usr/bin/ lrwxrwxrwx root/root 0 2026-02-16 21:15 ./usr/bin/a3m_database_extract -> ../libexec/hhsuite/simd-dispatch lrwxrwxrwx root/root 0 2026-02-16 21:15 ./usr/bin/a3m_database_filter -> ../libexec/hhsuite/simd-dispatch lrwxrwxrwx root/root 0 2026-02-16 21:15 ./usr/bin/a3m_database_reduce -> ../libexec/hhsuite/simd-dispatch lrwxrwxrwx root/root 0 2026-02-16 21:15 ./usr/bin/a3m_extract -> ../libexec/hhsuite/simd-dispatch lrwxrwxrwx root/root 0 2026-02-16 21:15 ./usr/bin/a3m_reduce -> ../libexec/hhsuite/simd-dispatch -rwxr-xr-x root/root 31136 2026-02-16 21:15 ./usr/bin/ffindex_apply -rwxr-xr-x root/root 31200 2026-02-16 21:15 ./usr/bin/ffindex_build -rwxr-xr-x root/root 26976 2026-02-16 21:15 ./usr/bin/ffindex_from_fasta -rwxr-xr-x root/root 30960 2026-02-16 21:15 ./usr/bin/ffindex_from_fasta_with_split -rwxr-xr-x root/root 26944 2026-02-16 21:15 ./usr/bin/ffindex_get -rwxr-xr-x root/root 27040 2026-02-16 21:15 ./usr/bin/ffindex_modify -rwxr-xr-x root/root 18672 2026-02-16 21:15 ./usr/bin/ffindex_order -rwxr-xr-x root/root 22768 2026-02-16 21:15 ./usr/bin/ffindex_reduce -rwxr-xr-x root/root 18672 2026-02-16 21:15 ./usr/bin/ffindex_unpack lrwxrwxrwx root/root 0 2026-02-16 21:15 ./usr/bin/hhalign -> ../libexec/hhsuite/simd-dispatch lrwxrwxrwx root/root 0 2026-02-16 21:15 ./usr/bin/hhalign_omp -> ../libexec/hhsuite/simd-dispatch lrwxrwxrwx root/root 0 2026-02-16 21:15 ./usr/bin/hhblits -> ../libexec/hhsuite/simd-dispatch lrwxrwxrwx root/root 0 2026-02-16 21:15 ./usr/bin/hhblits_ca3m -> ../libexec/hhsuite/simd-dispatch lrwxrwxrwx root/root 0 2026-02-16 21:15 ./usr/bin/hhblits_omp -> ../libexec/hhsuite/simd-dispatch lrwxrwxrwx root/root 0 2026-02-16 21:15 ./usr/bin/hhconsensus -> ../libexec/hhsuite/simd-dispatch lrwxrwxrwx root/root 0 2026-02-16 21:15 ./usr/bin/hhfilter -> ../libexec/hhsuite/simd-dispatch lrwxrwxrwx root/root 0 2026-02-16 21:15 ./usr/bin/hhmake -> ../libexec/hhsuite/simd-dispatch lrwxrwxrwx root/root 0 2026-02-16 21:15 ./usr/bin/hhsearch -> ../libexec/hhsuite/simd-dispatch lrwxrwxrwx root/root 0 2026-02-16 21:15 ./usr/bin/hhsearch_omp -> ../libexec/hhsuite/simd-dispatch drwxr-xr-x root/root 0 2026-02-16 21:15 ./usr/lib/ lrwxrwxrwx root/root 0 2026-02-16 21:15 ./usr/lib/hh -> hhsuite drwxr-xr-x root/root 0 2026-02-16 21:15 ./usr/lib/hhsuite/ drwxr-xr-x root/root 0 2026-02-16 21:15 ./usr/lib/hhsuite/data/ -rw-r--r-- root/root 1986 2020-08-16 23:16 ./usr/lib/hhsuite/data/do_not_delete -rw-r--r-- root/root 135 2020-08-16 23:16 ./usr/lib/hhsuite/data/do_not_delete.phr -rw-r--r-- root/root 112 2020-08-16 23:16 ./usr/lib/hhsuite/data/do_not_delete.pin -rw-r--r-- root/root 433 2020-08-16 23:16 ./usr/lib/hhsuite/data/do_not_delete.psq lrwxrwxrwx root/root 0 2026-02-16 21:15 ./usr/lib/hhsuite/scripts -> ../../share/hhsuite/scripts drwxr-xr-x root/root 0 2026-02-16 21:15 ./usr/libexec/ drwxr-xr-x root/root 0 2026-02-16 21:15 ./usr/libexec/hhsuite/ -rwxr-xr-x root/root 55704 2026-02-16 21:15 ./usr/libexec/hhsuite/a3m_database_extract-avx -rwxr-xr-x root/root 55704 2026-02-16 21:15 ./usr/libexec/hhsuite/a3m_database_extract-avx2 -rwxr-xr-x root/root 51608 2026-02-16 21:15 ./usr/libexec/hhsuite/a3m_database_extract-plain -rwxr-xr-x root/root 51608 2026-02-16 21:15 ./usr/libexec/hhsuite/a3m_database_extract-sse3 -rwxr-xr-x root/root 55704 2026-02-16 21:15 ./usr/libexec/hhsuite/a3m_database_extract-sse4.1 -rwxr-xr-x root/root 51608 2026-02-16 21:15 ./usr/libexec/hhsuite/a3m_database_extract-ssse3 -rwxr-xr-x root/root 59800 