sbuild (Debian sbuild) 0.85.10 (30 May 2024) on carme.larted.org.uk +==============================================================================+ | hhsuite 3.3.0+ds-8 (amd64) Sun, 04 Aug 2024 01:06:44 +0000 | +==============================================================================+ Package: hhsuite Version: 3.3.0+ds-8 Source Version: 3.3.0+ds-8 Distribution: perl-5.40-throwaway Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: full I: NOTICE: Log filtering will replace 'var/run/schroot/mount/perl-5.40-amd64-debomatic-6407d3a3-3973-4840-bef3-6c11f9687f66' with '<>' +------------------------------------------------------------------------------+ | Chroot Setup Commands | +------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup hhsuite_3.3.0+ds-8 perl-5.40-throwaway amd64 ------------------------------------------------------------------------------------------------------------------- I: Finished running '/usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup hhsuite_3.3.0+ds-8 perl-5.40-throwaway amd64'. Finished processing commands. -------------------------------------------------------------------------------- I: NOTICE: Log filtering will replace 'build/hhsuite-b4AeHN/resolver-vdhOqi' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 file:/srv/reprepro perl-5.40 InRelease [3042 B] Hit:2 http://deb.debian.org/debian unstable InRelease Get:1 file:/srv/reprepro perl-5.40 InRelease [3042 B] Hit:3 http://localhost:3142/debian sid InRelease 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 | +------------------------------------------------------------------------------+ Local sources ------------- /srv/debomatic/incoming/hhsuite_3.3.0+ds-8.dsc exists in /srv/debomatic/incoming; copying to chroot I: NOTICE: Log filtering will replace 'build/hhsuite-b4AeHN/hhsuite-3.3.0+ds' with '<>' I: NOTICE: Log filtering will replace 'build/hhsuite-b4AeHN' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), libsimde-dev, cmake, imagemagick, help2man, build-essential, fakeroot Filtered Build-Depends: debhelper-compat (= 13), libsimde-dev, cmake, imagemagick, help2man, build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<>/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [609 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [661 B] Get:5 copy:/<>/apt_archive ./ Packages [693 B] Fetched 1963 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... The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils cmake cmake-data debhelper dh-autoreconf dh-strip-nondeterminism dwz fakeroot file fontconfig-config fonts-dejavu-core fonts-dejavu-mono gettext gettext-base groff-base help2man hicolor-icon-theme imagemagick imagemagick-6-common imagemagick-6.q16 intltool-debian libarchive-zip-perl libarchive13t64 libbrotli1 libcom-err2 libcurl4t64 libdav1d7 libde265-0 libdebhelper-perl libdeflate0 libelf1t64 libexpat1 libfakeroot libfftw3-double3 libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libglib2.0-0t64 libgssapi-krb5-2 libheif-plugin-dav1d libheif-plugin-libde265 libheif1 libicu72 libjbig0 libjpeg62-turbo libjsoncpp25 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblcms2-2 liblerc4 liblocale-gettext-perl liblqr-1-0 libltdl7 libmagic-mgc libmagic1t64 libmagickcore-6.q16-7t64 libmagickwand-6.q16-7t64 libnghttp2-14 libopenjp2-7 libpipeline1 libpng16-16t64 libproc2-0 libpsl5t64 libraw23t64 librhash0 librtmp1 libsharpyuv0 libsimde-dev libssh2-1t64 libtiff6 libtool libuchardet0 libuv1t64 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxext6 libxml2 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 groff imagemagick-6-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-6.q16-7-extra libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx libmagickcore-6.q16-7-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 cmake-data debhelper dh-autoreconf dh-strip-nondeterminism dwz fakeroot file fontconfig-config fonts-dejavu-core fonts-dejavu-mono gettext gettext-base groff-base help2man hicolor-icon-theme imagemagick imagemagick-6-common imagemagick-6.q16 intltool-debian libarchive-zip-perl libarchive13t64 libbrotli1 libcom-err2 libcurl4t64 libdav1d7 libde265-0 libdebhelper-perl libdeflate0 libelf1t64 libexpat1 libfakeroot libfftw3-double3 libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libglib2.0-0t64 libgssapi-krb5-2 libheif-plugin-dav1d libheif-plugin-libde265 libheif1 libicu72 libjbig0 libjpeg62-turbo libjsoncpp25 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblcms2-2 liblerc4 liblocale-gettext-perl liblqr-1-0 libltdl7 libmagic-mgc libmagic1t64 libmagickcore-6.q16-7t64 libmagickwand-6.q16-7t64 libnghttp2-14 libopenjp2-7 libpipeline1 libpng16-16t64 libproc2-0 libpsl5t64 libraw23t64 librhash0 librtmp1 libsharpyuv0 libsimde-dev libssh2-1t64 libtiff6 libtool libuchardet0 libuv1t64 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxext6 libxml2 m4 man-db po-debconf procps sbuild-build-depends-main-dummy sensible-utils 0 upgraded, 95 newly installed, 0 to remove and 0 not upgraded. Need to get 47.6 MB/50.0 MB of archives. After this operation, 184 MB of additional disk space will be used. Get:1 file:/srv/reprepro perl-5.40/main amd64 liblocale-gettext-perl amd64 1.07-7+b1 [15.3 kB] Get:2 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [912 B] Get:3 http://deb.debian.org/debian unstable/main amd64 libfftw3-double3 amd64 3.3.10-1+b3 [780 kB] Get:4 file:/srv/reprepro perl-5.40/main amd64 libmagickcore-6.q16-7t64 amd64 8:6.9.13.12+dfsg1-1+b1 [1740 kB] Get:5 http://deb.debian.org/debian unstable/main amd64 libexpat1 amd64 2.6.2-1 [103 kB] Get:6 file:/srv/reprepro perl-5.40/main amd64 libmagickwand-6.q16-7t64 amd64 8:6.9.13.12+dfsg1-1+b1 [311 kB] Get:7 file:/srv/reprepro perl-5.40/main amd64 imagemagick-6.q16 amd64 8:6.9.13.12+dfsg1-1+b1 [290 kB] Get:8 file:/srv/reprepro perl-5.40/main amd64 imagemagick amd64 8:6.9.13.12+dfsg1-1+b1 [19.9 kB] Get:9 http://deb.debian.org/debian unstable/main amd64 libbrotli1 amd64 1.1.0-2+b4 [300 kB] Get:10 http://deb.debian.org/debian unstable/main amd64 libpng16-16t64 amd64 1.6.43-5 [278 kB] Get:11 http://deb.debian.org/debian unstable/main amd64 libfreetype6 amd64 2.13.2+dfsg-1+b4 [439 kB] Get:12 http://deb.debian.org/debian unstable/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get:13 http://deb.debian.org/debian unstable/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get:14 http://deb.debian.org/debian unstable/main amd64 fontconfig-config amd64 2.15.0-1.1 [317 kB] Get:15 http://deb.debian.org/debian unstable/main amd64 libfontconfig1 amd64 2.15.0-1.1 [388 kB] Get:16 http://deb.debian.org/debian unstable/main amd64 libsharpyuv0 amd64 1.4.0-0.1 [113 kB] Get:17 http://deb.debian.org/debian unstable/main amd64 libdav1d7 amd64 1.4.3-1 [551 kB] Get:18 http://deb.debian.org/debian unstable/main amd64 libheif-plugin-dav1d amd64 1.18.1-1 [10.6 kB] Get:19 http://deb.debian.org/debian unstable/main amd64 libde265-0 amd64 1.0.15-1+b2 [189 kB] Get:20 http://deb.debian.org/debian unstable/main amd64 libheif-plugin-libde265 amd64 1.18.1-1 [13.9 kB] Get:21 http://deb.debian.org/debian unstable/main amd64 libheif1 amd64 1.18.1-1 [342 kB] Get:22 http://deb.debian.org/debian unstable/main amd64 libjbig0 amd64 2.1-6.1+b1 [32.0 kB] Get:23 http://deb.debian.org/debian unstable/main amd64 libjpeg62-turbo amd64 1:2.1.5-3 [167 kB] Get:24 http://deb.debian.org/debian unstable/main amd64 liblcms2-2 amd64 2.14-2+b1 [154 kB] Get:25 http://deb.debian.org/debian unstable/main amd64 libglib2.0-0t64 amd64 2.81.1-3 [1496 kB] Get:26 http://deb.debian.org/debian unstable/main amd64 liblqr-1-0 amd64 0.4.2-2.1+b1 [29.2 kB] Get:27 http://deb.debian.org/debian unstable/main amd64 libltdl7 amd64 2.4.7-7+b1 [393 kB] Get:28 http://deb.debian.org/debian unstable/main amd64 libopenjp2-7 amd64 2.5.0-2+b3 [190 kB] Get:29 http://deb.debian.org/debian unstable/main amd64 libraw23t64 amd64 0.21.2-2.1 [388 kB] Get:30 http://deb.debian.org/debian unstable/main amd64 libdeflate0 amd64 1.20-1 [46.0 kB] Get:31 http://deb.debian.org/debian unstable/main amd64 liblerc4 amd64 4.0.0+ds-4+b1 [171 kB] Get:32 http://deb.debian.org/debian unstable/main amd64 libwebp7 amd64 1.4.0-0.1 [311 kB] Get:33 http://deb.debian.org/debian unstable/main amd64 libtiff6 amd64 4.5.1+git230720-4 [322 kB] Get:34 http://deb.debian.org/debian unstable/main amd64 libwebpdemux2 amd64 1.4.0-0.1 [110 kB] Get:35 http://deb.debian.org/debian unstable/main amd64 libwebpmux3 amd64 1.4.0-0.1 [123 kB] Get:36 http://deb.debian.org/debian unstable/main amd64 libxau6 amd64 1:1.0.9-1+b1 [18.1 kB] Get:37 http://deb.debian.org/debian unstable/main amd64 libxdmcp6 amd64 1:1.1.2-3+b1 [24.3 kB] Get:38 http://deb.debian.org/debian unstable/main amd64 libxcb1 amd64 1.17.0-2 [144 kB] Get:39 http://deb.debian.org/debian unstable/main amd64 libx11-data all 2:1.8.7-1 [328 kB] Get:40 http://deb.debian.org/debian unstable/main amd64 libx11-6 amd64 2:1.8.7-1+b1 [799 kB] Get:41 http://deb.debian.org/debian unstable/main amd64 libxext6 amd64 2:1.3.4-1+b1 [52.9 kB] Get:42 http://deb.debian.org/debian unstable/main amd64 libicu72 amd64 72.1-5 [9396 kB] Get:43 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg-3+b1 [671 kB] Get:44 http://deb.debian.org/debian unstable/main amd64 imagemagick-6-common all 8:6.9.13.12+dfsg1-1 [67.3 kB] Get:45 http://deb.debian.org/debian unstable/main amd64 libproc2-0 amd64 2:4.0.4-5 [64.7 kB] Get:46 http://deb.debian.org/debian unstable/main amd64 procps amd64 2:4.0.4-5 [878 kB] Get:47 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get:48 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3 [314 kB] Get:49 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3 [105 kB] Get:50 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.45-3 [42.9 kB] Get:51 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.22.5-2 [200 kB] Get:52 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b1 [68.8 kB] Get:53 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-5 [1181 kB] Get:54 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.40.2-1 [96.1 kB] Get:55 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.7-2 [38.0 kB] Get:56 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.12.1-2 [1411 kB] Get:57 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-4 [287 kB] Get:58 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.71-3 [332 kB] Get:59 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get:60 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get:61 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.22.5-2 [723 kB] Get:62 http://deb.debian.org/debian unstable/main amd64 libarchive13t64 amd64 3.7.2-2.1 [346 kB] Get:63 http://deb.debian.org/debian unstable/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get:64 http://deb.debian.org/debian unstable/main amd64 libcom-err2 amd64 1.47.1-1 [22.9 kB] Get:65 http://deb.debian.org/debian unstable/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get:66 http://deb.debian.org/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-3 [8952 B] Get:67 http://deb.debian.org/debian unstable/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get:68 http://deb.debian.org/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get:69 http://deb.debian.org/debian unstable/main amd64 libnghttp2-14 amd64 1.62.1-2 [74.9 kB] Get:70 http://deb.debian.org/debian unstable/main amd64 libpsl5t64 amd64 0.21.2-1.1 [56.8 kB] Get:71 http://deb.debian.org/debian unstable/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b4 [58.5 kB] Get:72 http://deb.debian.org/debian unstable/main amd64 libssh2-1t64 amd64 1.11.0-7 [216 kB] Get:73 http://deb.debian.org/debian unstable/main amd64 libcurl4t64 amd64 8.9.1-1 [463 kB] Get:74 http://deb.debian.org/debian unstable/main amd64 libjsoncpp25 amd64 1.9.5-6+b2 [81.9 kB] Get:75 http://deb.debian.org/debian unstable/main amd64 librhash0 amd64 1.4.3-3+b1 [132 kB] Get:76 http://deb.debian.org/debian unstable/main amd64 libuv1t64 amd64 1.48.0-5 [148 kB] Get:77 http://deb.debian.org/debian unstable/main amd64 cmake-data all 3.30.2-1 [2268 kB] Get:78 http://deb.debian.org/debian unstable/main amd64 cmake amd64 3.30.2-1 [11.4 MB] Get:79 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.16 [88.6 kB] Get:80 http://deb.debian.org/debian unstable/main amd64 libtool all 2.4.7-7 [517 kB] Get:81 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 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 1.14.0-1 [19.5 kB] Get:84 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get:85 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.191-2 [188 kB] Get:86 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get:87 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.22.5-2 [1601 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 1.0.21+nmu1 [248 kB] Get:90 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.16 [891 kB] Get:91 http://deb.debian.org/debian unstable/main amd64 libfakeroot amd64 1.35.1-1 [28.6 kB] Get:92 http://deb.debian.org/debian unstable/main amd64 fakeroot amd64 1.35.1-1 [74.5 kB] Get:93 http://deb.debian.org/debian unstable/main amd64 help2man amd64 1.49.3 [198 kB] Get:94 http://deb.debian.org/debian unstable/main amd64 hicolor-icon-theme all 0.18-1 [12.0 kB] Get:95 http://deb.debian.org/debian unstable/main amd64 libsimde-dev all 0.8.2-1 [465 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 47.6 MB in 0s (123 MB/s) Selecting previously unselected package liblocale-gettext-perl. (Reading database ... 22966 files and directories currently installed.) Preparing to unpack .../00-liblocale-gettext-perl_1.07-7+b1_amd64.deb ... Unpacking liblocale-gettext-perl (1.07-7+b1) ... Selecting previously unselected package libfftw3-double3:amd64. Preparing to unpack .../01-libfftw3-double3_3.3.10-1+b3_amd64.deb ... Unpacking libfftw3-double3:amd64 (3.3.10-1+b3) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../02-libexpat1_2.6.2-1_amd64.deb ... Unpacking libexpat1:amd64 (2.6.2-1) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../03-libbrotli1_1.1.0-2+b4_amd64.deb ... Unpacking libbrotli1:amd64 (1.1.0-2+b4) ... Selecting previously unselected package libpng16-16t64:amd64. Preparing to unpack .../04-libpng16-16t64_1.6.43-5_amd64.deb ... Unpacking libpng16-16t64:amd64 (1.6.43-5) ... Selecting previously unselected package libfreetype6:amd64. Preparing to unpack .../05-libfreetype6_2.13.2+dfsg-1+b4_amd64.deb ... Unpacking libfreetype6:amd64 (2.13.2+dfsg-1+b4) ... Selecting previously unselected package fonts-dejavu-mono. Preparing to unpack .../06-fonts-dejavu-mono_2.37-8_all.deb ... Unpacking fonts-dejavu-mono (2.37-8) ... Selecting previously unselected package fonts-dejavu-core. Preparing to unpack .../07-fonts-dejavu-core_2.37-8_all.deb ... Unpacking fonts-dejavu-core (2.37-8) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../08-fontconfig-config_2.15.0-1.1_amd64.deb ... Unpacking fontconfig-config (2.15.0-1.1) ... Selecting previously unselected package libfontconfig1:amd64. Preparing to unpack .../09-libfontconfig1_2.15.0-1.1_amd64.deb ... Unpacking libfontconfig1:amd64 (2.15.0-1.1) ... Selecting previously unselected package libsharpyuv0:amd64. Preparing to unpack .../10-libsharpyuv0_1.4.0-0.1_amd64.deb ... Unpacking libsharpyuv0:amd64 (1.4.0-0.1) ... 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Preparing to unpack .../94-sbuild-build-depends-main-dummy_0.invalid.0_amd64.deb ... Unpacking sbuild-build-depends-main-dummy (0.invalid.0) ... Setting up libexpat1:amd64 (2.6.2-1) ... Setting up libpipeline1:amd64 (1.5.7-2) ... Setting up libsimde-dev (0.8.2-1) ... Setting up liblcms2-2:amd64 (2.14-2+b1) ... Setting up libsharpyuv0:amd64 (1.4.0-0.1) ... Setting up libxau6:amd64 (1:1.0.9-1+b1) ... Setting up imagemagick-6-common (8:6.9.13.12+dfsg1-1) ... Setting up libxdmcp6:amd64 (1:1.1.2-3+b1) ... Setting up libkeyutils1:amd64 (1.6.3-3) ... Setting up libxcb1:amd64 (1.17.0-2) ... Setting up libicu72:amd64 (72.1-5) ... Setting up liblerc4:amd64 (4.0.0+ds-4+b1) ... Setting up bsdextrautils (2.40.2-1) ... Setting up hicolor-icon-theme (0.18-1) ... Setting up libmagic-mgc (1:5.45-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.16) ... Setting up libbrotli1:amd64 (1.1.0-2+b4) ... Setting up libuv1t64:amd64 (1.48.0-5) ... Setting up libmagic1t64:amd64 (1:5.45-3) ... Setting up libpsl5t64:amd64 (0.21.2-1.1) ... Setting up libnghttp2-14:amd64 (1.62.1-2) ... Setting up libdeflate0:amd64 (1.20-1) ... Setting up gettext-base (0.22.5-2) ... Setting up m4 (1.4.19-4) ... Setting up libcom-err2:amd64 (1.47.1-1) ... Setting up file (1:5.45-3) ... Setting up libjbig0:amd64 (2.1-6.1+b1) ... Setting up libfakeroot:amd64 (1.35.1-1) ... Setting up libelf1t64:amd64 (0.191-2) ... Setting up libkrb5support0:amd64 (1.21.3-3) ... Setting up fakeroot (1.35.1-1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Setting up autotools-dev (20220109.1) ... Setting up libglib2.0-0t64:amd64 (2.81.1-3) ... No schema files found: doing nothing. Setting up libjpeg62-turbo:amd64 (1:2.1.5-3) ... Setting up libx11-data (2:1.8.7-1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b4) ... Setting up libproc2-0:amd64 (2:4.0.4-5) ... Setting up fonts-dejavu-mono (2.37-8) ... Setting up libpng16-16t64:amd64 (1.6.43-5) ... Setting up autopoint (0.22.5-2) ... Setting up libjsoncpp25:amd64 (1.9.5-6+b2) ... Setting up fonts-dejavu-core (2.37-8) ... Setting up libk5crypto3:amd64 (1.21.3-3) ... Setting up libltdl7:amd64 (2.4.7-7+b1) ... Setting up libfftw3-double3:amd64 (3.3.10-1+b3) ... Setting up libraw23t64:amd64 (0.21.2-2.1) ... Setting up autoconf (2.71-3) ... Setting up libwebp7:amd64 (1.4.0-0.1) ... Setting up dwz (0.15-1+b1) ... Setting up libdav1d7:amd64 (1.4.3-1) ... Setting up liblqr-1-0:amd64 (0.4.2-2.1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up librhash0:amd64 (1.4.3-3+b1) ... Setting up libtiff6:amd64 (4.5.1+git230720-4) ... Setting up libuchardet0:amd64 (0.0.8-1+b1) ... Setting up procps (2:4.0.4-5) ... Setting up libopenjp2-7:amd64 (2.5.0-2+b3) ... Setting up libx11-6:amd64 (2:1.8.7-1+b1) ... Setting up cmake-data (3.30.2-1) ... Setting up libkrb5-3:amd64 (1.21.3-3) ... Setting up libssh2-1t64:amd64 (1.11.0-7) ... Setting up libde265-0:amd64 (1.0.15-1+b2) ... Setting up libwebpmux3:amd64 (1.4.0-0.1) ... Setting up libxml2:amd64 (2.12.7+dfsg-3+b1) ... Setting up liblocale-gettext-perl (1.07-7+b1) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up gettext (0.22.5-2) ... Setting up libtool (2.4.7-7) ... Setting up fontconfig-config (2.15.0-1.1) ... Setting up libwebpdemux2:amd64 (1.4.0-0.1) ... Setting up libxext6:amd64 (2:1.3.4-1+b1) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up help2man (1.49.3) ... Setting up dh-autoreconf (20) ... Setting up libfreetype6:amd64 (2.13.2+dfsg-1+b4) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-3) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up groff-base (1.23.0-5) ... Setting up libfontconfig1:amd64 (2.15.0-1.1) ... Setting up libarchive13t64:amd64 (3.7.2-2.1) ... Setting up libcurl4t64:amd64 (8.9.1-1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.12.1-2) ... Not building database; man-db/auto-update is not 'true'. Setting up cmake (3.30.2-1) ... Setting up debhelper (13.16) ... Setting up libheif-plugin-dav1d:amd64 (1.18.1-1) ... Setting up libheif-plugin-libde265:amd64 (1.18.1-1) ... Setting up libheif1:amd64 (1.18.1-1) ... Setting up libmagickcore-6.q16-7t64:amd64 (8:6.9.13.12+dfsg1-1+b1) ... Setting up libmagickwand-6.q16-7t64:amd64 (8:6.9.13.12+dfsg1-1+b1) ... Setting up imagemagick-6.q16 (8:6.9.13.12+dfsg1-1+b1) ... update-alternatives: using /usr/bin/compare-im6.q16 to provide /usr/bin/compare (compare) in auto mode update-alternatives: using /usr/bin/compare-im6.q16 to provide /usr/bin/compare-im6 (compare-im6) in auto mode update-alternatives: using /usr/bin/animate-im6.q16 to provide /usr/bin/animate (animate) in auto mode update-alternatives: using /usr/bin/animate-im6.q16 to provide /usr/bin/animate-im6 (animate-im6) in auto mode update-alternatives: using /usr/bin/convert-im6.q16 to provide /usr/bin/convert (convert) in auto mode update-alternatives: using /usr/bin/convert-im6.q16 to provide /usr/bin/convert-im6 (convert-im6) in auto mode update-alternatives: using /usr/bin/composite-im6.q16 to provide /usr/bin/composite (composite) in auto mode update-alternatives: using /usr/bin/composite-im6.q16 to provide /usr/bin/composite-im6 (composite-im6) in auto mode update-alternatives: using /usr/bin/conjure-im6.q16 to provide /usr/bin/conjure (conjure) in auto mode update-alternatives: using /usr/bin/conjure-im6.q16 to provide /usr/bin/conjure-im6 (conjure-im6) in auto mode update-alternatives: using /usr/bin/import-im6.q16 to provide /usr/bin/import (import) in auto mode update-alternatives: using /usr/bin/import-im6.q16 to provide /usr/bin/import-im6 (import-im6) in auto mode update-alternatives: using /usr/bin/identify-im6.q16 to provide /usr/bin/identify (identify) in auto mode update-alternatives: using /usr/bin/identify-im6.q16 to provide /usr/bin/identify-im6 (identify-im6) in auto mode update-alternatives: using /usr/bin/stream-im6.q16 to provide /usr/bin/stream (stream) in auto mode update-alternatives: using /usr/bin/stream-im6.q16 to provide /usr/bin/stream-im6 (stream-im6) in auto mode update-alternatives: using /usr/bin/display-im6.q16 to provide /usr/bin/display (display) in auto mode update-alternatives: using /usr/bin/display-im6.q16 to provide /usr/bin/display-im6 (display-im6) in auto mode update-alternatives: using /usr/bin/montage-im6.q16 to provide /usr/bin/montage (montage) in auto mode update-alternatives: using /usr/bin/montage-im6.q16 to provide /usr/bin/montage-im6 (montage-im6) in auto mode update-alternatives: using /usr/bin/mogrify-im6.q16 to provide /usr/bin/mogrify (mogrify) in auto mode update-alternatives: using /usr/bin/mogrify-im6.q16 to provide /usr/bin/mogrify-im6 (mogrify-im6) in auto mode Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Setting up imagemagick (8:6.9.13.12+dfsg1-1+b1) ... Processing triggers for libc-bin (2.39-6) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any all) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 6.9.7-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.9.7-1 (2024-06-27) amd64 (x86_64) Toolchain package versions: binutils_2.42.90.20240720-2 dpkg-dev_1.22.11 g++-13_13.3.0-4 g++-14_14.2.0-1 gcc-13_13.3.0-4 gcc-14_14.2.0-1 libc6-dev_2.39-6 libstdc++-13-dev_13.3.0-4 libstdc++-14-dev_14.2.0-1 libstdc++6_14.2.0-1 linux-libc-dev_6.9.12-1 Package versions: adduser_3.137 apt_2.9.7 autoconf_2.71-3 automake_1:1.16.5-1.3 autopoint_0.22.5-2 autotools-dev_20220109.1 base-files_13.4 base-passwd_3.6.4 bash_5.2.21-2.1 binutils_2.42.90.20240720-2 binutils-common_2.42.90.20240720-2 binutils-x86-64-linux-gnu_2.42.90.20240720-2 bsdextrautils_2.40.2-1 bsdutils_1:2.40.2-1 build-essential_12.10 bzip2_1.0.8-5.1 cmake_3.30.2-1 cmake-data_3.30.2-1 coreutils_9.4-3.1 cpp_4:14.1.0-2 cpp-13_13.3.0-4 cpp-13-x86-64-linux-gnu_13.3.0-4 cpp-14_14.2.0-1 cpp-14-x86-64-linux-gnu_14.2.0-1 cpp-x86-64-linux-gnu_4:14.1.0-2 dash_0.5.12-9 debconf_1.5.87 debhelper_13.16 debian-archive-keyring_2023.4 debianutils_5.20 dh-autoreconf_20 dh-strip-nondeterminism_1.14.0-1 diffutils_1:3.10-1 dirmngr_2.2.43-8 dpkg_1.22.11 dpkg-dev_1.22.11 dwz_0.15-1+b1 eatmydata_131-2 fakeroot_1.35.1-1 file_1:5.45-3 findutils_4.10.0-2 fontconfig-config_2.15.0-1.1 fonts-dejavu-core_2.37-8 fonts-dejavu-mono_2.37-8 g++_4:14.1.0-2 g++-13_13.3.0-4 g++-13-x86-64-linux-gnu_13.3.0-4 g++-14_14.2.0-1 g++-14-x86-64-linux-gnu_14.2.0-1 g++-x86-64-linux-gnu_4:14.1.0-2 gcc_4:14.1.0-2 gcc-13_13.3.0-4 gcc-13-base_13.3.0-4 gcc-13-x86-64-linux-gnu_13.3.0-4 gcc-14_14.2.0-1 gcc-14-base_14.2.0-1 gcc-14-x86-64-linux-gnu_14.2.0-1 gcc-x86-64-linux-gnu_4:14.1.0-2 gettext_0.22.5-2 gettext-base_0.22.5-2 gnupg_2.2.43-8 gnupg-l10n_2.2.43-8 gnupg-utils_2.2.43-8 gpg_2.2.43-8 gpg-agent_2.2.43-8 gpg-wks-client_2.2.43-8 gpgconf_2.2.43-8 gpgsm_2.2.43-8 gpgv_2.2.43-8 grep_3.11-4 groff-base_1.23.0-5 gzip_1.12-1.1 help2man_1.49.3 hicolor-icon-theme_0.18-1 hostname_3.23+nmu2 imagemagick_8:6.9.13.12+dfsg1-1+b1 imagemagick-6-common_8:6.9.13.12+dfsg1-1 imagemagick-6.q16_8:6.9.13.12+dfsg1-1+b1 init-system-helpers_1.66 intltool-debian_0.35.0+20060710.6 libacl1_2.3.2-2 libapt-pkg6.0t64_2.9.7 libarchive-zip-perl_1.68-1 libarchive13t64_3.7.2-2.1 libasan8_14.2.0-1 libassuan0_2.5.6-1+b1 libatomic1_14.2.0-1 libattr1_1:2.5.2-1 libaudit-common_1:3.1.2-4 libaudit1_1:3.1.2-4+b1 libbinutils_2.42.90.20240720-2 libblkid1_2.40.2-1 libbrotli1_1.1.0-2+b4 libbsd0_0.12.2-1 libbz2-1.0_1.0.8-5.1 libc-bin_2.39-6 libc-dev-bin_2.39-6 libc-l10n_2.39-6 libc6_2.39-6 libc6-dev_2.39-6 libcap-ng0_0.8.5-1+b1 libcap2_1:2.66-5 libcc1-0_14.2.0-1 libcom-err2_1.47.1-1 libcrypt-dev_1:4.4.36-4 libcrypt1_1:4.4.36-4 libctf-nobfd0_2.42.90.20240720-2 libctf0_2.42.90.20240720-2 libcurl4t64_8.9.1-1 libdav1d7_1.4.3-1 libdb5.3t64_5.3.28+dfsg2-7 libde265-0_1.0.15-1+b2 libdebconfclient0_0.272 libdebhelper-perl_13.16 libdeflate0_1.20-1 libdpkg-perl_1.22.11 libeatmydata1_131-2 libelf1t64_0.191-2 libexpat1_2.6.2-1 libfakeroot_1.35.1-1 libffi8_3.4.6-1 libfftw3-double3_3.3.10-1+b3 libfile-stripnondeterminism-perl_1.14.0-1 libfontconfig1_2.15.0-1.1 libfreetype6_2.13.2+dfsg-1+b4 libgcc-13-dev_13.3.0-4 libgcc-14-dev_14.2.0-1 libgcc-s1_14.2.0-1 libgcrypt20_1.11.0-5 libgdbm-compat4t64_1.23-6 libgdbm6t64_1.23-6 libglib2.0-0t64_2.81.1-3 libgmp10_2:6.3.0+dfsg-2+b1 libgnutls30t64_3.8.6-2 libgomp1_14.2.0-1 libgpg-error0_1.50-2 libgprofng0_2.42.90.20240720-2 libgssapi-krb5-2_1.21.3-3 libheif-plugin-dav1d_1.18.1-1 libheif-plugin-libde265_1.18.1-1 libheif1_1.18.1-1 libhogweed6t64_3.10-1 libhwasan0_14.2.0-1 libicu72_72.1-5 libidn2-0_2.3.7-2 libisl23_0.26-3+b2 libitm1_14.2.0-1 libjansson4_2.14-2+b2 libjbig0_2.1-6.1+b1 libjpeg62-turbo_1:2.1.5-3 libjsoncpp25_1.9.5-6+b2 libk5crypto3_1.21.3-3 libkeyutils1_1.6.3-3 libkrb5-3_1.21.3-3 libkrb5support0_1.21.3-3 libksba8_1.6.7-2 liblcms2-2_2.14-2+b1 libldap-2.5-0_2.5.18+dfsg-2+b1 liblerc4_4.0.0+ds-4+b1 liblocale-gettext-perl_1.07-7+b1 liblqr-1-0_0.4.2-2.1+b1 liblsan0_14.2.0-1 libltdl7_2.4.7-7+b1 liblz4-1_1.9.4-3 liblzma5_5.6.2-2 libmagic-mgc_1:5.45-3 libmagic1t64_1:5.45-3 libmagickcore-6.q16-7t64_8:6.9.13.12+dfsg1-1+b1 libmagickwand-6.q16-7t64_8:6.9.13.12+dfsg1-1+b1 libmd0_1.1.0-2 libmount1_2.40.2-1 libmpc3_1.3.1-1+b2 libmpfr6_4.2.1-1+b1 libncursesw6_6.5-2 libnettle8t64_3.10-1 libnghttp2-14_1.62.1-2 libnpth0t64_1.6-3.1 libopenjp2-7_2.5.0-2+b3 libp11-kit0_0.25.5-2 libpam-modules_1.5.3-7 libpam-modules-bin_1.5.3-7 libpam-runtime_1.5.3-7 libpam0g_1.5.3-7 libpcre2-8-0_10.42-4+b1 libperl5.38t64_5.38.2-5 libperl5.40_5.40.0-1 libpipeline1_1.5.7-2 libpng16-16t64_1.6.43-5 libproc2-0_2:4.0.4-5 libpsl5t64_0.21.2-1.1 libquadmath0_14.2.0-1 libraw23t64_0.21.2-2.1 libreadline8t64_8.2-4 librhash0_1.4.3-3+b1 librtmp1_2.4+20151223.gitfa8646d.1-2+b4 libsasl2-2_2.1.28+dfsg1-6 libsasl2-modules-db_2.1.28+dfsg1-6 libseccomp2_2.5.5-1+b1 libselinux1_3.5-2+b3 libsemanage-common_3.5-1 libsemanage2_3.5-1+b4 libsepol2_3.5-2+b1 libsframe1_2.42.90.20240720-2 libsharpyuv0_1.4.0-0.1 libsimde-dev_0.8.2-1 libsmartcols1_2.40.2-1 libsqlite3-0_3.46.0-1 libssh2-1t64_1.11.0-7 libssl3t64_3.3.1-2 libstdc++-13-dev_13.3.0-4 libstdc++-14-dev_14.2.0-1 libstdc++6_14.2.0-1 libsystemd0_256.4-2 libtasn1-6_4.19.0-3+b2 libtiff6_4.5.1+git230720-4 libtinfo6_6.5-2 libtool_2.4.7-7 libtsan2_14.2.0-1 libubsan1_14.2.0-1 libuchardet0_0.0.8-1+b1 libudev1_256.4-2 libunistring5_1.2-1 libuuid1_2.40.2-1 libuv1t64_1.48.0-5 libwebp7_1.4.0-0.1 libwebpdemux2_1.4.0-0.1 libwebpmux3_1.4.0-0.1 libx11-6_2:1.8.7-1+b1 libx11-data_2:1.8.7-1 libxau6_1:1.0.9-1+b1 libxcb1_1.17.0-2 libxdmcp6_1:1.1.2-3+b1 libxext6_2:1.3.4-1+b1 libxml2_2.12.7+dfsg-3+b1 libxxhash0_0.8.2-2+b1 libzstd1_1.5.6+dfsg-1 linux-libc-dev_6.9.12-1 locales-all_2.39-6 login_1:4.15.3-3 m4_1.4.19-4 make_4.3-4.1 man-db_2.12.1-2 mawk_1.3.4.20240622-2 ncurses-base_6.5-2 ncurses-bin_6.5-2 passwd_1:4.15.3-3 patch_2.7.6-7 perl_5.40.0-1 perl-base_5.40.0-1 perl-modules-5.38_5.38.2-5 perl-modules-5.40_5.40.0-1 pinentry-curses_1.2.1-3+b2 po-debconf_1.0.21+nmu1 procps_2:4.0.4-5 readline-common_8.2-4 rpcsvc-proto_1.4.3-1 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.9-2 sensible-utils_0.0.24 sysvinit-utils_3.09-2 tar_1.35+dfsg-3 usr-is-merged_39 util-linux_2.40.2-1 xz-utils_5.6.2-2 zlib1g_1:1.3.dfsg+really1.3.1-1 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ 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-8 Maintainer: Debian Med Packaging Team Uploaders: Laszlo Kajan , Andreas Tille , Sascha Steinbiss Homepage: https://toolkit.tuebingen.mpg.de/ Standards-Version: 4.6.2 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 0c6aa80d717ee79df31a05f33d2f461b1b6f0c88 16868 hhsuite_3.3.0+ds-8.debian.tar.xz Checksums-Sha256: a81037f2e2a4801f1a42f5aa5939334fe038053d05ceabdc0899fefb8cc00a44 4775072 hhsuite_3.3.0+ds.orig.tar.xz d408a3d42581737068f06b96cd922c462f672beeb4faf94f41ac37340170b3cb 16868 hhsuite_3.3.0+ds-8.debian.tar.xz Files: d01293f2b8337f9b914b30976c2a87e9 4775072 hhsuite_3.3.0+ds.orig.tar.xz 81b05abfd099550bfb153063e218961e 16868 hhsuite_3.3.0+ds-8.debian.tar.xz Dgit: 140af672217dfdd27cb9e04f647e16721cab7092 debian archive/debian/3.3.0+ds-8 https://git.dgit.debian.org/hhsuite -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmTYqGkUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdoEMA/+LuZTmLibgbYZApaOGZdaX+PkhrsA zfcKaSk3+e/HPlWNU154xxOVy+O+Y5pCo/EknRdiMEmQPW4Xp5CJOKEFkJE98rpu zorYV6MrnGZbtce76kYae9bIOO7ufuZgOmJQmC8o4Br1ARVzcdb0CoeT/I/YlUaO 1GeZ7FRxPV5+2FnJepnZtN3pVs9flLqfmjkTUpuXunVczXQ/9OqQDHLl+9FRuW9l G/rWE7wu1PZC12UYSIOaCP5ZLWBdD8aTCrD787zdv7NEdhH19LJmrpNiaV9pUmbn 1gWsCwnOkTJPw49XsA6PmabKG3eigVh/vX9OPCyUIFlwsgWk1j59a6iuRdVfKKec tu6iS43HxaDNpmr9RDMPwRy0IJyzFVVfefcFEkiq81xvXWeCyZaIMZG1jiprbitC n17iBZeZbuSNpVfwA8afeBsxfEQF5mMa14pv0b1tYMxFySu578muNQulSbVHRyIm U1EV7JmoLcrAdNisorrWjHxsreQpWDWoTtttMhQiHGRAqusHl3AfNChpj1VdctFp DLSXPJR57EGgm6Wh/l/dcAsYsoTRxoZwIslbpyajyZLIMgJsBYXU+aQyAnnix+KN OKWs50hmPC09YXC7cia0qp2IlQaR/Si5jpY2nDoxi115qKH1z6k+s49gHHEXcZGP OCf9WhUaFjSQ0Yk= =W1CO -----END PGP SIGNATURE----- gpgv: Signature made Sun Aug 13 09:54:49 2023 UTC gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA gpgv: issuer "emollier@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./hhsuite_3.3.0+ds-8.dsc: no acceptable signature found dpkg-source: info: extracting hhsuite in /<> dpkg-source: info: unpacking hhsuite_3.3.0+ds.orig.tar.xz dpkg-source: info: unpacking hhsuite_3.3.0+ds-8.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 Check disk space ---------------- Sufficient free space for build +------------------------------------------------------------------------------+ | Starting Timed Build Commands | +------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/starting-build-commands/no-network hhsuite_3.3.0+ds-8 perl-5.40-throwaway amd64 ------------------------------------------------------------------------------------------------------------------- I: Finished running '/usr/share/debomatic/sbuildcommands/starting-build-commands/no-network hhsuite_3.3.0+ds-8 perl-5.40-throwaway amd64'. Finished processing commands. -------------------------------------------------------------------------------- User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf HOME=/sbuild-nonexistent LANG=en_GB.UTF-8 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=/<> SCHROOT_ALIAS_NAME=perl-5.40-throwaway-amd64-debomatic SCHROOT_CHROOT_NAME=perl-5.40-amd64-debomatic SCHROOT_COMMAND=env SCHROOT_GID=110 SCHROOT_GROUP=sbuild SCHROOT_SESSION_ID=perl-5.40-amd64-debomatic-6407d3a3-3973-4840-bef3-6c11f9687f66 SCHROOT_UID=1002 SCHROOT_USER=debomatic SHELL=/bin/sh USER=debomatic dpkg-buildpackage ----------------- Command: dpkg-buildpackage --sanitize-env -us -uc -rfakeroot -Zxz dpkg-buildpackage: info: source package hhsuite dpkg-buildpackage: info: source version 3.3.0+ds-8 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier 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 '/<>' dh_auto_clean rm -rf hhalign.1 hhblits.1 hhblits_omp.1 hhconsensus.1 hhfilter.1 hhmake.1 hhsearch.1 build-* mybuild find . -name "*.rej" -delete find . -name "*~" -delete dh_clean make[1]: Leaving directory '/<>' 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-8.debian.tar.xz dpkg-source: info: building hhsuite in hhsuite_3.3.0+ds-8.dsc debian/rules binary dh binary dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_configure-arch make[1]: Entering directory '/<>' for SIMD in avx2 avx sse4.1 ssse3 sse3 ; do \ export CXXFLAGS="-g -O2 -ffile-prefix-map=/<>=. -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; \ done cd build_avx2 && DEB_PYTHON_INSTALL_LAYOUT=deb 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_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DEXE_SUFFIX=-avx2 -DNATIVE_ARCH=0 .. CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- The C compiler identification is GNU 14.2.0 -- The CXX compiler identification is GNU 14.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - 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/c++ - 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 < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- 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 "4.5") -- Found OpenMP_CXX: -fopenmp (found version "4.5") -- Found OpenMP: TRUE (found version "4.5") -- Found OpenMP -- Configuring done (1.8s) -- 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_avx2 cd build_avx && DEB_PYTHON_INSTALL_LAYOUT=deb 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_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DEXE_SUFFIX=-avx -DNATIVE_ARCH=0 .. CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- The C compiler identification is GNU 14.2.0 -- The CXX compiler identification is GNU 14.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - 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/c++ - 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 < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- 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 "4.5") -- Found OpenMP_CXX: -fopenmp (found version "4.5") -- Found OpenMP: TRUE (found version "4.5") -- Found OpenMP -- Configuring done (1.6s) -- 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_avx cd build_sse4.1 && DEB_PYTHON_INSTALL_LAYOUT=deb 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_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DEXE_SUFFIX=-sse4.1 -DNATIVE_ARCH=0 .. CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- The C compiler identification is GNU 14.2.0 -- The CXX compiler identification is GNU 14.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - 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/c++ - 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 < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- 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 "4.5") -- Found OpenMP_CXX: -fopenmp (found version "4.5") -- Found OpenMP: TRUE (found version "4.5") -- 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_sse4.1 cd build_ssse3 && DEB_PYTHON_INSTALL_LAYOUT=deb 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_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DEXE_SUFFIX=-ssse3 -DNATIVE_ARCH=0 .. CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- The C compiler identification is GNU 14.2.0 -- The CXX compiler identification is GNU 14.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - 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/c++ - 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 < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- 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 "4.5") -- Found OpenMP_CXX: -fopenmp (found version "4.5") -- Found OpenMP: TRUE (found version "4.5") -- Found OpenMP -- Configuring done (2.3s) -- 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_ssse3 cd build_sse3 && DEB_PYTHON_INSTALL_LAYOUT=deb 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_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DEXE_SUFFIX=-sse3 -DNATIVE_ARCH=0 .. CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- The C compiler identification is GNU 14.2.0 -- The CXX compiler identification is GNU 14.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - 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/c++ - 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 < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- 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 "4.5") -- Found OpenMP_CXX: -fopenmp (found version "4.5") -- Found OpenMP: TRUE (found version "4.5") -- 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_sse3 export CXXFLAGS="-g -O2 -ffile-prefix-map=/<>=. -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 cd build_plain && DEB_PYTHON_INSTALL_LAYOUT=deb 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_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DEXE_SUFFIX=-plain -DNATIVE_ARCH=0 .. CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- The C compiler identification is GNU 14.2.0 -- The CXX compiler identification is GNU 14.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - 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/c++ - 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 < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- 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 "4.5") -- Found OpenMP_CXX: -fopenmp (found version "4.5") -- Found OpenMP: TRUE (found version "4.5") -- 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_plain make[1]: Leaving directory '/<>' debian/rules override_dh_auto_configure-indep make[1]: Entering directory '/<>' dh_auto_configure --builddirectory mybuild -- -DNATIVE_ARCH=0 cd mybuild && DEB_PYTHON_INSTALL_LAYOUT=deb 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_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DNATIVE_ARCH=0 .. CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- The C compiler identification is GNU 14.2.0 -- The CXX compiler identification is GNU 14.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - 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/c++ - 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 < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- 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 "4.5") -- Found OpenMP_CXX: -fopenmp (found version "4.5") -- Found OpenMP: TRUE (found version "4.5") -- Found OpenMP -- Configuring done (2.6s) -- 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: /<>/mybuild make[1]: Leaving directory '/<>' debian/rules override_dh_auto_build-arch make[1]: Entering directory '/<>' 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_avx2' /usr/bin/cmake -S/<> -B/<>/build_avx2 --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /<>/build_avx2/CMakeFiles /<>/build_avx2//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/<>/build_avx2' 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_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_avx2 /<>/build_avx2/lib/ffindex/src /<>/build_avx2/lib/ffindex/src/CMakeFiles/ffindex.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/build_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/data /<>/build_avx2 /<>/build_avx2/data /<>/build_avx2/data/CMakeFiles/generated.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx2' make -f lib/ffindex/src/CMakeFiles/ffindex.dir/build.make lib/ffindex/src/CMakeFiles/ffindex.dir/build make[4]: Entering directory '/<>/build_avx2' make[4]: Leaving directory '/<>/build_avx2' make -f data/CMakeFiles/generated.dir/build.make data/CMakeFiles/generated.dir/build make[4]: Entering directory '/<>/build_avx2' [ 1%] Building C object lib/ffindex/src/CMakeFiles/ffindex.dir/ffindex.c.o cd /<>/build_avx2/lib/ffindex/src && /usr/bin/cc -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex.c [ 2%] Generating ../generated/context_data.crf.h cd /<>/data && mkdir -p /<>/build_avx2/generated cd /<>/data && /<>/cmake/xxdi.pl context_data.crf > /<>/build_avx2/generated/context_data.crf.h [ 3%] Building C object lib/ffindex/src/CMakeFiles/ffindex.dir/ffutil.c.o cd /<>/build_avx2/lib/ffindex/src && /usr/bin/cc -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffutil.c [ 4%] Linking C static library libffindex.a cd /<>/build_avx2/lib/ffindex/src && /usr/bin/cmake -P CMakeFiles/ffindex.dir/cmake_clean_target.cmake cd /<>/build_avx2/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex.dir/link.txt --verbose=1 /usr/bin/ar qc libffindex.a CMakeFiles/ffindex.dir/ffindex.c.o CMakeFiles/ffindex.dir/ffutil.c.o /usr/bin/ranlib libffindex.a make[4]: Leaving directory '/<>/build_avx2' [ 4%] Built target ffindex [ 5%] Generating ../generated/context_data.lib.h cd /<>/data && mkdir -p /<>/build_avx2/generated cd /<>/data && /<>/cmake/xxdi.pl context_data.lib > /<>/build_avx2/generated/context_data.lib.h cd /<>/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /<>/build_avx2/generated/context_data.lib.h > /<>/build_avx2/generated/context_data.lib.h.tmp cd /<>/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /<>/build_avx2/generated/context_data.crf.h > /<>/build_avx2/generated/context_data.crf.h.tmp cd /<>/data && mv -f /<>/build_avx2/generated/context_data.crf.h.tmp /<>/build_avx2/generated/context_data.crf.h cd /<>/data && mv -f /<>/build_avx2/generated/context_data.lib.h.tmp /<>/build_avx2/generated/context_data.lib.h [ 6%] Generating ../generated/cs219.lib.h cd /<>/data && mkdir -p /<>/build_avx2/generated cd /<>/data && /<>/cmake/xxdi.pl cs219.lib > /<>/build_avx2/generated/cs219.lib.h make -f src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/depend make[4]: Entering directory '/<>/build_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx2 /<>/build_avx2/src /<>/build_avx2/src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/DependInfo.cmake "--color=" cd /<>/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /<>/build_avx2/generated/cs219.lib.h > /<>/build_avx2/generated/cs219.lib.h.tmp make[4]: Leaving directory '/<>/build_avx2' make -f src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/build make[4]: Entering directory '/<>/build_avx2' cd /<>/data && mv -f /<>/build_avx2/generated/cs219.lib.h.tmp /<>/build_avx2/generated/cs219.lib.h make[4]: Leaving directory '/<>/build_avx2' [ 7%] Building CXX object src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbialgorithm.cpp [ 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_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx2 /<>/build_avx2/src /<>/build_avx2/src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx2' 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_avx2' [ 8%] Building CXX object src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbialgorithm.cpp [ 9%] Linking CXX static library libhhviterbialgorithm_with_celloff.a cd /<>/build_avx2/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_with_celloff.dir/cmake_clean_target.cmake cd /<>/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_with_celloff.dir/link.txt --verbose=1 /usr/bin/ar qc libhhviterbialgorithm_with_celloff.a CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o /usr/bin/ranlib libhhviterbialgorithm_with_celloff.a make[4]: Leaving directory '/<>/build_avx2' [ 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_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx2 /<>/build_avx2/src /<>/build_avx2/src/CMakeFiles/hhviterbialgorithm_and_ss.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx2' make -f src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build make[4]: Entering directory '/<>/build_avx2' [ 10%] Linking CXX static library libhhviterbialgorithm_with_celloff_and_ss.a [ 11%] Building CXX object src/CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o cd /<>/build_avx2/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/cmake_clean_target.cmake cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbialgorithm.cpp cd /<>/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/link.txt --verbose=1 /usr/bin/ar qc libhhviterbialgorithm_with_celloff_and_ss.a CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o /usr/bin/ranlib libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/<>/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_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src/cs /<>/build_avx2 /<>/build_avx2/src/cs /<>/build_avx2/src/cs/CMakeFiles/CS_OBJECTS.