2026-02-16 21:15 ./usr/libexec/hhsuite/a3m_database_filter-avx -rwxr-xr-x root/root 59800 2026-02-16 21:15 ./usr/libexec/hhsuite/a3m_database_filter-avx2 -rwxr-xr-x root/root 55704 2026-02-16 21:15 ./usr/libexec/hhsuite/a3m_database_filter-plain -rwxr-xr-x root/root 55704 2026-02-16 21:15 ./usr/libexec/hhsuite/a3m_database_filter-sse3 -rwxr-xr-x root/root 59800 2026-02-16 21:15 ./usr/libexec/hhsuite/a3m_database_filter-sse4.1 -rwxr-xr-x root/root 55704 2026-02-16 21:15 ./usr/libexec/hhsuite/a3m_database_filter-ssse3 -rwxr-xr-x root/root 55704 2026-02-16 21:15 ./usr/libexec/hhsuite/a3m_database_reduce-avx -rwxr-xr-x root/root 55704 2026-02-16 21:15 ./usr/libexec/hhsuite/a3m_database_reduce-avx2 -rwxr-xr-x root/root 51608 2026-02-16 21:15 ./usr/libexec/hhsuite/a3m_database_reduce-plain -rwxr-xr-x root/root 51608 2026-02-16 21:15 ./usr/libexec/hhsuite/a3m_database_reduce-sse3 -rwxr-xr-x root/root 55704 2026-02-16 21:15 ./usr/libexec/hhsuite/a3m_database_reduce-sse4.1 -rwxr-xr-x root/root 51608 2026-02-16 21:15 ./usr/libexec/hhsuite/a3m_database_reduce-ssse3 -rwxr-xr-x root/root 47432 2026-02-16 21:15 ./usr/libexec/hhsuite/a3m_extract-avx -rwxr-xr-x root/root 47432 2026-02-16 21:15 ./usr/libexec/hhsuite/a3m_extract-avx2 -rwxr-xr-x root/root 47432 2026-02-16 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./usr/share/hhsuite/scripts/multithread.pl -rwxr-xr-x root/root 40490 2026-02-16 21:15 ./usr/share/hhsuite/scripts/pdb2fasta.pl -rwxr-xr-x root/root 13183 2026-02-16 21:15 ./usr/share/hhsuite/scripts/pdbfilter.pl -rwxr-xr-x root/root 8648 2026-02-16 21:15 ./usr/share/hhsuite/scripts/pdbfilter.py -rwxr-xr-x root/root 28328 2020-08-16 23:16 ./usr/share/hhsuite/scripts/reformat.pl -rwxr-xr-x root/root 14019 2026-02-16 21:15 ./usr/share/hhsuite/scripts/renumberpdb.pl -rwxr-xr-x root/root 3651 2026-02-16 21:15 ./usr/share/hhsuite/scripts/splitfasta.pl drwxr-xr-x root/root 0 2026-02-16 21:15 ./usr/share/man/ drwxr-xr-x root/root 0 2026-02-16 21:15 ./usr/share/man/man1/ -rw-r--r-- root/root 3090 2026-02-16 21:15 ./usr/share/man/man1/hhalign.1.gz -rw-r--r-- root/root 4143 2026-02-16 21:15 ./usr/share/man/man1/hhblits.1.gz -rw-r--r-- root/root 4153 2026-02-16 21:15 ./usr/share/man/man1/hhblits_omp.1.gz -rw-r--r-- root/root 1031 2026-02-16 21:15 ./usr/share/man/man1/hhconsensus.1.gz -rw-r--r-- root/root 1023 2026-02-16 21:15 ./usr/share/man/man1/hhfilter.1.gz -rw-r--r-- root/root 1658 2026-02-16 21:15 ./usr/share/man/man1/hhmake.1.gz -rw-r--r-- root/root 3358 2026-02-16 21:15 ./usr/share/man/man1/hhsearch.1.gz +------------------------------------------------------------------------------+ | Post Build Sat, 19 Sep 2026 23:51:22 +0000 | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup Sat, 19 Sep 2026 23:51:22 +0000 | +------------------------------------------------------------------------------+ Purging /build/hhsuite-VUQq7h Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary Sat, 19 Sep 2026 23:51:23 +0000 | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: full Build-Space: 3867508 Build-Time: 1220 Distribution: perl-5.44-throwaway Host Architecture: amd64 Install-Time: 9 Job: /srv/debomatic/incoming/hhsuite_3.3.0+ds-10.dsc Machine Architecture: amd64 Package: hhsuite Package-Time: 1241 Source-Version: 3.3.0+ds-10 Space: 3867508 Status: successful Version: 3.3.0+ds-10 -------------------------------------------------------------------------------- Finished at 2026-09-19T23:51:12Z Build needed 00:20:41, 3867508k disk space