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx2' make -f src/cs/CMakeFiles/CS_OBJECTS.dir/build.make src/cs/CMakeFiles/CS_OBJECTS.dir/build make[4]: Entering directory '/<>/build_avx2' [ 12%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/aa.cc.o cd /<>/build_avx2/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/aa.cc [ 13%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/as.cc.o cd /<>/build_avx2/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/as.cc [ 14%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o cd /<>/build_avx2/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/assert_helpers.cc [ 15%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o cd /<>/build_avx2/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/blosum_matrix.cc [ 16%] Linking CXX static library libhhviterbialgorithm_and_ss.a cd /<>/build_avx2/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_and_ss.dir/cmake_clean_target.cmake cd /<>/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_and_ss.dir/link.txt --verbose=1 /usr/bin/ar qc libhhviterbialgorithm_and_ss.a CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o /usr/bin/ranlib libhhviterbialgorithm_and_ss.a make[4]: Leaving directory '/<>/build_avx2' [ 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_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx2 /<>/build_avx2/src /<>/build_avx2/src/CMakeFiles/A3M_COMPRESS.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx2' make -f src/CMakeFiles/A3M_COMPRESS.dir/build.make src/CMakeFiles/A3M_COMPRESS.dir/build make[4]: Entering directory '/<>/build_avx2' [ 16%] Building CXX object src/CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/a3m_compress.cpp [ 17%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o cd /<>/build_avx2/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/getopt_pp.cc /<>/src/a3m_compress.cpp: In function ‘std::string& rtrim(std::string&)’: /<>/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++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /<>/src/a3m_compress.h:11, from /<>/src/a3m_compress.cpp:8: /usr/include/c++/14/bits/stl_function.h:1123:5: note: declared here 1123 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ [ 18%] Linking CXX static library libA3M_COMPRESS.a cd /<>/build_avx2/src && /usr/bin/cmake -P CMakeFiles/A3M_COMPRESS.dir/cmake_clean_target.cmake cd /<>/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/A3M_COMPRESS.dir/link.txt --verbose=1 /usr/bin/ar qc libA3M_COMPRESS.a CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o /usr/bin/ranlib libA3M_COMPRESS.a make[4]: Leaving directory '/<>/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_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_avx2 /<>/build_avx2/lib/ffindex/src /<>/build_avx2/lib/ffindex/src/CMakeFiles/ffindex_apply.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_avx2' [ 19%] Building C object lib/ffindex/src/CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o cd /<>/build_avx2/lib/ffindex/src && /usr/bin/cc -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_apply_mpi.c /<>/lib/ffindex/src/ffindex_apply_mpi.c: In function ‘ffindex_apply_by_entry’: /<>/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_avx2/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_apply.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o -o ffindex_apply libffindex.a make[4]: Leaving directory '/<>/build_avx2' [ 21%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/log.cc.o cd /<>/build_avx2/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/log.cc [ 21%] Built target ffindex_apply [ 22%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/application.cc.o cd /<>/build_avx2/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/application.cc make -f lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/depend make[4]: Entering directory '/<>/build_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_avx2 /<>/build_avx2/lib/ffindex/src /<>/build_avx2/lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx2' make -f lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/build make[4]: Entering directory '/<>/build_avx2' [ 23%] Building C object lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o cd /<>/build_avx2/lib/ffindex/src && /usr/bin/cc -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_reduce.c [ 24%] Linking C executable ffindex_reduce cd /<>/build_avx2/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_reduce.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o -o ffindex_reduce libffindex.a make[4]: Leaving directory '/<>/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_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_avx2 /<>/build_avx2/lib/ffindex/src /<>/build_avx2/lib/ffindex/src/CMakeFiles/ffindex_build.dir/DependInfo.cmake "--color=" [ 25%] Linking CXX static library libCS_OBJECTS.a cd /<>/build_avx2/src/cs && /usr/bin/cmake -P CMakeFiles/CS_OBJECTS.dir/cmake_clean_target.cmake make[4]: Leaving directory '/<>/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_avx2' cd /<>/build_avx2/src/cs && /usr/bin/cmake -E cmake_link_script CMakeFiles/CS_OBJECTS.dir/link.txt --verbose=1 [ 26%] Building C object lib/ffindex/src/CMakeFiles/ffindex_build.dir/ffindex_build.c.o cd /<>/build_avx2/lib/ffindex/src && /usr/bin/cc -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_build.c /usr/bin/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/ranlib libCS_OBJECTS.a make[4]: Leaving directory '/<>/build_avx2' [ 26%] Built target CS_OBJECTS 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_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_avx2 /<>/build_avx2/lib/ffindex/src /<>/build_avx2/lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_avx2' [ 27%] Building C object lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o cd /<>/build_avx2/lib/ffindex/src && /usr/bin/cc -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_from_fasta.c [ 28%] Linking C executable ffindex_build cd /<>/build_avx2/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_build.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_build.dir/ffindex_build.c.o -o ffindex_build libffindex.a make[4]: Leaving directory '/<>/build_avx2' [ 29%] Linking C executable ffindex_from_fasta cd /<>/build_avx2/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_from_fasta.dir/link.txt --verbose=1 [ 29%] Built target ffindex_build make -f lib/ffindex/src/CMakeFiles/ffindex_get.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_get.dir/depend make[4]: Entering directory '/<>/build_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_avx2 /<>/build_avx2/lib/ffindex/src /<>/build_avx2/lib/ffindex/src/CMakeFiles/ffindex_get.dir/DependInfo.cmake "--color=" /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o -o ffindex_from_fasta libffindex.a make[4]: Leaving directory '/<>/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_avx2' [ 30%] Building C object lib/ffindex/src/CMakeFiles/ffindex_get.dir/ffindex_get.c.o cd /<>/build_avx2/lib/ffindex/src && /usr/bin/cc -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_get.c make[4]: Leaving directory '/<>/build_avx2' [ 30%] Built target ffindex_from_fasta make -f lib/ffindex/src/CMakeFiles/ffindex_modify.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_modify.dir/depend make[4]: Entering directory '/<>/build_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_avx2 /<>/build_avx2/lib/ffindex/src /<>/build_avx2/lib/ffindex/src/CMakeFiles/ffindex_modify.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_avx2' [ 31%] Building C object lib/ffindex/src/CMakeFiles/ffindex_modify.dir/ffindex_modify.c.o cd /<>/build_avx2/lib/ffindex/src && /usr/bin/cc -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_modify.c [ 32%] Linking C executable ffindex_get cd /<>/build_avx2/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_get.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_get.dir/ffindex_get.c.o -o ffindex_get libffindex.a make[4]: Leaving directory '/<>/build_avx2' [ 32%] Built target ffindex_get make -f lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/depend make[4]: Entering directory '/<>/build_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_avx2 /<>/build_avx2/lib/ffindex/src /<>/build_avx2/lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/DependInfo.cmake "--color=" [ 33%] Linking C executable ffindex_modify cd /<>/build_avx2/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_modify.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_modify.dir/ffindex_modify.c.o -o ffindex_modify libffindex.a make[4]: Leaving directory '/<>/build_avx2' make -f lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/build make[4]: Entering directory '/<>/build_avx2' [ 34%] Building C object lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/ffindex_unpack.c.o cd /<>/build_avx2/lib/ffindex/src && /usr/bin/cc -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_unpack.c make[4]: Leaving directory '/<>/build_avx2' [ 34%] Built target ffindex_modify make -f lib/ffindex/src/CMakeFiles/ffindex_order.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_order.dir/depend make[4]: Entering directory '/<>/build_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_avx2 /<>/build_avx2/lib/ffindex/src /<>/build_avx2/lib/ffindex/src/CMakeFiles/ffindex_order.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx2' make -f lib/ffindex/src/CMakeFiles/ffindex_order.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_order.dir/build make[4]: Entering directory '/<>/build_avx2' [ 35%] Linking C executable ffindex_unpack cd /<>/build_avx2/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_unpack.dir/link.txt --verbose=1 [ 36%] Building C object lib/ffindex/src/CMakeFiles/ffindex_order.dir/ffindex_order.c.o cd /<>/build_avx2/lib/ffindex/src && /usr/bin/cc -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_order.c /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_unpack.dir/ffindex_unpack.c.o -o ffindex_unpack libffindex.a make[4]: Leaving directory '/<>/build_avx2' [ 36%] Built target ffindex_unpack 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_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_avx2 /<>/build_avx2/lib/ffindex/src /<>/build_avx2/lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx2' 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_avx2' [ 37%] Building C object lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/ffindex_from_fasta_with_split.c.o cd /<>/build_avx2/lib/ffindex/src && /usr/bin/cc -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_from_fasta_with_split.c [ 38%] Linking C executable ffindex_order cd /<>/build_avx2/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_order.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_order.dir/ffindex_order.c.o -o ffindex_order libffindex.a make[4]: Leaving directory '/<>/build_avx2' [ 38%] Built target ffindex_order make -f src/CMakeFiles/HH_OBJECTS.dir/build.make src/CMakeFiles/HH_OBJECTS.dir/depend make[4]: Entering directory '/<>/build_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx2 /<>/build_avx2/src /<>/build_avx2/src/CMakeFiles/HH_OBJECTS.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx2' make -f src/CMakeFiles/HH_OBJECTS.dir/build.make src/CMakeFiles/HH_OBJECTS.dir/build make[4]: Entering directory '/<>/build_avx2' [ 39%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhblits.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o -c /<>/src/hhblits.cpp [ 40%] Linking C executable ffindex_from_fasta_with_split cd /<>/build_avx2/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_from_fasta_with_split.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic 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_avx2' [ 40%] Built target ffindex_from_fasta_with_split [ 41%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhdecl.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhdecl.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhdecl.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhdecl.cpp.o -c /<>/src/hhdecl.cpp make -f src/CMakeFiles/a3m_extract-avx2.dir/build.make src/CMakeFiles/a3m_extract-avx2.dir/depend make[4]: Entering directory '/<>/build_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx2 /<>/build_avx2/src /<>/build_avx2/src/CMakeFiles/a3m_extract-avx2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx2' make -f src/CMakeFiles/a3m_extract-avx2.dir/build.make src/CMakeFiles/a3m_extract-avx2.dir/build make[4]: Entering directory '/<>/build_avx2' [ 42%] Building CXX object src/CMakeFiles/a3m_extract-avx2.dir/a3m_extract.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/a3m_extract.cpp [ 43%] Linking CXX executable a3m_extract-avx2 cd /<>/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_extract-avx2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_avx2' [ 43%] 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_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx2 /<>/build_avx2/src /<>/build_avx2/src/CMakeFiles/a3m_reduce-avx2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx2' make -f src/CMakeFiles/a3m_reduce-avx2.dir/build.make src/CMakeFiles/a3m_reduce-avx2.dir/build make[4]: Entering directory '/<>/build_avx2' [ 44%] Building CXX object src/CMakeFiles/a3m_reduce-avx2.dir/a3m_reduce.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/a3m_reduce.cpp [ 45%] Linking CXX executable a3m_reduce-avx2 cd /<>/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_reduce-avx2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_avx2' [ 45%] 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_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx2 /<>/build_avx2/src /<>/build_avx2/src/CMakeFiles/a3m_database_reduce-avx2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_avx2' [ 46%] Building CXX object src/CMakeFiles/a3m_database_reduce-avx2.dir/a3m_database_reduce.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/a3m_database_reduce.cpp [ 47%] Linking CXX executable a3m_database_reduce-avx2 cd /<>/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_reduce-avx2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_avx2' [ 47%] 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_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx2 /<>/build_avx2/src /<>/build_avx2/src/CMakeFiles/a3m_database_extract-avx2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_avx2' [ 48%] Building CXX object src/CMakeFiles/a3m_database_extract-avx2.dir/a3m_database_extract.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/a3m_database_extract.cpp [ 49%] Linking CXX executable a3m_database_extract-avx2 cd /<>/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_extract-avx2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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 '/<>/build_avx2' [ 49%] Built target a3m_database_extract-avx2 make -f src/CMakeFiles/a3m_database_filter-avx2.dir/build.make src/CMakeFiles/a3m_database_filter-avx2.dir/depend make[4]: Entering directory '/<>/build_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx2 /<>/build_avx2/src /<>/build_avx2/src/CMakeFiles/a3m_database_filter-avx2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx2' make -f src/CMakeFiles/a3m_database_filter-avx2.dir/build.make src/CMakeFiles/a3m_database_filter-avx2.dir/build make[4]: Entering directory '/<>/build_avx2' [ 50%] Building CXX object src/CMakeFiles/a3m_database_filter-avx2.dir/a3m_database_filter.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/a3m_database_filter.cpp [ 51%] Linking CXX executable a3m_database_filter-avx2 cd /<>/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_filter-avx2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_avx2' [ 51%] Built target a3m_database_filter-avx2 [ 52%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhhit.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o -c /<>/src/hhhit.cpp [ 53%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhmatrices.cpp [ 54%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhsearch.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o -c /<>/src/hhsearch.cpp [ 55%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhalign.cpp [ 56%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhhitlist.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o -c /<>/src/hhhitlist.cpp [ 57%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhposteriordecoder.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o -c /<>/src/hhposteriordecoder.cpp [ 58%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhutil.cpp [ 59%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/util.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/util.cpp [ 60%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhalignment.cpp [ 61%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhforwardalgorithm.cpp [ 62%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhhmm.cpp /<>/src/hhalignment.cpp: In member function ‘int Alignment::Filter2(char*, int, int, float, int, int, int, const float (*)[20])’: /<>/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:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /<>/src/hhalignment.h:6, from /<>/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 /<>/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_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhposteriordecoderrunner.cpp [ 64%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbialgorithm.cpp [ 65%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhfullalignment.cpp [ 66%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhhmmsimd.cpp [ 67%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhposteriormatrix.cpp [ 68%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbi.cpp [ 69%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhbacktracemac.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o -c /<>/src/hhbacktracemac.cpp [ 70%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhmacalgorithm.cpp [ 71%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhprefilter.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhprefilter.cpp [ 72%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbimatrix.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbimatrix.cpp [ 73%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhbackwardalgorithm.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhbackwardalgorithm.cpp [ 74%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/ffindexdatabase.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/ffindexdatabase.cpp [ 75%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhdatabase.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhdatabase.cpp [ 76%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhhalfalignment.cpp [ 77%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbirunner.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 CMakeFiles/HH_OBJECTS.dir/hhviterbirunner.cpp.o -c /<>/src/hhviterbirunner.cpp [ 78%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhfunc.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o -c /<>/src/hhfunc.cpp [ 79%] Linking CXX static library libHH_OBJECTS.a cd /<>/build_avx2/src && /usr/bin/cmake -P CMakeFiles/HH_OBJECTS.dir/cmake_clean_target.cmake cd /<>/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/HH_OBJECTS.dir/link.txt --verbose=1 /usr/bin/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/ranlib libHH_OBJECTS.a make[4]: Leaving directory '/<>/build_avx2' [ 79%] Built target HH_OBJECTS make -f src/CMakeFiles/hhblits-avx2.dir/build.make src/CMakeFiles/hhblits-avx2.dir/depend make -f src/CMakeFiles/hhmake-avx2.dir/build.make src/CMakeFiles/hhmake-avx2.dir/depend make[4]: Entering directory '/<>/build_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx2 /<>/build_avx2/src /<>/build_avx2/src/CMakeFiles/hhmake-avx2.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/build_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx2 /<>/build_avx2/src /<>/build_avx2/src/CMakeFiles/hhblits-avx2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx2' make -f src/CMakeFiles/hhmake-avx2.dir/build.make src/CMakeFiles/hhmake-avx2.dir/build make[4]: Entering directory '/<>/build_avx2' make[4]: Leaving directory '/<>/build_avx2' make -f src/CMakeFiles/hhblits-avx2.dir/build.make src/CMakeFiles/hhblits-avx2.dir/build make[4]: Entering directory '/<>/build_avx2' [ 80%] Building CXX object src/CMakeFiles/hhblits-avx2.dir/hhblits_app.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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-avx2.dir/hhblits_app.cpp.o -MF CMakeFiles/hhblits-avx2.dir/hhblits_app.cpp.o.d -o CMakeFiles/hhblits-avx2.dir/hhblits_app.cpp.o -c /<>/src/hhblits_app.cpp [ 81%] Building CXX object src/CMakeFiles/hhmake-avx2.dir/hhmake.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhmake-avx2.dir/hhmake.cpp.o -MF CMakeFiles/hhmake-avx2.dir/hhmake.cpp.o.d -o CMakeFiles/hhmake-avx2.dir/hhmake.cpp.o -c /<>/src/hhmake.cpp [ 82%] Linking CXX executable hhblits-avx2 cd /<>/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhblits-avx2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "CMakeFiles/hhblits-avx2.dir/hhblits_app.cpp.o" -o hhblits-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_avx2' [ 82%] Built target hhblits-avx2 make -f src/CMakeFiles/hhfilter-avx2.dir/build.make src/CMakeFiles/hhfilter-avx2.dir/depend make[4]: Entering directory '/<>/build_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx2 /<>/build_avx2/src /<>/build_avx2/src/CMakeFiles/hhfilter-avx2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx2' make -f src/CMakeFiles/hhfilter-avx2.dir/build.make src/CMakeFiles/hhfilter-avx2.dir/build make[4]: Entering directory '/<>/build_avx2' [ 83%] Building CXX object src/CMakeFiles/hhfilter-avx2.dir/hhfilter.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhfilter-avx2.dir/hhfilter.cpp.o -MF CMakeFiles/hhfilter-avx2.dir/hhfilter.cpp.o.d -o CMakeFiles/hhfilter-avx2.dir/hhfilter.cpp.o -c /<>/src/hhfilter.cpp [ 84%] Linking CXX executable hhmake-avx2 cd /<>/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhmake-avx2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "CMakeFiles/hhmake-avx2.dir/hhmake.cpp.o" -o hhmake-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_avx2' [ 84%] Built target hhmake-avx2 make -f src/CMakeFiles/hhsearch-avx2.dir/build.make src/CMakeFiles/hhsearch-avx2.dir/depend make[4]: Entering directory '/<>/build_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx2 /<>/build_avx2/src /<>/build_avx2/src/CMakeFiles/hhsearch-avx2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx2' make -f src/CMakeFiles/hhsearch-avx2.dir/build.make src/CMakeFiles/hhsearch-avx2.dir/build make[4]: Entering directory '/<>/build_avx2' [ 85%] Building CXX object src/CMakeFiles/hhsearch-avx2.dir/hhblits_app.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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-avx2.dir/hhblits_app.cpp.o -MF CMakeFiles/hhsearch-avx2.dir/hhblits_app.cpp.o.d -o CMakeFiles/hhsearch-avx2.dir/hhblits_app.cpp.o -c /<>/src/hhblits_app.cpp [ 86%] Linking CXX executable hhsearch-avx2 cd /<>/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhsearch-avx2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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 [ 87%] Linking CXX executable hhfilter-avx2 cd /<>/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhfilter-avx2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "CMakeFiles/hhfilter-avx2.dir/hhfilter.cpp.o" -o hhfilter-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_avx2' make[4]: Leaving directory '/<>/build_avx2' [ 87%] Built target hhsearch-avx2 make -f src/CMakeFiles/hhalign-avx2.dir/build.make src/CMakeFiles/hhalign-avx2.dir/depend make[4]: Entering directory '/<>/build_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx2 /<>/build_avx2/src /<>/build_avx2/src/CMakeFiles/hhalign-avx2.dir/DependInfo.cmake "--color=" [ 87%] Built target hhfilter-avx2 make -f src/CMakeFiles/hhconsensus-avx2.dir/build.make src/CMakeFiles/hhconsensus-avx2.dir/depend make[4]: Entering directory '/<>/build_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx2 /<>/build_avx2/src /<>/build_avx2/src/CMakeFiles/hhconsensus-avx2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx2' make -f src/CMakeFiles/hhalign-avx2.dir/build.make src/CMakeFiles/hhalign-avx2.dir/build make[4]: Entering directory '/<>/build_avx2' make[4]: Leaving directory '/<>/build_avx2' make -f src/CMakeFiles/hhconsensus-avx2.dir/build.make src/CMakeFiles/hhconsensus-avx2.dir/build make[4]: Entering directory '/<>/build_avx2' [ 88%] Building CXX object src/CMakeFiles/hhconsensus-avx2.dir/hhconsensus.cpp.o [ 89%] Building CXX object src/CMakeFiles/hhalign-avx2.dir/hhblits_app.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhconsensus.cpp cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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-avx2.dir/hhblits_app.cpp.o -MF CMakeFiles/hhalign-avx2.dir/hhblits_app.cpp.o.d -o CMakeFiles/hhalign-avx2.dir/hhblits_app.cpp.o -c /<>/src/hhblits_app.cpp [ 90%] Linking CXX executable hhalign-avx2 cd /<>/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhalign-avx2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_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_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx2 /<>/build_avx2/src /<>/build_avx2/src/CMakeFiles/cstranslate-avx2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx2' make -f src/CMakeFiles/cstranslate-avx2.dir/build.make src/CMakeFiles/cstranslate-avx2.dir/build make[4]: Entering directory '/<>/build_avx2' [ 91%] Building CXX object src/CMakeFiles/cstranslate-avx2.dir/cs/cstranslate_app.cc.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/cstranslate_app.cc [ 92%] Linking CXX executable hhconsensus-avx2 cd /<>/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhconsensus-avx2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_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_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx2 /<>/build_avx2/src /<>/build_avx2/src/CMakeFiles/hhblits_omp-avx2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx2' make -f src/CMakeFiles/hhblits_omp-avx2.dir/build.make src/CMakeFiles/hhblits_omp-avx2.dir/build make[4]: Entering directory '/<>/build_avx2' [ 93%] Building CXX object src/CMakeFiles/hhblits_omp-avx2.dir/hhblits_omp.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhblits_omp.cpp /<>/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /<>/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:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /<>/src/hhblits.h:11, from /<>/src/hhsearch.h:34, from /<>/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /<>/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /<>/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:54:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 94%] Linking CXX executable hhblits_omp-avx2 cd /<>/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhblits_omp-avx2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_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_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx2 /<>/build_avx2/src /<>/build_avx2/src/CMakeFiles/hhsearch_omp-avx2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx2' make -f src/CMakeFiles/hhsearch_omp-avx2.dir/build.make src/CMakeFiles/hhsearch_omp-avx2.dir/build make[4]: Entering directory '/<>/build_avx2' [ 95%] Building CXX object src/CMakeFiles/hhsearch_omp-avx2.dir/hhblits_omp.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhblits_omp.cpp /<>/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /<>/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:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /<>/src/hhblits.h:11, from /<>/src/hhsearch.h:34, from /<>/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /<>/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /<>/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:54:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 96%] Linking CXX executable hhsearch_omp-avx2 cd /<>/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhsearch_omp-avx2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_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_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx2 /<>/build_avx2/src /<>/build_avx2/src/CMakeFiles/hhalign_omp-avx2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx2' make -f src/CMakeFiles/hhalign_omp-avx2.dir/build.make src/CMakeFiles/hhalign_omp-avx2.dir/build make[4]: Entering directory '/<>/build_avx2' [ 97%] Building CXX object src/CMakeFiles/hhalign_omp-avx2.dir/hhblits_omp.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhblits_omp.cpp /<>/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /<>/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:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /<>/src/hhblits.h:11, from /<>/src/hhsearch.h:34, from /<>/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /<>/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /<>/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:54:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 98%] Linking CXX executable hhalign_omp-avx2 cd /<>/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhalign_omp-avx2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_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_avx2' cd /<>/build_avx2 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx2 /<>/build_avx2/src /<>/build_avx2/src/CMakeFiles/hhblits_ca3m-avx2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx2' make -f src/CMakeFiles/hhblits_ca3m-avx2.dir/build.make src/CMakeFiles/hhblits_ca3m-avx2.dir/build make[4]: Entering directory '/<>/build_avx2' [ 99%] Building CXX object src/CMakeFiles/hhblits_ca3m-avx2.dir/hhblits_ca3m.cpp.o cd /<>/build_avx2/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx2/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx2/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhblits_ca3m.cpp /<>/src/hhblits_ca3m.cpp: In function ‘int main(int, const char**)’: /<>/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:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /<>/src/hhblits.h:11, from /<>/src/hhblits_ca3m.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /<>/src/hhblits_ca3m.cpp:24:15, inlined from ‘int main(int, const char**)’ at /<>/src/hhblits_ca3m.cpp:358:29: /usr/include/x86_64-linux-gnu/bits/stdio2.h:54:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [100%] Linking CXX executable hhblits_ca3m-avx2 cd /<>/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhblits_ca3m-avx2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_avx2' [100%] Built target hhblits_ca3m-avx2 [100%] Linking CXX executable cstranslate-avx2 cd /<>/build_avx2/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/cstranslate-avx2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_avx2' [100%] Built target cstranslate-avx2 make[3]: Leaving directory '/<>/build_avx2' /usr/bin/cmake -E cmake_progress_start /<>/build_avx2/CMakeFiles 0 make[2]: Leaving directory '/<>/build_avx2' cd build_avx && make -j2 "INSTALL=install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/<>/build_avx' /usr/bin/cmake -S/<> -B/<>/build_avx --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /<>/build_avx/CMakeFiles /<>/build_avx//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/<>/build_avx' make -f lib/ffindex/src/CMakeFiles/ffindex.dir/build.make lib/ffindex/src/CMakeFiles/ffindex.dir/depend make[4]: Entering directory '/<>/build_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_avx /<>/build_avx/lib/ffindex/src /<>/build_avx/lib/ffindex/src/CMakeFiles/ffindex.dir/DependInfo.cmake "--color=" make -f data/CMakeFiles/generated.dir/build.make data/CMakeFiles/generated.dir/depend make[4]: Entering directory '/<>/build_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/data /<>/build_avx /<>/build_avx/data /<>/build_avx/data/CMakeFiles/generated.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx' make -f lib/ffindex/src/CMakeFiles/ffindex.dir/build.make lib/ffindex/src/CMakeFiles/ffindex.dir/build make[4]: Leaving directory '/<>/build_avx' make -f data/CMakeFiles/generated.dir/build.make data/CMakeFiles/generated.dir/build make[4]: Entering directory '/<>/build_avx' make[4]: Entering directory '/<>/build_avx' [ 1%] Building C object lib/ffindex/src/CMakeFiles/ffindex.dir/ffindex.c.o cd /<>/build_avx/lib/ffindex/src && /usr/bin/cc -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex.c [ 2%] Generating ../generated/context_data.crf.h cd /<>/data && mkdir -p /<>/build_avx/generated cd /<>/data && /<>/cmake/xxdi.pl context_data.crf > /<>/build_avx/generated/context_data.crf.h [ 3%] Building C object lib/ffindex/src/CMakeFiles/ffindex.dir/ffutil.c.o cd /<>/build_avx/lib/ffindex/src && /usr/bin/cc -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffutil.c [ 4%] Linking C static library libffindex.a cd /<>/build_avx/lib/ffindex/src && /usr/bin/cmake -P CMakeFiles/ffindex.dir/cmake_clean_target.cmake cd /<>/build_avx/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex.dir/link.txt --verbose=1 /usr/bin/ar qc libffindex.a CMakeFiles/ffindex.dir/ffindex.c.o CMakeFiles/ffindex.dir/ffutil.c.o /usr/bin/ranlib libffindex.a make[4]: Leaving directory '/<>/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_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx /<>/build_avx/src /<>/build_avx/src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx' make -f src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/build make[4]: Entering directory '/<>/build_avx' [ 5%] Building CXX object src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbialgorithm.cpp cd /<>/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /<>/build_avx/generated/context_data.crf.h > /<>/build_avx/generated/context_data.crf.h.tmp [ 6%] Linking CXX static library libhhviterbialgorithm_with_celloff.a cd /<>/build_avx/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_with_celloff.dir/cmake_clean_target.cmake cd /<>/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_with_celloff.dir/link.txt --verbose=1 /usr/bin/ar qc libhhviterbialgorithm_with_celloff.a CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o /usr/bin/ranlib libhhviterbialgorithm_with_celloff.a make[4]: Leaving directory '/<>/build_avx' [ 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_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx /<>/build_avx/src /<>/build_avx/src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_avx' [ 7%] Building CXX object src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbialgorithm.cpp cd /<>/data && mv -f /<>/build_avx/generated/context_data.crf.h.tmp /<>/build_avx/generated/context_data.crf.h [ 8%] Generating ../generated/context_data.lib.h cd /<>/data && mkdir -p /<>/build_avx/generated cd /<>/data && /<>/cmake/xxdi.pl context_data.lib > /<>/build_avx/generated/context_data.lib.h [ 9%] Linking CXX static library libhhviterbialgorithm_with_celloff_and_ss.a cd /<>/build_avx/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/cmake_clean_target.cmake cd /<>/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/link.txt --verbose=1 /usr/bin/ar qc libhhviterbialgorithm_with_celloff_and_ss.a CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o /usr/bin/ranlib libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/<>/build_avx' [ 9%] Built target hhviterbialgorithm_with_celloff_and_ss [ 10%] Generating ../generated/cs219.lib.h cd /<>/data && mkdir -p /<>/build_avx/generated cd /<>/data && /<>/cmake/xxdi.pl cs219.lib > /<>/build_avx/generated/cs219.lib.h cd /<>/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /<>/build_avx/generated/cs219.lib.h > /<>/build_avx/generated/cs219.lib.h.tmp cd /<>/data && mv -f /<>/build_avx/generated/cs219.lib.h.tmp /<>/build_avx/generated/cs219.lib.h make -f src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_and_ss.dir/depend make[4]: Entering directory '/<>/build_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx /<>/build_avx/src /<>/build_avx/src/CMakeFiles/hhviterbialgorithm_and_ss.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx' make -f src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build make[4]: Entering directory '/<>/build_avx' cd /<>/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /<>/build_avx/generated/context_data.lib.h > /<>/build_avx/generated/context_data.lib.h.tmp [ 11%] Building CXX object src/CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbialgorithm.cpp cd /<>/data && mv -f /<>/build_avx/generated/context_data.lib.h.tmp /<>/build_avx/generated/context_data.lib.h make[4]: Leaving directory '/<>/build_avx' [ 11%] Built target generated make -f src/cs/CMakeFiles/CS_OBJECTS.dir/build.make src/cs/CMakeFiles/CS_OBJECTS.dir/depend make[4]: Entering directory '/<>/build_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src/cs /<>/build_avx /<>/build_avx/src/cs /<>/build_avx/src/cs/CMakeFiles/CS_OBJECTS.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx' make -f src/cs/CMakeFiles/CS_OBJECTS.dir/build.make src/cs/CMakeFiles/CS_OBJECTS.dir/build make[4]: Entering directory '/<>/build_avx' [ 12%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/aa.cc.o cd /<>/build_avx/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/aa.cc [ 13%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/as.cc.o cd /<>/build_avx/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/as.cc [ 14%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o cd /<>/build_avx/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/assert_helpers.cc [ 15%] Linking CXX static library libhhviterbialgorithm_and_ss.a cd /<>/build_avx/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_and_ss.dir/cmake_clean_target.cmake cd /<>/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_and_ss.dir/link.txt --verbose=1 /usr/bin/ar qc libhhviterbialgorithm_and_ss.a CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o /usr/bin/ranlib libhhviterbialgorithm_and_ss.a make[4]: Leaving directory '/<>/build_avx' [ 15%] Built target hhviterbialgorithm_and_ss [ 16%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o cd /<>/build_avx/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/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_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx /<>/build_avx/src /<>/build_avx/src/CMakeFiles/A3M_COMPRESS.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx' make -f src/CMakeFiles/A3M_COMPRESS.dir/build.make src/CMakeFiles/A3M_COMPRESS.dir/build make[4]: Entering directory '/<>/build_avx' [ 16%] Building CXX object src/CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/a3m_compress.cpp /<>/src/a3m_compress.cpp: In function ‘std::string& rtrim(std::string&)’: /<>/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++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /<>/src/a3m_compress.h:11, from /<>/src/a3m_compress.cpp:8: /usr/include/c++/14/bits/stl_function.h:1123:5: note: declared here 1123 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ [ 17%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o cd /<>/build_avx/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/getopt_pp.cc [ 18%] Linking CXX static library libA3M_COMPRESS.a cd /<>/build_avx/src && /usr/bin/cmake -P CMakeFiles/A3M_COMPRESS.dir/cmake_clean_target.cmake cd /<>/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/A3M_COMPRESS.dir/link.txt --verbose=1 /usr/bin/ar qc libA3M_COMPRESS.a CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o /usr/bin/ranlib libA3M_COMPRESS.a make[4]: Leaving directory '/<>/build_avx' [ 18%] Built target A3M_COMPRESS [ 19%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/log.cc.o cd /<>/build_avx/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/log.cc [ 20%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/application.cc.o cd /<>/build_avx/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/application.cc make -f lib/ffindex/src/CMakeFiles/ffindex_apply.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_apply.dir/depend make[4]: Entering directory '/<>/build_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_avx /<>/build_avx/lib/ffindex/src /<>/build_avx/lib/ffindex/src/CMakeFiles/ffindex_apply.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_avx' [ 21%] Building C object lib/ffindex/src/CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o cd /<>/build_avx/lib/ffindex/src && /usr/bin/cc -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_apply_mpi.c /<>/lib/ffindex/src/ffindex_apply_mpi.c: In function ‘ffindex_apply_by_entry’: /<>/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 [ 22%] Linking C executable ffindex_apply cd /<>/build_avx/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_apply.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o -o ffindex_apply libffindex.a make[4]: Leaving directory '/<>/build_avx' [ 22%] 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_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_avx /<>/build_avx/lib/ffindex/src /<>/build_avx/lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_avx' [ 23%] Building C object lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o cd /<>/build_avx/lib/ffindex/src && /usr/bin/cc -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_reduce.c [ 24%] Linking C executable ffindex_reduce cd /<>/build_avx/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_reduce.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o -o ffindex_reduce libffindex.a make[4]: Leaving directory '/<>/build_avx' [ 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_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_avx /<>/build_avx/lib/ffindex/src /<>/build_avx/lib/ffindex/src/CMakeFiles/ffindex_build.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_avx' [ 25%] Building C object lib/ffindex/src/CMakeFiles/ffindex_build.dir/ffindex_build.c.o cd /<>/build_avx/lib/ffindex/src && /usr/bin/cc -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_build.c [ 26%] Linking C executable ffindex_build cd /<>/build_avx/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_build.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_build.dir/ffindex_build.c.o -o ffindex_build libffindex.a make[4]: Leaving directory '/<>/build_avx' [ 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_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_avx /<>/build_avx/lib/ffindex/src /<>/build_avx/lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx' 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_avx' [ 27%] Building C object lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o cd /<>/build_avx/lib/ffindex/src && /usr/bin/cc -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_from_fasta.c [ 28%] Linking CXX static library libCS_OBJECTS.a cd /<>/build_avx/src/cs && /usr/bin/cmake -P CMakeFiles/CS_OBJECTS.dir/cmake_clean_target.cmake cd /<>/build_avx/src/cs && /usr/bin/cmake -E cmake_link_script CMakeFiles/CS_OBJECTS.dir/link.txt --verbose=1 /usr/bin/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 [ 29%] Linking C executable ffindex_from_fasta cd /<>/build_avx/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_from_fasta.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o -o ffindex_from_fasta libffindex.a /usr/bin/ranlib libCS_OBJECTS.a make[4]: Leaving directory '/<>/build_avx' make[4]: Leaving directory '/<>/build_avx' [ 29%] Built target CS_OBJECTS make -f lib/ffindex/src/CMakeFiles/ffindex_get.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_get.dir/depend make[4]: Entering directory '/<>/build_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_avx /<>/build_avx/lib/ffindex/src /<>/build_avx/lib/ffindex/src/CMakeFiles/ffindex_get.dir/DependInfo.cmake "--color=" [ 29%] Built target ffindex_from_fasta make -f lib/ffindex/src/CMakeFiles/ffindex_modify.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_modify.dir/depend make[4]: Entering directory '/<>/build_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_avx /<>/build_avx/lib/ffindex/src /<>/build_avx/lib/ffindex/src/CMakeFiles/ffindex_modify.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx' make -f lib/ffindex/src/CMakeFiles/ffindex_get.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_get.dir/build make[4]: Entering directory '/<>/build_avx' [ 30%] Building C object lib/ffindex/src/CMakeFiles/ffindex_get.dir/ffindex_get.c.o cd /<>/build_avx/lib/ffindex/src && /usr/bin/cc -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_get.c make[4]: Leaving directory '/<>/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_avx' [ 31%] Building C object lib/ffindex/src/CMakeFiles/ffindex_modify.dir/ffindex_modify.c.o cd /<>/build_avx/lib/ffindex/src && /usr/bin/cc -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_modify.c [ 32%] Linking C executable ffindex_get cd /<>/build_avx/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_get.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_get.dir/ffindex_get.c.o -o ffindex_get libffindex.a make[4]: Leaving directory '/<>/build_avx' [ 32%] Built target ffindex_get make -f lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/depend make[4]: Entering directory '/<>/build_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_avx /<>/build_avx/lib/ffindex/src /<>/build_avx/lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx' make -f lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/build make[4]: Entering directory '/<>/build_avx' [ 33%] Building C object lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/ffindex_unpack.c.o cd /<>/build_avx/lib/ffindex/src && /usr/bin/cc -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_unpack.c [ 34%] Linking C executable ffindex_modify cd /<>/build_avx/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_modify.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_modify.dir/ffindex_modify.c.o -o ffindex_modify libffindex.a [ 35%] Linking C executable ffindex_unpack cd /<>/build_avx/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_unpack.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_unpack.dir/ffindex_unpack.c.o -o ffindex_unpack libffindex.a make[4]: Leaving directory '/<>/build_avx' [ 35%] Built target ffindex_modify make -f lib/ffindex/src/CMakeFiles/ffindex_order.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_order.dir/depend make[4]: Entering directory '/<>/build_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_avx /<>/build_avx/lib/ffindex/src /<>/build_avx/lib/ffindex/src/CMakeFiles/ffindex_order.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx' make[4]: Leaving directory '/<>/build_avx' make -f lib/ffindex/src/CMakeFiles/ffindex_order.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_order.dir/build make[4]: Entering directory '/<>/build_avx' [ 35%] Built target ffindex_unpack 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_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_avx /<>/build_avx/lib/ffindex/src /<>/build_avx/lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/DependInfo.cmake "--color=" [ 36%] Building C object lib/ffindex/src/CMakeFiles/ffindex_order.dir/ffindex_order.c.o cd /<>/build_avx/lib/ffindex/src && /usr/bin/cc -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_order.c make[4]: Leaving directory '/<>/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_avx' [ 37%] Building C object lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/ffindex_from_fasta_with_split.c.o cd /<>/build_avx/lib/ffindex/src && /usr/bin/cc -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_from_fasta_with_split.c [ 38%] Linking C executable ffindex_order cd /<>/build_avx/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_order.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_order.dir/ffindex_order.c.o -o ffindex_order libffindex.a make[4]: Leaving directory '/<>/build_avx' [ 38%] Built target ffindex_order make -f src/CMakeFiles/HH_OBJECTS.dir/build.make src/CMakeFiles/HH_OBJECTS.dir/depend make[4]: Entering directory '/<>/build_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx /<>/build_avx/src /<>/build_avx/src/CMakeFiles/HH_OBJECTS.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx' make -f src/CMakeFiles/HH_OBJECTS.dir/build.make src/CMakeFiles/HH_OBJECTS.dir/build make[4]: Entering directory '/<>/build_avx' [ 39%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhblits.cpp [ 40%] Linking C executable ffindex_from_fasta_with_split cd /<>/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/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic 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_avx' [ 40%] Built target ffindex_from_fasta_with_split make -f src/CMakeFiles/a3m_extract-avx.dir/build.make src/CMakeFiles/a3m_extract-avx.dir/depend make[4]: Entering directory '/<>/build_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx /<>/build_avx/src /<>/build_avx/src/CMakeFiles/a3m_extract-avx.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx' make -f src/CMakeFiles/a3m_extract-avx.dir/build.make src/CMakeFiles/a3m_extract-avx.dir/build make[4]: Entering directory '/<>/build_avx' [ 41%] Building CXX object src/CMakeFiles/a3m_extract-avx.dir/a3m_extract.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/a3m_extract.cpp [ 42%] Linking CXX executable a3m_extract-avx cd /<>/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_extract-avx.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_avx' [ 42%] Built target a3m_extract-avx make -f src/CMakeFiles/a3m_reduce-avx.dir/build.make src/CMakeFiles/a3m_reduce-avx.dir/depend make[4]: Entering directory '/<>/build_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx /<>/build_avx/src /<>/build_avx/src/CMakeFiles/a3m_reduce-avx.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx' make -f src/CMakeFiles/a3m_reduce-avx.dir/build.make src/CMakeFiles/a3m_reduce-avx.dir/build make[4]: Entering directory '/<>/build_avx' [ 43%] Building CXX object src/CMakeFiles/a3m_reduce-avx.dir/a3m_reduce.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/a3m_reduce.cpp [ 44%] Linking CXX executable a3m_reduce-avx cd /<>/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_reduce-avx.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_avx' [ 44%] Built target a3m_reduce-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_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx /<>/build_avx/src /<>/build_avx/src/CMakeFiles/a3m_database_reduce-avx.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_avx' [ 45%] Building CXX object src/CMakeFiles/a3m_database_reduce-avx.dir/a3m_database_reduce.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/a3m_database_reduce.cpp [ 46%] Linking CXX executable a3m_database_reduce-avx cd /<>/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_reduce-avx.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_avx' [ 46%] Built target a3m_database_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_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx /<>/build_avx/src /<>/build_avx/src/CMakeFiles/a3m_database_extract-avx.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_avx' [ 47%] Building CXX object src/CMakeFiles/a3m_database_extract-avx.dir/a3m_database_extract.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/a3m_database_extract.cpp [ 48%] Linking CXX executable a3m_database_extract-avx cd /<>/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_extract-avx.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_avx' [ 48%] Built target a3m_database_extract-avx make -f src/CMakeFiles/a3m_database_filter-avx.dir/build.make src/CMakeFiles/a3m_database_filter-avx.dir/depend make[4]: Entering directory '/<>/build_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx /<>/build_avx/src /<>/build_avx/src/CMakeFiles/a3m_database_filter-avx.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx' make -f src/CMakeFiles/a3m_database_filter-avx.dir/build.make src/CMakeFiles/a3m_database_filter-avx.dir/build make[4]: Entering directory '/<>/build_avx' [ 49%] Building CXX object src/CMakeFiles/a3m_database_filter-avx.dir/a3m_database_filter.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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_filter-avx.dir/a3m_database_filter.cpp.o -MF CMakeFiles/a3m_database_filter-avx.dir/a3m_database_filter.cpp.o.d -o CMakeFiles/a3m_database_filter-avx.dir/a3m_database_filter.cpp.o -c /<>/src/a3m_database_filter.cpp [ 50%] Linking CXX executable a3m_database_filter-avx cd /<>/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_filter-avx.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_avx' [ 50%] Built target a3m_database_filter-avx [ 51%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhdecl.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhdecl.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhdecl.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhdecl.cpp.o -c /<>/src/hhdecl.cpp [ 52%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhhit.cpp [ 53%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o -c /<>/src/hhmatrices.cpp [ 54%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhsearch.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o -c /<>/src/hhsearch.cpp [ 55%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhalign.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o -c /<>/src/hhalign.cpp [ 56%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhhitlist.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o -c /<>/src/hhhitlist.cpp [ 57%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhposteriordecoder.cpp [ 58%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhutil.cpp [ 59%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/util.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/util.cpp [ 60%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhalignment.cpp [ 61%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhforwardalgorithm.cpp [ 62%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhhmm.cpp /<>/src/hhalignment.cpp: In member function ‘int Alignment::Filter2(char*, int, int, float, int, int, int, const float (*)[20])’: /<>/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:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /<>/src/hhalignment.h:6, from /<>/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 /<>/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_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhposteriordecoderrunner.cpp [ 64%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbialgorithm.cpp [ 65%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhfullalignment.cpp [ 66%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhhmmsimd.cpp [ 67%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhposteriormatrix.cpp [ 68%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbi.cpp [ 69%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhbacktracemac.cpp [ 70%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhmacalgorithm.cpp [ 71%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhprefilter.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhprefilter.cpp [ 72%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbimatrix.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhviterbimatrix.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhviterbimatrix.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhviterbimatrix.cpp.o -c /<>/src/hhviterbimatrix.cpp [ 73%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhbackwardalgorithm.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhbackwardalgorithm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhbackwardalgorithm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhbackwardalgorithm.cpp.o -c /<>/src/hhbackwardalgorithm.cpp [ 74%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/ffindexdatabase.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/ffindexdatabase.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/ffindexdatabase.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/ffindexdatabase.cpp.o -c /<>/src/ffindexdatabase.cpp [ 75%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhdatabase.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhdatabase.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhdatabase.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhdatabase.cpp.o -c /<>/src/hhdatabase.cpp [ 76%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhhalfalignment.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o -c /<>/src/hhhalfalignment.cpp [ 77%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbirunner.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbirunner.cpp [ 78%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhfunc.cpp [ 79%] Linking CXX static library libHH_OBJECTS.a cd /<>/build_avx/src && /usr/bin/cmake -P CMakeFiles/HH_OBJECTS.dir/cmake_clean_target.cmake cd /<>/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/HH_OBJECTS.dir/link.txt --verbose=1 /usr/bin/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/ranlib libHH_OBJECTS.a make[4]: Leaving directory '/<>/build_avx' [ 79%] Built target HH_OBJECTS make -f src/CMakeFiles/hhblits-avx.dir/build.make src/CMakeFiles/hhblits-avx.dir/depend make[4]: Entering directory '/<>/build_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx /<>/build_avx/src /<>/build_avx/src/CMakeFiles/hhblits-avx.dir/DependInfo.cmake "--color=" make -f src/CMakeFiles/hhmake-avx.dir/build.make src/CMakeFiles/hhmake-avx.dir/depend make[4]: Entering directory '/<>/build_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx /<>/build_avx/src /<>/build_avx/src/CMakeFiles/hhmake-avx.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx' make -f src/CMakeFiles/hhblits-avx.dir/build.make src/CMakeFiles/hhblits-avx.dir/build make[4]: Entering directory '/<>/build_avx' make[4]: Leaving directory '/<>/build_avx' make -f src/CMakeFiles/hhmake-avx.dir/build.make src/CMakeFiles/hhmake-avx.dir/build make[4]: Entering directory '/<>/build_avx' [ 80%] Building CXX object src/CMakeFiles/hhblits-avx.dir/hhblits_app.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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-avx.dir/hhblits_app.cpp.o -MF CMakeFiles/hhblits-avx.dir/hhblits_app.cpp.o.d -o CMakeFiles/hhblits-avx.dir/hhblits_app.cpp.o -c /<>/src/hhblits_app.cpp [ 81%] Building CXX object src/CMakeFiles/hhmake-avx.dir/hhmake.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhmake-avx.dir/hhmake.cpp.o -MF CMakeFiles/hhmake-avx.dir/hhmake.cpp.o.d -o CMakeFiles/hhmake-avx.dir/hhmake.cpp.o -c /<>/src/hhmake.cpp [ 82%] Linking CXX executable hhblits-avx cd /<>/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhblits-avx.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "CMakeFiles/hhblits-avx.dir/hhblits_app.cpp.o" -o hhblits-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_avx' [ 82%] Built target hhblits-avx make -f src/CMakeFiles/hhfilter-avx.dir/build.make src/CMakeFiles/hhfilter-avx.dir/depend make[4]: Entering directory '/<>/build_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx /<>/build_avx/src /<>/build_avx/src/CMakeFiles/hhfilter-avx.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx' make -f src/CMakeFiles/hhfilter-avx.dir/build.make src/CMakeFiles/hhfilter-avx.dir/build make[4]: Entering directory '/<>/build_avx' [ 83%] Building CXX object src/CMakeFiles/hhfilter-avx.dir/hhfilter.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhfilter-avx.dir/hhfilter.cpp.o -MF CMakeFiles/hhfilter-avx.dir/hhfilter.cpp.o.d -o CMakeFiles/hhfilter-avx.dir/hhfilter.cpp.o -c /<>/src/hhfilter.cpp [ 84%] Linking CXX executable hhmake-avx cd /<>/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhmake-avx.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "CMakeFiles/hhmake-avx.dir/hhmake.cpp.o" -o hhmake-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_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_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx /<>/build_avx/src /<>/build_avx/src/CMakeFiles/hhsearch-avx.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx' make -f src/CMakeFiles/hhsearch-avx.dir/build.make src/CMakeFiles/hhsearch-avx.dir/build make[4]: Entering directory '/<>/build_avx' [ 85%] Building CXX object src/CMakeFiles/hhsearch-avx.dir/hhblits_app.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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-avx.dir/hhblits_app.cpp.o -MF CMakeFiles/hhsearch-avx.dir/hhblits_app.cpp.o.d -o CMakeFiles/hhsearch-avx.dir/hhblits_app.cpp.o -c /<>/src/hhblits_app.cpp [ 86%] Linking CXX executable hhsearch-avx cd /<>/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhsearch-avx.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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 [ 87%] Linking CXX executable hhfilter-avx cd /<>/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhfilter-avx.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "CMakeFiles/hhfilter-avx.dir/hhfilter.cpp.o" -o hhfilter-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_avx' [ 87%] Built target hhfilter-avx make -f src/CMakeFiles/hhalign-avx.dir/build.make src/CMakeFiles/hhalign-avx.dir/depend make[4]: Entering directory '/<>/build_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx /<>/build_avx/src /<>/build_avx/src/CMakeFiles/hhalign-avx.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx' make -f src/CMakeFiles/hhalign-avx.dir/build.make src/CMakeFiles/hhalign-avx.dir/build make[4]: Entering directory '/<>/build_avx' [ 88%] Building CXX object src/CMakeFiles/hhalign-avx.dir/hhblits_app.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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-avx.dir/hhblits_app.cpp.o -MF CMakeFiles/hhalign-avx.dir/hhblits_app.cpp.o.d -o CMakeFiles/hhalign-avx.dir/hhblits_app.cpp.o -c /<>/src/hhblits_app.cpp make[4]: Leaving directory '/<>/build_avx' [ 88%] Built target hhsearch-avx make -f src/CMakeFiles/hhconsensus-avx.dir/build.make src/CMakeFiles/hhconsensus-avx.dir/depend make[4]: Entering directory '/<>/build_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx /<>/build_avx/src /<>/build_avx/src/CMakeFiles/hhconsensus-avx.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx' make -f src/CMakeFiles/hhconsensus-avx.dir/build.make src/CMakeFiles/hhconsensus-avx.dir/build make[4]: Entering directory '/<>/build_avx' [ 89%] Building CXX object src/CMakeFiles/hhconsensus-avx.dir/hhconsensus.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhconsensus-avx.dir/hhconsensus.cpp.o -MF CMakeFiles/hhconsensus-avx.dir/hhconsensus.cpp.o.d -o CMakeFiles/hhconsensus-avx.dir/hhconsensus.cpp.o -c /<>/src/hhconsensus.cpp [ 90%] Linking CXX executable hhalign-avx cd /<>/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhalign-avx.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "CMakeFiles/hhalign-avx.dir/hhblits_app.cpp.o" -o hhalign-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_avx' [ 90%] Built target hhalign-avx make -f src/CMakeFiles/cstranslate-avx.dir/build.make src/CMakeFiles/cstranslate-avx.dir/depend make[4]: Entering directory '/<>/build_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx /<>/build_avx/src /<>/build_avx/src/CMakeFiles/cstranslate-avx.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx' make -f src/CMakeFiles/cstranslate-avx.dir/build.make src/CMakeFiles/cstranslate-avx.dir/build make[4]: Entering directory '/<>/build_avx' [ 91%] Building CXX object src/CMakeFiles/cstranslate-avx.dir/cs/cstranslate_app.cc.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/cstranslate_app.cc [ 92%] Linking CXX executable hhconsensus-avx cd /<>/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhconsensus-avx.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_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_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx /<>/build_avx/src /<>/build_avx/src/CMakeFiles/hhblits_omp-avx.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx' make -f src/CMakeFiles/hhblits_omp-avx.dir/build.make src/CMakeFiles/hhblits_omp-avx.dir/build make[4]: Entering directory '/<>/build_avx' [ 93%] Building CXX object src/CMakeFiles/hhblits_omp-avx.dir/hhblits_omp.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhblits_omp.cpp /<>/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /<>/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:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /<>/src/hhblits.h:11, from /<>/src/hhsearch.h:34, from /<>/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /<>/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /<>/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:54:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 94%] Linking CXX executable hhblits_omp-avx cd /<>/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhblits_omp-avx.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_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_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx /<>/build_avx/src /<>/build_avx/src/CMakeFiles/hhsearch_omp-avx.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx' make -f src/CMakeFiles/hhsearch_omp-avx.dir/build.make src/CMakeFiles/hhsearch_omp-avx.dir/build make[4]: Entering directory '/<>/build_avx' [ 95%] Building CXX object src/CMakeFiles/hhsearch_omp-avx.dir/hhblits_omp.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhblits_omp.cpp /<>/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /<>/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:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /<>/src/hhblits.h:11, from /<>/src/hhsearch.h:34, from /<>/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /<>/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /<>/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:54:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 96%] Linking CXX executable hhsearch_omp-avx cd /<>/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhsearch_omp-avx.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_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_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx /<>/build_avx/src /<>/build_avx/src/CMakeFiles/hhalign_omp-avx.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx' make -f src/CMakeFiles/hhalign_omp-avx.dir/build.make src/CMakeFiles/hhalign_omp-avx.dir/build make[4]: Entering directory '/<>/build_avx' [ 97%] Building CXX object src/CMakeFiles/hhalign_omp-avx.dir/hhblits_omp.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhblits_omp.cpp /<>/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /<>/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:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /<>/src/hhblits.h:11, from /<>/src/hhsearch.h:34, from /<>/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /<>/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /<>/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:54:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 98%] Linking CXX executable hhalign_omp-avx cd /<>/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhalign_omp-avx.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_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_avx' cd /<>/build_avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_avx /<>/build_avx/src /<>/build_avx/src/CMakeFiles/hhblits_ca3m-avx.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_avx' make -f src/CMakeFiles/hhblits_ca3m-avx.dir/build.make src/CMakeFiles/hhblits_ca3m-avx.dir/build make[4]: Entering directory '/<>/build_avx' [ 99%] Building CXX object src/CMakeFiles/hhblits_ca3m-avx.dir/hhblits_ca3m.cpp.o cd /<>/build_avx/src && /usr/bin/c++ -DOPENMP -I/<>/build_avx/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_avx/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhblits_ca3m.cpp /<>/src/hhblits_ca3m.cpp: In function ‘int main(int, const char**)’: /<>/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:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /<>/src/hhblits.h:11, from /<>/src/hhblits_ca3m.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /<>/src/hhblits_ca3m.cpp:24:15, inlined from ‘int main(int, const char**)’ at /<>/src/hhblits_ca3m.cpp:358:29: /usr/include/x86_64-linux-gnu/bits/stdio2.h:54:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [100%] Linking CXX executable hhblits_ca3m-avx cd /<>/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhblits_ca3m-avx.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_avx' [100%] Built target hhblits_ca3m-avx [100%] Linking CXX executable cstranslate-avx cd /<>/build_avx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/cstranslate-avx.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_avx' [100%] Built target cstranslate-avx make[3]: Leaving directory '/<>/build_avx' /usr/bin/cmake -E cmake_progress_start /<>/build_avx/CMakeFiles 0 make[2]: Leaving directory '/<>/build_avx' cd build_sse4.1 && make -j2 "INSTALL=install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/<>/build_sse4.1' /usr/bin/cmake -S/<> -B/<>/build_sse4.1 --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /<>/build_sse4.1/CMakeFiles /<>/build_sse4.1//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/<>/build_sse4.1' make -f lib/ffindex/src/CMakeFiles/ffindex.dir/build.make lib/ffindex/src/CMakeFiles/ffindex.dir/depend make[4]: Entering directory '/<>/build_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_sse4.1 /<>/build_sse4.1/lib/ffindex/src /<>/build_sse4.1/lib/ffindex/src/CMakeFiles/ffindex.dir/DependInfo.cmake "--color=" make -f data/CMakeFiles/generated.dir/build.make data/CMakeFiles/generated.dir/depend make[4]: Entering directory '/<>/build_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/data /<>/build_sse4.1 /<>/build_sse4.1/data /<>/build_sse4.1/data/CMakeFiles/generated.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse4.1' make -f lib/ffindex/src/CMakeFiles/ffindex.dir/build.make lib/ffindex/src/CMakeFiles/ffindex.dir/build make[4]: Leaving directory '/<>/build_sse4.1' make[4]: Entering directory '/<>/build_sse4.1' make -f data/CMakeFiles/generated.dir/build.make data/CMakeFiles/generated.dir/build make[4]: Entering directory '/<>/build_sse4.1' [ 1%] Building C object lib/ffindex/src/CMakeFiles/ffindex.dir/ffindex.c.o [ 2%] Generating ../generated/context_data.crf.h cd /<>/data && mkdir -p /<>/build_sse4.1/generated cd /<>/build_sse4.1/lib/ffindex/src && /usr/bin/cc -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex.c cd /<>/data && /<>/cmake/xxdi.pl context_data.crf > /<>/build_sse4.1/generated/context_data.crf.h [ 3%] Building C object lib/ffindex/src/CMakeFiles/ffindex.dir/ffutil.c.o cd /<>/build_sse4.1/lib/ffindex/src && /usr/bin/cc -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffutil.c [ 4%] Linking C static library libffindex.a cd /<>/build_sse4.1/lib/ffindex/src && /usr/bin/cmake -P CMakeFiles/ffindex.dir/cmake_clean_target.cmake cd /<>/build_sse4.1/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex.dir/link.txt --verbose=1 /usr/bin/ar qc libffindex.a CMakeFiles/ffindex.dir/ffindex.c.o CMakeFiles/ffindex.dir/ffutil.c.o /usr/bin/ranlib libffindex.a make[4]: Leaving directory '/<>/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_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse4.1 /<>/build_sse4.1/src /<>/build_sse4.1/src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_sse4.1' [ 5%] Building CXX object src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbialgorithm.cpp [ 6%] Linking CXX static library libhhviterbialgorithm_with_celloff.a cd /<>/build_sse4.1/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_with_celloff.dir/cmake_clean_target.cmake cd /<>/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_with_celloff.dir/link.txt --verbose=1 /usr/bin/ar qc libhhviterbialgorithm_with_celloff.a CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o /usr/bin/ranlib libhhviterbialgorithm_with_celloff.a make[4]: Leaving directory '/<>/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_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse4.1 /<>/build_sse4.1/src /<>/build_sse4.1/src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_sse4.1' [ 7%] Building CXX object src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbialgorithm.cpp cd /<>/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /<>/build_sse4.1/generated/context_data.crf.h > /<>/build_sse4.1/generated/context_data.crf.h.tmp cd /<>/data && mv -f /<>/build_sse4.1/generated/context_data.crf.h.tmp /<>/build_sse4.1/generated/context_data.crf.h [ 8%] Generating ../generated/context_data.lib.h cd /<>/data && mkdir -p /<>/build_sse4.1/generated cd /<>/data && /<>/cmake/xxdi.pl context_data.lib > /<>/build_sse4.1/generated/context_data.lib.h [ 9%] Linking CXX static library libhhviterbialgorithm_with_celloff_and_ss.a cd /<>/build_sse4.1/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/cmake_clean_target.cmake cd /<>/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/link.txt --verbose=1 /usr/bin/ar qc libhhviterbialgorithm_with_celloff_and_ss.a CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o /usr/bin/ranlib libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/<>/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_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse4.1 /<>/build_sse4.1/src /<>/build_sse4.1/src/CMakeFiles/hhviterbialgorithm_and_ss.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_sse4.1' [ 10%] Building CXX object src/CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbialgorithm.cpp [ 11%] Linking CXX static library libhhviterbialgorithm_and_ss.a cd /<>/build_sse4.1/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_and_ss.dir/cmake_clean_target.cmake cd /<>/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_and_ss.dir/link.txt --verbose=1 /usr/bin/ar qc libhhviterbialgorithm_and_ss.a CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o /usr/bin/ranlib libhhviterbialgorithm_and_ss.a make[4]: Leaving directory '/<>/build_sse4.1' [ 11%] Built target hhviterbialgorithm_and_ss [ 12%] Generating ../generated/cs219.lib.h cd /<>/data && mkdir -p /<>/build_sse4.1/generated cd /<>/data && /<>/cmake/xxdi.pl cs219.lib > /<>/build_sse4.1/generated/cs219.lib.h cd /<>/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /<>/build_sse4.1/generated/cs219.lib.h > /<>/build_sse4.1/generated/cs219.lib.h.tmp cd /<>/data && mv -f /<>/build_sse4.1/generated/cs219.lib.h.tmp /<>/build_sse4.1/generated/cs219.lib.h make -f src/cs/CMakeFiles/CS_OBJECTS.dir/build.make src/cs/CMakeFiles/CS_OBJECTS.dir/depend make[4]: Entering directory '/<>/build_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src/cs /<>/build_sse4.1 /<>/build_sse4.1/src/cs /<>/build_sse4.1/src/cs/CMakeFiles/CS_OBJECTS.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_sse4.1' [ 13%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/aa.cc.o cd /<>/build_sse4.1/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/aa.cc cd /<>/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /<>/build_sse4.1/generated/context_data.lib.h > /<>/build_sse4.1/generated/context_data.lib.h.tmp cd /<>/data && mv -f /<>/build_sse4.1/generated/context_data.lib.h.tmp /<>/build_sse4.1/generated/context_data.lib.h make[4]: Leaving directory '/<>/build_sse4.1' [ 13%] Built target generated make -f src/CMakeFiles/A3M_COMPRESS.dir/build.make src/CMakeFiles/A3M_COMPRESS.dir/depend make[4]: Entering directory '/<>/build_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse4.1 /<>/build_sse4.1/src /<>/build_sse4.1/src/CMakeFiles/A3M_COMPRESS.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse4.1' make -f src/CMakeFiles/A3M_COMPRESS.dir/build.make src/CMakeFiles/A3M_COMPRESS.dir/build make[4]: Entering directory '/<>/build_sse4.1' [ 13%] Building CXX object src/CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/a3m_compress.cpp [ 14%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/as.cc.o cd /<>/build_sse4.1/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/as.cc /<>/src/a3m_compress.cpp: In function ‘std::string& rtrim(std::string&)’: /<>/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++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /<>/src/a3m_compress.h:11, from /<>/src/a3m_compress.cpp:8: /usr/include/c++/14/bits/stl_function.h:1123:5: note: declared here 1123 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ [ 15%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o cd /<>/build_sse4.1/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/assert_helpers.cc [ 16%] Linking CXX static library libA3M_COMPRESS.a cd /<>/build_sse4.1/src && /usr/bin/cmake -P CMakeFiles/A3M_COMPRESS.dir/cmake_clean_target.cmake cd /<>/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 /usr/bin/ar qc libA3M_COMPRESS.a CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o cd /<>/build_sse4.1/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/blosum_matrix.cc /usr/bin/ranlib libA3M_COMPRESS.a make[4]: Leaving directory '/<>/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_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_sse4.1 /<>/build_sse4.1/lib/ffindex/src /<>/build_sse4.1/lib/ffindex/src/CMakeFiles/ffindex_apply.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_sse4.1' [ 18%] Building C object lib/ffindex/src/CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o cd /<>/build_sse4.1/lib/ffindex/src && /usr/bin/cc -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_apply_mpi.c /<>/lib/ffindex/src/ffindex_apply_mpi.c: In function ‘ffindex_apply_by_entry’: /<>/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_sse4.1/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_apply.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o -o ffindex_apply libffindex.a make[4]: Leaving directory '/<>/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_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_sse4.1 /<>/build_sse4.1/lib/ffindex/src /<>/build_sse4.1/lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_sse4.1' [ 20%] Building C object lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o cd /<>/build_sse4.1/lib/ffindex/src && /usr/bin/cc -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_reduce.c [ 21%] Linking C executable ffindex_reduce cd /<>/build_sse4.1/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_reduce.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o -o ffindex_reduce libffindex.a make[4]: Leaving directory '/<>/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_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_sse4.1 /<>/build_sse4.1/lib/ffindex/src /<>/build_sse4.1/lib/ffindex/src/CMakeFiles/ffindex_build.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_sse4.1' [ 22%] Building C object lib/ffindex/src/CMakeFiles/ffindex_build.dir/ffindex_build.c.o cd /<>/build_sse4.1/lib/ffindex/src && /usr/bin/cc -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_build.c [ 23%] Linking C executable ffindex_build cd /<>/build_sse4.1/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_build.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_build.dir/ffindex_build.c.o -o ffindex_build libffindex.a make[4]: Leaving directory '/<>/build_sse4.1' [ 23%] 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_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_sse4.1 /<>/build_sse4.1/lib/ffindex/src /<>/build_sse4.1/lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_sse4.1' [ 24%] Building C object lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o cd /<>/build_sse4.1/lib/ffindex/src && /usr/bin/cc -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 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/<>/build_sse4.1/lib/ffindex/src /<>/build_sse4.1/lib/ffindex/src/CMakeFiles/ffindex_get.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse4.1' make -f lib/ffindex/src/CMakeFiles/ffindex_get.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_get.dir/build make[4]: Entering directory '/<>/build_sse4.1' [ 26%] Building C object lib/ffindex/src/CMakeFiles/ffindex_get.dir/ffindex_get.c.o cd /<>/build_sse4.1/lib/ffindex/src && /usr/bin/cc -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_get.c [ 27%] Linking C executable ffindex_get cd /<>/build_sse4.1/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_get.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_get.dir/ffindex_get.c.o -o ffindex_get libffindex.a [ 28%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o cd /<>/build_sse4.1/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/getopt_pp.cc make[4]: Leaving directory '/<>/build_sse4.1' [ 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_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_sse4.1 /<>/build_sse4.1/lib/ffindex/src /<>/build_sse4.1/lib/ffindex/src/CMakeFiles/ffindex_modify.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse4.1' make -f lib/ffindex/src/CMakeFiles/ffindex_modify.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_modify.dir/build make[4]: Entering directory '/<>/build_sse4.1' [ 29%] Building C object lib/ffindex/src/CMakeFiles/ffindex_modify.dir/ffindex_modify.c.o cd /<>/build_sse4.1/lib/ffindex/src && /usr/bin/cc -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_modify.c [ 30%] Linking C executable ffindex_modify cd /<>/build_sse4.1/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_modify.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_modify.dir/ffindex_modify.c.o -o ffindex_modify libffindex.a make[4]: Leaving directory '/<>/build_sse4.1' [ 30%] Built target ffindex_modify [ 31%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/log.cc.o cd /<>/build_sse4.1/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/log.cc make -f lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/depend make[4]: Entering directory '/<>/build_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_sse4.1 /<>/build_sse4.1/lib/ffindex/src /<>/build_sse4.1/lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse4.1' make -f lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/build make[4]: Entering directory '/<>/build_sse4.1' [ 32%] Building C object lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/ffindex_unpack.c.o cd /<>/build_sse4.1/lib/ffindex/src && /usr/bin/cc -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_unpack.c [ 33%] Linking C executable ffindex_unpack cd /<>/build_sse4.1/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_unpack.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_unpack.dir/ffindex_unpack.c.o -o ffindex_unpack libffindex.a make[4]: Leaving directory '/<>/build_sse4.1' [ 33%] 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_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_sse4.1 /<>/build_sse4.1/lib/ffindex/src /<>/build_sse4.1/lib/ffindex/src/CMakeFiles/ffindex_order.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse4.1' make -f lib/ffindex/src/CMakeFiles/ffindex_order.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_order.dir/build make[4]: Entering directory '/<>/build_sse4.1' [ 34%] Building C object lib/ffindex/src/CMakeFiles/ffindex_order.dir/ffindex_order.c.o cd /<>/build_sse4.1/lib/ffindex/src && /usr/bin/cc -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_order.c [ 35%] Linking C executable ffindex_order cd /<>/build_sse4.1/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_order.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_order.dir/ffindex_order.c.o -o ffindex_order libffindex.a make[4]: Leaving directory '/<>/build_sse4.1' [ 35%] 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_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_sse4.1 /<>/build_sse4.1/lib/ffindex/src /<>/build_sse4.1/lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse4.1' 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_sse4.1' [ 36%] Building C object lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/ffindex_from_fasta_with_split.c.o cd /<>/build_sse4.1/lib/ffindex/src && /usr/bin/cc -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_from_fasta_with_split.c [ 37%] Linking C executable ffindex_from_fasta_with_split cd /<>/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/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic 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_sse4.1' [ 37%] Built target ffindex_from_fasta_with_split make -f src/CMakeFiles/a3m_extract-sse4.1.dir/build.make src/CMakeFiles/a3m_extract-sse4.1.dir/depend make[4]: Entering directory '/<>/build_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse4.1 /<>/build_sse4.1/src /<>/build_sse4.1/src/CMakeFiles/a3m_extract-sse4.1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_sse4.1' [ 38%] Building CXX object src/CMakeFiles/a3m_extract-sse4.1.dir/a3m_extract.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/a3m_extract.cpp [ 39%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/application.cc.o cd /<>/build_sse4.1/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/application.cc [ 40%] Linking CXX executable a3m_extract-sse4.1 cd /<>/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_extract-sse4.1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_sse4.1' [ 40%] Built target a3m_extract-sse4.1 make -f src/CMakeFiles/a3m_reduce-sse4.1.dir/build.make src/CMakeFiles/a3m_reduce-sse4.1.dir/depend make[4]: Entering directory '/<>/build_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse4.1 /<>/build_sse4.1/src /<>/build_sse4.1/src/CMakeFiles/a3m_reduce-sse4.1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_sse4.1' [ 41%] Building CXX object src/CMakeFiles/a3m_reduce-sse4.1.dir/a3m_reduce.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/a3m_reduce.cpp [ 42%] Linking CXX executable a3m_reduce-sse4.1 cd /<>/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_reduce-sse4.1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_sse4.1' [ 42%] Built target a3m_reduce-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_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse4.1 /<>/build_sse4.1/src /<>/build_sse4.1/src/CMakeFiles/a3m_database_reduce-sse4.1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_sse4.1' [ 43%] Building CXX object src/CMakeFiles/a3m_database_reduce-sse4.1.dir/a3m_database_reduce.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/a3m_database_reduce.cpp [ 44%] Linking CXX static library libCS_OBJECTS.a cd /<>/build_sse4.1/src/cs && /usr/bin/cmake -P CMakeFiles/CS_OBJECTS.dir/cmake_clean_target.cmake cd /<>/build_sse4.1/src/cs && /usr/bin/cmake -E cmake_link_script CMakeFiles/CS_OBJECTS.dir/link.txt --verbose=1 /usr/bin/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/ranlib libCS_OBJECTS.a make[4]: Leaving directory '/<>/build_sse4.1' [ 44%] Built target CS_OBJECTS 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_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse4.1 /<>/build_sse4.1/src /<>/build_sse4.1/src/CMakeFiles/a3m_database_extract-sse4.1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_sse4.1' [ 45%] Building CXX object src/CMakeFiles/a3m_database_extract-sse4.1.dir/a3m_database_extract.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/a3m_database_extract.cpp [ 46%] Linking CXX executable a3m_database_reduce-sse4.1 cd /<>/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_reduce-sse4.1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_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_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse4.1 /<>/build_sse4.1/src /<>/build_sse4.1/src/CMakeFiles/a3m_database_filter-sse4.1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_sse4.1' [ 47%] Building CXX object src/CMakeFiles/a3m_database_filter-sse4.1.dir/a3m_database_filter.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/a3m_database_filter.cpp [ 48%] Linking CXX executable a3m_database_extract-sse4.1 cd /<>/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_extract-sse4.1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_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]: Entering directory '/<>/build_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse4.1 /<>/build_sse4.1/src /<>/build_sse4.1/src/CMakeFiles/HH_OBJECTS.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse4.1' make -f src/CMakeFiles/HH_OBJECTS.dir/build.make src/CMakeFiles/HH_OBJECTS.dir/build make[4]: Entering directory '/<>/build_sse4.1' [ 49%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhblits.cpp [ 50%] Linking CXX executable a3m_database_filter-sse4.1 cd /<>/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_filter-sse4.1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "CMakeFiles/a3m_database_filter-sse4.1.dir/a3m_database_filter.cpp.o" -o a3m_database_filter-sse4.1 ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a make[4]: Leaving directory '/<>/build_sse4.1' [ 50%] Built target a3m_database_filter-sse4.1 [ 51%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhdecl.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhdecl.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhdecl.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhdecl.cpp.o -c /<>/src/hhdecl.cpp [ 52%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhhit.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o -c /<>/src/hhhit.cpp [ 53%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhmatrices.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o -c /<>/src/hhmatrices.cpp [ 54%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhsearch.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o -c /<>/src/hhsearch.cpp [ 55%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhalign.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o -c /<>/src/hhalign.cpp [ 56%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhhitlist.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o -c /<>/src/hhhitlist.cpp [ 57%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhposteriordecoder.cpp [ 58%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhutil.cpp [ 59%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/util.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/util.cpp [ 60%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhalignment.cpp [ 61%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhforwardalgorithm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o -c /<>/src/hhforwardalgorithm.cpp [ 62%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhhmm.cpp /<>/src/hhalignment.cpp: In member function ‘int Alignment::Filter2(char*, int, int, float, int, int, int, const float (*)[20])’: /<>/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:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /<>/src/hhalignment.h:6, from /<>/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 /<>/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_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhposteriordecoderrunner.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhposteriordecoderrunner.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhposteriordecoderrunner.cpp.o -c /<>/src/hhposteriordecoderrunner.cpp [ 64%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhviterbialgorithm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o -c /<>/src/hhviterbialgorithm.cpp [ 65%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhfullalignment.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o -c /<>/src/hhfullalignment.cpp [ 66%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhhmmsimd.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o -c /<>/src/hhhmmsimd.cpp [ 67%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhposteriormatrix.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o -c /<>/src/hhposteriormatrix.cpp [ 68%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhviterbi.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o -c /<>/src/hhviterbi.cpp [ 69%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhbacktracemac.cpp [ 70%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhmacalgorithm.cpp [ 71%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhprefilter.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhprefilter.cpp [ 72%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbimatrix.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhviterbimatrix.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhviterbimatrix.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhviterbimatrix.cpp.o -c /<>/src/hhviterbimatrix.cpp [ 73%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhbackwardalgorithm.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhbackwardalgorithm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhbackwardalgorithm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhbackwardalgorithm.cpp.o -c /<>/src/hhbackwardalgorithm.cpp [ 74%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/ffindexdatabase.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/ffindexdatabase.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/ffindexdatabase.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/ffindexdatabase.cpp.o -c /<>/src/ffindexdatabase.cpp [ 75%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhdatabase.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhdatabase.cpp [ 76%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhhalfalignment.cpp [ 77%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbirunner.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhviterbirunner.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhviterbirunner.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhviterbirunner.cpp.o -c /<>/src/hhviterbirunner.cpp [ 78%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhfunc.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o -c /<>/src/hhfunc.cpp [ 79%] Linking CXX static library libHH_OBJECTS.a cd /<>/build_sse4.1/src && /usr/bin/cmake -P CMakeFiles/HH_OBJECTS.dir/cmake_clean_target.cmake cd /<>/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/HH_OBJECTS.dir/link.txt --verbose=1 /usr/bin/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/ranlib libHH_OBJECTS.a make[4]: Leaving directory '/<>/build_sse4.1' [ 79%] Built target HH_OBJECTS make -f src/CMakeFiles/hhblits-sse4.1.dir/build.make src/CMakeFiles/hhblits-sse4.1.dir/depend make -f src/CMakeFiles/hhmake-sse4.1.dir/build.make src/CMakeFiles/hhmake-sse4.1.dir/depend make[4]: Entering directory '/<>/build_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse4.1 /<>/build_sse4.1/src /<>/build_sse4.1/src/CMakeFiles/hhmake-sse4.1.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/build_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse4.1 /<>/build_sse4.1/src /<>/build_sse4.1/src/CMakeFiles/hhblits-sse4.1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse4.1' make[4]: Leaving directory '/<>/build_sse4.1' make -f src/CMakeFiles/hhblits-sse4.1.dir/build.make src/CMakeFiles/hhblits-sse4.1.dir/build make -f src/CMakeFiles/hhmake-sse4.1.dir/build.make src/CMakeFiles/hhmake-sse4.1.dir/build make[4]: Entering directory '/<>/build_sse4.1' make[4]: Entering directory '/<>/build_sse4.1' [ 80%] Building CXX object src/CMakeFiles/hhblits-sse4.1.dir/hhblits_app.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhblits_app.cpp [ 81%] Building CXX object src/CMakeFiles/hhmake-sse4.1.dir/hhmake.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhmake-sse4.1.dir/hhmake.cpp.o -MF CMakeFiles/hhmake-sse4.1.dir/hhmake.cpp.o.d -o CMakeFiles/hhmake-sse4.1.dir/hhmake.cpp.o -c /<>/src/hhmake.cpp [ 82%] Linking CXX executable hhblits-sse4.1 cd /<>/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhblits-sse4.1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "CMakeFiles/hhblits-sse4.1.dir/hhblits_app.cpp.o" -o hhblits-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_sse4.1' [ 82%] Built target hhblits-sse4.1 make -f src/CMakeFiles/hhfilter-sse4.1.dir/build.make src/CMakeFiles/hhfilter-sse4.1.dir/depend make[4]: Entering directory '/<>/build_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse4.1 /<>/build_sse4.1/src /<>/build_sse4.1/src/CMakeFiles/hhfilter-sse4.1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse4.1' make -f src/CMakeFiles/hhfilter-sse4.1.dir/build.make src/CMakeFiles/hhfilter-sse4.1.dir/build make[4]: Entering directory '/<>/build_sse4.1' [ 83%] Building CXX object src/CMakeFiles/hhfilter-sse4.1.dir/hhfilter.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhfilter-sse4.1.dir/hhfilter.cpp.o -MF CMakeFiles/hhfilter-sse4.1.dir/hhfilter.cpp.o.d -o CMakeFiles/hhfilter-sse4.1.dir/hhfilter.cpp.o -c /<>/src/hhfilter.cpp [ 84%] Linking CXX executable hhmake-sse4.1 cd /<>/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhmake-sse4.1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_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_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse4.1 /<>/build_sse4.1/src /<>/build_sse4.1/src/CMakeFiles/hhsearch-sse4.1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse4.1' make -f src/CMakeFiles/hhsearch-sse4.1.dir/build.make src/CMakeFiles/hhsearch-sse4.1.dir/build make[4]: Entering directory '/<>/build_sse4.1' [ 85%] Building CXX object src/CMakeFiles/hhsearch-sse4.1.dir/hhblits_app.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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-sse4.1.dir/hhblits_app.cpp.o -MF CMakeFiles/hhsearch-sse4.1.dir/hhblits_app.cpp.o.d -o CMakeFiles/hhsearch-sse4.1.dir/hhblits_app.cpp.o -c /<>/src/hhblits_app.cpp [ 86%] Linking CXX executable hhsearch-sse4.1 cd /<>/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhsearch-sse4.1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "CMakeFiles/hhsearch-sse4.1.dir/hhblits_app.cpp.o" -o hhsearch-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 [ 87%] Linking CXX executable hhfilter-sse4.1 cd /<>/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhfilter-sse4.1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "CMakeFiles/hhfilter-sse4.1.dir/hhfilter.cpp.o" -o hhfilter-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_sse4.1' [ 87%] Built target hhfilter-sse4.1 make -f src/CMakeFiles/hhalign-sse4.1.dir/build.make src/CMakeFiles/hhalign-sse4.1.dir/depend make[4]: Entering directory '/<>/build_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse4.1 /<>/build_sse4.1/src /<>/build_sse4.1/src/CMakeFiles/hhalign-sse4.1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse4.1' make -f src/CMakeFiles/hhalign-sse4.1.dir/build.make src/CMakeFiles/hhalign-sse4.1.dir/build make[4]: Entering directory '/<>/build_sse4.1' [ 88%] Building CXX object src/CMakeFiles/hhalign-sse4.1.dir/hhblits_app.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 CMakeFiles/hhalign-sse4.1.dir/hhblits_app.cpp.o -c /<>/src/hhblits_app.cpp make[4]: Leaving directory '/<>/build_sse4.1' [ 88%] Built target hhsearch-sse4.1 make -f src/CMakeFiles/hhconsensus-sse4.1.dir/build.make src/CMakeFiles/hhconsensus-sse4.1.dir/depend make[4]: Entering directory '/<>/build_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse4.1 /<>/build_sse4.1/src /<>/build_sse4.1/src/CMakeFiles/hhconsensus-sse4.1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse4.1' make -f src/CMakeFiles/hhconsensus-sse4.1.dir/build.make src/CMakeFiles/hhconsensus-sse4.1.dir/build make[4]: Entering directory '/<>/build_sse4.1' [ 89%] Building CXX object src/CMakeFiles/hhconsensus-sse4.1.dir/hhconsensus.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhconsensus-sse4.1.dir/hhconsensus.cpp.o -MF CMakeFiles/hhconsensus-sse4.1.dir/hhconsensus.cpp.o.d -o CMakeFiles/hhconsensus-sse4.1.dir/hhconsensus.cpp.o -c /<>/src/hhconsensus.cpp [ 90%] Linking CXX executable hhalign-sse4.1 cd /<>/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhalign-sse4.1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "CMakeFiles/hhalign-sse4.1.dir/hhblits_app.cpp.o" -o hhalign-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_sse4.1' [ 90%] Built target hhalign-sse4.1 make -f src/CMakeFiles/cstranslate-sse4.1.dir/build.make src/CMakeFiles/cstranslate-sse4.1.dir/depend make[4]: Entering directory '/<>/build_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse4.1 /<>/build_sse4.1/src /<>/build_sse4.1/src/CMakeFiles/cstranslate-sse4.1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse4.1' make -f src/CMakeFiles/cstranslate-sse4.1.dir/build.make src/CMakeFiles/cstranslate-sse4.1.dir/build make[4]: Entering directory '/<>/build_sse4.1' [ 91%] Building CXX object src/CMakeFiles/cstranslate-sse4.1.dir/cs/cstranslate_app.cc.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/cstranslate-sse4.1.dir/cs/cstranslate_app.cc.o -MF CMakeFiles/cstranslate-sse4.1.dir/cs/cstranslate_app.cc.o.d -o CMakeFiles/cstranslate-sse4.1.dir/cs/cstranslate_app.cc.o -c /<>/src/cs/cstranslate_app.cc [ 92%] Linking CXX executable hhconsensus-sse4.1 cd /<>/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhconsensus-sse4.1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_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_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse4.1 /<>/build_sse4.1/src /<>/build_sse4.1/src/CMakeFiles/hhblits_omp-sse4.1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_sse4.1' [ 93%] Building CXX object src/CMakeFiles/hhblits_omp-sse4.1.dir/hhblits_omp.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhblits_omp.cpp /<>/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /<>/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:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /<>/src/hhblits.h:11, from /<>/src/hhsearch.h:34, from /<>/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /<>/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /<>/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:54:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 94%] Linking CXX executable hhblits_omp-sse4.1 cd /<>/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhblits_omp-sse4.1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_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_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse4.1 /<>/build_sse4.1/src /<>/build_sse4.1/src/CMakeFiles/hhsearch_omp-sse4.1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_sse4.1' [ 95%] Building CXX object src/CMakeFiles/hhsearch_omp-sse4.1.dir/hhblits_omp.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhblits_omp.cpp /<>/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /<>/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:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /<>/src/hhblits.h:11, from /<>/src/hhsearch.h:34, from /<>/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /<>/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /<>/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:54:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 96%] Linking CXX executable hhsearch_omp-sse4.1 cd /<>/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhsearch_omp-sse4.1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_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_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse4.1 /<>/build_sse4.1/src /<>/build_sse4.1/src/CMakeFiles/hhalign_omp-sse4.1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_sse4.1' [ 97%] Building CXX object src/CMakeFiles/hhalign_omp-sse4.1.dir/hhblits_omp.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhblits_omp.cpp /<>/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /<>/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:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /<>/src/hhblits.h:11, from /<>/src/hhsearch.h:34, from /<>/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /<>/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /<>/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:54:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 98%] Linking CXX executable hhalign_omp-sse4.1 cd /<>/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhalign_omp-sse4.1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_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_sse4.1' cd /<>/build_sse4.1 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse4.1 /<>/build_sse4.1/src /<>/build_sse4.1/src/CMakeFiles/hhblits_ca3m-sse4.1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_sse4.1' [ 99%] Building CXX object src/CMakeFiles/hhblits_ca3m-sse4.1.dir/hhblits_ca3m.cpp.o cd /<>/build_sse4.1/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse4.1/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse4.1/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhblits_ca3m.cpp /<>/src/hhblits_ca3m.cpp: In function ‘int main(int, const char**)’: /<>/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:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /<>/src/hhblits.h:11, from /<>/src/hhblits_ca3m.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /<>/src/hhblits_ca3m.cpp:24:15, inlined from ‘int main(int, const char**)’ at /<>/src/hhblits_ca3m.cpp:358:29: /usr/include/x86_64-linux-gnu/bits/stdio2.h:54:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [100%] Linking CXX executable hhblits_ca3m-sse4.1 cd /<>/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhblits_ca3m-sse4.1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_sse4.1' [100%] Built target hhblits_ca3m-sse4.1 [100%] Linking CXX executable cstranslate-sse4.1 cd /<>/build_sse4.1/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/cstranslate-sse4.1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_sse4.1' [100%] Built target cstranslate-sse4.1 make[3]: Leaving directory '/<>/build_sse4.1' /usr/bin/cmake -E cmake_progress_start /<>/build_sse4.1/CMakeFiles 0 make[2]: Leaving directory '/<>/build_sse4.1' cd build_ssse3 && make -j2 "INSTALL=install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/<>/build_ssse3' /usr/bin/cmake -S/<> -B/<>/build_ssse3 --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /<>/build_ssse3/CMakeFiles /<>/build_ssse3//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/<>/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_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/data /<>/build_ssse3 /<>/build_ssse3/data /<>/build_ssse3/data/CMakeFiles/generated.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/build_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_ssse3 /<>/build_ssse3/lib/ffindex/src /<>/build_ssse3/lib/ffindex/src/CMakeFiles/ffindex.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_ssse3' make -f data/CMakeFiles/generated.dir/build.make data/CMakeFiles/generated.dir/build make[4]: Entering directory '/<>/build_ssse3' make[4]: Leaving directory '/<>/build_ssse3' make -f lib/ffindex/src/CMakeFiles/ffindex.dir/build.make lib/ffindex/src/CMakeFiles/ffindex.dir/build make[4]: Entering directory '/<>/build_ssse3' [ 1%] Generating ../generated/context_data.crf.h [ 2%] Building C object lib/ffindex/src/CMakeFiles/ffindex.dir/ffindex.c.o cd /<>/data && mkdir -p /<>/build_ssse3/generated cd /<>/build_ssse3/lib/ffindex/src && /usr/bin/cc -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex.c cd /<>/data && /<>/cmake/xxdi.pl context_data.crf > /<>/build_ssse3/generated/context_data.crf.h [ 3%] Building C object lib/ffindex/src/CMakeFiles/ffindex.dir/ffutil.c.o cd /<>/build_ssse3/lib/ffindex/src && /usr/bin/cc -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffutil.c [ 4%] Linking C static library libffindex.a cd /<>/build_ssse3/lib/ffindex/src && /usr/bin/cmake -P CMakeFiles/ffindex.dir/cmake_clean_target.cmake cd /<>/build_ssse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex.dir/link.txt --verbose=1 /usr/bin/ar qc libffindex.a CMakeFiles/ffindex.dir/ffindex.c.o CMakeFiles/ffindex.dir/ffutil.c.o /usr/bin/ranlib libffindex.a make[4]: Leaving directory '/<>/build_ssse3' [ 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_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_ssse3 /<>/build_ssse3/src /<>/build_ssse3/src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_ssse3' make -f src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/build make[4]: Entering directory '/<>/build_ssse3' [ 5%] Building CXX object src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbialgorithm.cpp [ 6%] Linking CXX static library libhhviterbialgorithm_with_celloff.a cd /<>/build_ssse3/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_with_celloff.dir/cmake_clean_target.cmake cd /<>/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_with_celloff.dir/link.txt --verbose=1 /usr/bin/ar qc libhhviterbialgorithm_with_celloff.a CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o /usr/bin/ranlib libhhviterbialgorithm_with_celloff.a make[4]: Leaving directory '/<>/build_ssse3' [ 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_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_ssse3 /<>/build_ssse3/src /<>/build_ssse3/src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_ssse3' [ 7%] Building CXX object src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbialgorithm.cpp cd /<>/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /<>/build_ssse3/generated/context_data.crf.h > /<>/build_ssse3/generated/context_data.crf.h.tmp cd /<>/data && mv -f /<>/build_ssse3/generated/context_data.crf.h.tmp /<>/build_ssse3/generated/context_data.crf.h [ 8%] Generating ../generated/context_data.lib.h cd /<>/data && mkdir -p /<>/build_ssse3/generated cd /<>/data && /<>/cmake/xxdi.pl context_data.lib > /<>/build_ssse3/generated/context_data.lib.h [ 9%] Linking CXX static library libhhviterbialgorithm_with_celloff_and_ss.a cd /<>/build_ssse3/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/cmake_clean_target.cmake cd /<>/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/link.txt --verbose=1 /usr/bin/ar qc libhhviterbialgorithm_with_celloff_and_ss.a CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o /usr/bin/ranlib libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/<>/build_ssse3' [ 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_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_ssse3 /<>/build_ssse3/src /<>/build_ssse3/src/CMakeFiles/hhviterbialgorithm_and_ss.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_ssse3' make -f src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build make[4]: Entering directory '/<>/build_ssse3' [ 10%] Building CXX object src/CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbialgorithm.cpp [ 11%] Linking CXX static library libhhviterbialgorithm_and_ss.a cd /<>/build_ssse3/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_and_ss.dir/cmake_clean_target.cmake cd /<>/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_and_ss.dir/link.txt --verbose=1 /usr/bin/ar qc libhhviterbialgorithm_and_ss.a CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o /usr/bin/ranlib libhhviterbialgorithm_and_ss.a make[4]: Leaving directory '/<>/build_ssse3' [ 11%] 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_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src/cs /<>/build_ssse3 /<>/build_ssse3/src/cs /<>/build_ssse3/src/cs/CMakeFiles/CS_OBJECTS.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_ssse3' make -f src/cs/CMakeFiles/CS_OBJECTS.dir/build.make src/cs/CMakeFiles/CS_OBJECTS.dir/build make[4]: Entering directory '/<>/build_ssse3' [ 12%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/aa.cc.o cd /<>/build_ssse3/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/aa.cc cd /<>/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /<>/build_ssse3/generated/context_data.lib.h > /<>/build_ssse3/generated/context_data.lib.h.tmp cd /<>/data && mv -f /<>/build_ssse3/generated/context_data.lib.h.tmp /<>/build_ssse3/generated/context_data.lib.h [ 13%] Generating ../generated/cs219.lib.h cd /<>/data && mkdir -p /<>/build_ssse3/generated cd /<>/data && /<>/cmake/xxdi.pl cs219.lib > /<>/build_ssse3/generated/cs219.lib.h cd /<>/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /<>/build_ssse3/generated/cs219.lib.h > /<>/build_ssse3/generated/cs219.lib.h.tmp cd /<>/data && mv -f /<>/build_ssse3/generated/cs219.lib.h.tmp /<>/build_ssse3/generated/cs219.lib.h make[4]: Leaving directory '/<>/build_ssse3' [ 13%] Built target generated make -f src/CMakeFiles/A3M_COMPRESS.dir/build.make src/CMakeFiles/A3M_COMPRESS.dir/depend make[4]: Entering directory '/<>/build_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_ssse3 /<>/build_ssse3/src /<>/build_ssse3/src/CMakeFiles/A3M_COMPRESS.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_ssse3' make -f src/CMakeFiles/A3M_COMPRESS.dir/build.make src/CMakeFiles/A3M_COMPRESS.dir/build make[4]: Entering directory '/<>/build_ssse3' [ 13%] Building CXX object src/CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/a3m_compress.cpp [ 14%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/as.cc.o cd /<>/build_ssse3/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/as.cc /<>/src/a3m_compress.cpp: In function ‘std::string& rtrim(std::string&)’: /<>/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++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /<>/src/a3m_compress.h:11, from /<>/src/a3m_compress.cpp:8: /usr/include/c++/14/bits/stl_function.h:1123:5: note: declared here 1123 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ [ 15%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o cd /<>/build_ssse3/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/assert_helpers.cc [ 16%] Linking CXX static library libA3M_COMPRESS.a cd /<>/build_ssse3/src && /usr/bin/cmake -P CMakeFiles/A3M_COMPRESS.dir/cmake_clean_target.cmake cd /<>/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/A3M_COMPRESS.dir/link.txt --verbose=1 /usr/bin/ar qc libA3M_COMPRESS.a CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o /usr/bin/ranlib libA3M_COMPRESS.a make[4]: Leaving directory '/<>/build_ssse3' [ 17%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o [ 17%] Built target A3M_COMPRESS cd /<>/build_ssse3/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/blosum_matrix.cc make -f lib/ffindex/src/CMakeFiles/ffindex_apply.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_apply.dir/depend make[4]: Entering directory '/<>/build_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_ssse3 /<>/build_ssse3/lib/ffindex/src /<>/build_ssse3/lib/ffindex/src/CMakeFiles/ffindex_apply.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_ssse3' [ 18%] Building C object lib/ffindex/src/CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o cd /<>/build_ssse3/lib/ffindex/src && /usr/bin/cc -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_apply_mpi.c /<>/lib/ffindex/src/ffindex_apply_mpi.c: In function ‘ffindex_apply_by_entry’: /<>/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_ssse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_apply.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o -o ffindex_apply libffindex.a make[4]: Leaving directory '/<>/build_ssse3' [ 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_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_ssse3 /<>/build_ssse3/lib/ffindex/src /<>/build_ssse3/lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_ssse3' make -f lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/build make[4]: Entering directory '/<>/build_ssse3' [ 20%] Building C object lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o cd /<>/build_ssse3/lib/ffindex/src && /usr/bin/cc -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_reduce.c [ 21%] Linking C executable ffindex_reduce cd /<>/build_ssse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_reduce.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o -o ffindex_reduce libffindex.a make[4]: Leaving directory '/<>/build_ssse3' [ 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_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_ssse3 /<>/build_ssse3/lib/ffindex/src /<>/build_ssse3/lib/ffindex/src/CMakeFiles/ffindex_build.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_ssse3' make -f lib/ffindex/src/CMakeFiles/ffindex_build.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_build.dir/build make[4]: Entering directory '/<>/build_ssse3' [ 22%] Building C object lib/ffindex/src/CMakeFiles/ffindex_build.dir/ffindex_build.c.o cd /<>/build_ssse3/lib/ffindex/src && /usr/bin/cc -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_build.c [ 23%] Linking C executable ffindex_build cd /<>/build_ssse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_build.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_build.dir/ffindex_build.c.o -o ffindex_build libffindex.a make[4]: Leaving directory '/<>/build_ssse3' [ 23%] 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_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_ssse3 /<>/build_ssse3/lib/ffindex/src /<>/build_ssse3/lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_ssse3' 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_ssse3' [ 24%] Building C object lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o cd /<>/build_ssse3/lib/ffindex/src && /usr/bin/cc -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_from_fasta.c [ 25%] Linking C executable ffindex_from_fasta cd /<>/build_ssse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_from_fasta.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o -o ffindex_from_fasta libffindex.a make[4]: Leaving directory '/<>/build_ssse3' [ 25%] 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_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_ssse3 /<>/build_ssse3/lib/ffindex/src /<>/build_ssse3/lib/ffindex/src/CMakeFiles/ffindex_get.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_ssse3' make -f lib/ffindex/src/CMakeFiles/ffindex_get.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_get.dir/build make[4]: Entering directory '/<>/build_ssse3' [ 26%] Building C object lib/ffindex/src/CMakeFiles/ffindex_get.dir/ffindex_get.c.o cd /<>/build_ssse3/lib/ffindex/src && /usr/bin/cc -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_get.c [ 27%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o cd /<>/build_ssse3/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/getopt_pp.cc [ 28%] Linking C executable ffindex_get cd /<>/build_ssse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_get.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_get.dir/ffindex_get.c.o -o ffindex_get libffindex.a make[4]: Leaving directory '/<>/build_ssse3' [ 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_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_ssse3 /<>/build_ssse3/lib/ffindex/src /<>/build_ssse3/lib/ffindex/src/CMakeFiles/ffindex_modify.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_ssse3' make -f lib/ffindex/src/CMakeFiles/ffindex_modify.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_modify.dir/build make[4]: Entering directory '/<>/build_ssse3' [ 29%] Building C object lib/ffindex/src/CMakeFiles/ffindex_modify.dir/ffindex_modify.c.o cd /<>/build_ssse3/lib/ffindex/src && /usr/bin/cc -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_modify.c [ 30%] Linking C executable ffindex_modify cd /<>/build_ssse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_modify.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_modify.dir/ffindex_modify.c.o -o ffindex_modify libffindex.a make[4]: Leaving directory '/<>/build_ssse3' [ 30%] Built target ffindex_modify make -f lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/depend make[4]: Entering directory '/<>/build_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_ssse3 /<>/build_ssse3/lib/ffindex/src /<>/build_ssse3/lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_ssse3' make -f lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/build make[4]: Entering directory '/<>/build_ssse3' [ 31%] Building C object lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/ffindex_unpack.c.o cd /<>/build_ssse3/lib/ffindex/src && /usr/bin/cc -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_unpack.c [ 32%] Linking C executable ffindex_unpack cd /<>/build_ssse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_unpack.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_unpack.dir/ffindex_unpack.c.o -o ffindex_unpack libffindex.a make[4]: Leaving directory '/<>/build_ssse3' [ 32%] 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_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_ssse3 /<>/build_ssse3/lib/ffindex/src /<>/build_ssse3/lib/ffindex/src/CMakeFiles/ffindex_order.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_ssse3' make -f lib/ffindex/src/CMakeFiles/ffindex_order.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_order.dir/build make[4]: Entering directory '/<>/build_ssse3' [ 33%] Building C object lib/ffindex/src/CMakeFiles/ffindex_order.dir/ffindex_order.c.o cd /<>/build_ssse3/lib/ffindex/src && /usr/bin/cc -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_order.c [ 34%] Linking C executable ffindex_order cd /<>/build_ssse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_order.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_order.dir/ffindex_order.c.o -o ffindex_order libffindex.a make[4]: Leaving directory '/<>/build_ssse3' [ 34%] 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_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_ssse3 /<>/build_ssse3/lib/ffindex/src /<>/build_ssse3/lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_ssse3' 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_ssse3' [ 35%] Building C object lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/ffindex_from_fasta_with_split.c.o cd /<>/build_ssse3/lib/ffindex/src && /usr/bin/cc -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_from_fasta_with_split.c [ 36%] Linking C executable ffindex_from_fasta_with_split cd /<>/build_ssse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_from_fasta_with_split.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic 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_ssse3' [ 36%] Built target ffindex_from_fasta_with_split make -f src/CMakeFiles/a3m_extract-ssse3.dir/build.make src/CMakeFiles/a3m_extract-ssse3.dir/depend make[4]: Entering directory '/<>/build_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_ssse3 /<>/build_ssse3/src /<>/build_ssse3/src/CMakeFiles/a3m_extract-ssse3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_ssse3' make -f src/CMakeFiles/a3m_extract-ssse3.dir/build.make src/CMakeFiles/a3m_extract-ssse3.dir/build make[4]: Entering directory '/<>/build_ssse3' [ 37%] Building CXX object src/CMakeFiles/a3m_extract-ssse3.dir/a3m_extract.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/a3m_extract.cpp [ 38%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/log.cc.o cd /<>/build_ssse3/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -g -O2 -ffile-prefix-map=/<>=. -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/log.cc.o -MF CMakeFiles/CS_OBJECTS.dir/log.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/log.cc.o -c /<>/src/cs/log.cc [ 39%] Linking CXX executable a3m_extract-ssse3 cd /<>/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_extract-ssse3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_ssse3' [ 39%] 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_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_ssse3 /<>/build_ssse3/src /<>/build_ssse3/src/CMakeFiles/a3m_reduce-ssse3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_ssse3' make -f src/CMakeFiles/a3m_reduce-ssse3.dir/build.make src/CMakeFiles/a3m_reduce-ssse3.dir/build make[4]: Entering directory '/<>/build_ssse3' [ 40%] Building CXX object src/CMakeFiles/a3m_reduce-ssse3.dir/a3m_reduce.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/a3m_reduce.cpp [ 41%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/application.cc.o cd /<>/build_ssse3/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/application.cc [ 42%] Linking CXX executable a3m_reduce-ssse3 cd /<>/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_reduce-ssse3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_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_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_ssse3 /<>/build_ssse3/src /<>/build_ssse3/src/CMakeFiles/a3m_database_reduce-ssse3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_ssse3' [ 43%] Building CXX object src/CMakeFiles/a3m_database_reduce-ssse3.dir/a3m_database_reduce.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/a3m_database_reduce.cpp [ 44%] Linking CXX executable a3m_database_reduce-ssse3 cd /<>/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_reduce-ssse3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_ssse3' [ 44%] Built target a3m_database_reduce-ssse3 make -f src/CMakeFiles/a3m_database_extract-ssse3.dir/build.make src/CMakeFiles/a3m_database_extract-ssse3.dir/depend make[4]: Entering directory '/<>/build_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_ssse3 /<>/build_ssse3/src /<>/build_ssse3/src/CMakeFiles/a3m_database_extract-ssse3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_ssse3' [ 45%] Building CXX object src/CMakeFiles/a3m_database_extract-ssse3.dir/a3m_database_extract.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/a3m_database_extract.cpp [ 46%] Linking CXX static library libCS_OBJECTS.a cd /<>/build_ssse3/src/cs && /usr/bin/cmake -P CMakeFiles/CS_OBJECTS.dir/cmake_clean_target.cmake cd /<>/build_ssse3/src/cs && /usr/bin/cmake -E cmake_link_script CMakeFiles/CS_OBJECTS.dir/link.txt --verbose=1 /usr/bin/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/ranlib libCS_OBJECTS.a make[4]: Leaving directory '/<>/build_ssse3' [ 46%] Built target CS_OBJECTS make -f src/CMakeFiles/a3m_database_filter-ssse3.dir/build.make src/CMakeFiles/a3m_database_filter-ssse3.dir/depend make[4]: Entering directory '/<>/build_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_ssse3 /<>/build_ssse3/src /<>/build_ssse3/src/CMakeFiles/a3m_database_filter-ssse3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_ssse3' [ 47%] Building CXX object src/CMakeFiles/a3m_database_filter-ssse3.dir/a3m_database_filter.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/a3m_database_filter.cpp [ 48%] Linking CXX executable a3m_database_extract-ssse3 cd /<>/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_extract-ssse3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_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_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_ssse3 /<>/build_ssse3/src /<>/build_ssse3/src/CMakeFiles/HH_OBJECTS.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_ssse3' make -f src/CMakeFiles/HH_OBJECTS.dir/build.make src/CMakeFiles/HH_OBJECTS.dir/build make[4]: Entering directory '/<>/build_ssse3' [ 49%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o -c /<>/src/hhblits.cpp [ 50%] Linking CXX executable a3m_database_filter-ssse3 cd /<>/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_filter-ssse3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "CMakeFiles/a3m_database_filter-ssse3.dir/a3m_database_filter.cpp.o" -o a3m_database_filter-ssse3 ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a make[4]: Leaving directory '/<>/build_ssse3' [ 50%] Built target a3m_database_filter-ssse3 [ 51%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhdecl.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhdecl.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhdecl.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhdecl.cpp.o -c /<>/src/hhdecl.cpp [ 52%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhhit.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o -c /<>/src/hhhit.cpp [ 53%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhmatrices.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o -c /<>/src/hhmatrices.cpp [ 54%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhsearch.cpp [ 55%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhalign.cpp [ 56%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhhitlist.cpp [ 57%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhposteriordecoder.cpp [ 58%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhutil.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o -c /<>/src/hhutil.cpp [ 59%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/util.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/util.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/util.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/util.cpp.o -c /<>/src/util.cpp [ 60%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhalignment.cpp [ 61%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhforwardalgorithm.cpp [ 62%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhhmm.cpp /<>/src/hhalignment.cpp: In member function ‘int Alignment::Filter2(char*, int, int, float, int, int, int, const float (*)[20])’: /<>/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:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /<>/src/hhalignment.h:6, from /<>/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 /<>/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_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhposteriordecoderrunner.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhposteriordecoderrunner.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhposteriordecoderrunner.cpp.o -c /<>/src/hhposteriordecoderrunner.cpp [ 64%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbialgorithm.cpp [ 65%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhfullalignment.cpp [ 66%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhhmmsimd.cpp [ 67%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhposteriormatrix.cpp [ 68%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbi.cpp [ 69%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhbacktracemac.cpp [ 70%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhmacalgorithm.cpp [ 71%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhprefilter.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhprefilter.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhprefilter.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhprefilter.cpp.o -c /<>/src/hhprefilter.cpp [ 72%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbimatrix.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbimatrix.cpp [ 73%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhbackwardalgorithm.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhbackwardalgorithm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhbackwardalgorithm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhbackwardalgorithm.cpp.o -c /<>/src/hhbackwardalgorithm.cpp [ 74%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/ffindexdatabase.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/ffindexdatabase.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/ffindexdatabase.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/ffindexdatabase.cpp.o -c /<>/src/ffindexdatabase.cpp [ 75%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhdatabase.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhdatabase.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhdatabase.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhdatabase.cpp.o -c /<>/src/hhdatabase.cpp [ 76%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhhalfalignment.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o -c /<>/src/hhhalfalignment.cpp [ 77%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbirunner.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhviterbirunner.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhviterbirunner.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhviterbirunner.cpp.o -c /<>/src/hhviterbirunner.cpp [ 78%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhfunc.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o -c /<>/src/hhfunc.cpp [ 79%] Linking CXX static library libHH_OBJECTS.a cd /<>/build_ssse3/src && /usr/bin/cmake -P CMakeFiles/HH_OBJECTS.dir/cmake_clean_target.cmake cd /<>/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/HH_OBJECTS.dir/link.txt --verbose=1 /usr/bin/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/ranlib libHH_OBJECTS.a make[4]: Leaving directory '/<>/build_ssse3' [ 79%] Built target HH_OBJECTS make -f src/CMakeFiles/hhblits-ssse3.dir/build.make src/CMakeFiles/hhblits-ssse3.dir/depend make -f src/CMakeFiles/hhmake-ssse3.dir/build.make src/CMakeFiles/hhmake-ssse3.dir/depend make[4]: Entering directory '/<>/build_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_ssse3 /<>/build_ssse3/src /<>/build_ssse3/src/CMakeFiles/hhmake-ssse3.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/build_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_ssse3 /<>/build_ssse3/src /<>/build_ssse3/src/CMakeFiles/hhblits-ssse3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_ssse3' make[4]: Leaving directory '/<>/build_ssse3' make -f src/CMakeFiles/hhmake-ssse3.dir/build.make src/CMakeFiles/hhmake-ssse3.dir/build make -f src/CMakeFiles/hhblits-ssse3.dir/build.make src/CMakeFiles/hhblits-ssse3.dir/build make[4]: Entering directory '/<>/build_ssse3' make[4]: Entering directory '/<>/build_ssse3' [ 80%] Building CXX object src/CMakeFiles/hhblits-ssse3.dir/hhblits_app.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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-ssse3.dir/hhblits_app.cpp.o -MF CMakeFiles/hhblits-ssse3.dir/hhblits_app.cpp.o.d -o CMakeFiles/hhblits-ssse3.dir/hhblits_app.cpp.o -c /<>/src/hhblits_app.cpp [ 81%] Building CXX object src/CMakeFiles/hhmake-ssse3.dir/hhmake.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhmake-ssse3.dir/hhmake.cpp.o -MF CMakeFiles/hhmake-ssse3.dir/hhmake.cpp.o.d -o CMakeFiles/hhmake-ssse3.dir/hhmake.cpp.o -c /<>/src/hhmake.cpp [ 82%] Linking CXX executable hhblits-ssse3 cd /<>/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhblits-ssse3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "CMakeFiles/hhblits-ssse3.dir/hhblits_app.cpp.o" -o hhblits-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_ssse3' [ 82%] Built target hhblits-ssse3 make -f src/CMakeFiles/hhfilter-ssse3.dir/build.make src/CMakeFiles/hhfilter-ssse3.dir/depend make[4]: Entering directory '/<>/build_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_ssse3 /<>/build_ssse3/src /<>/build_ssse3/src/CMakeFiles/hhfilter-ssse3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_ssse3' make -f src/CMakeFiles/hhfilter-ssse3.dir/build.make src/CMakeFiles/hhfilter-ssse3.dir/build make[4]: Entering directory '/<>/build_ssse3' [ 83%] Building CXX object src/CMakeFiles/hhfilter-ssse3.dir/hhfilter.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhfilter.cpp [ 84%] Linking CXX executable hhmake-ssse3 cd /<>/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhmake-ssse3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "CMakeFiles/hhmake-ssse3.dir/hhmake.cpp.o" -o hhmake-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_ssse3' [ 84%] Built target hhmake-ssse3 make -f src/CMakeFiles/hhsearch-ssse3.dir/build.make src/CMakeFiles/hhsearch-ssse3.dir/depend make[4]: Entering directory '/<>/build_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_ssse3 /<>/build_ssse3/src /<>/build_ssse3/src/CMakeFiles/hhsearch-ssse3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_ssse3' make -f src/CMakeFiles/hhsearch-ssse3.dir/build.make src/CMakeFiles/hhsearch-ssse3.dir/build make[4]: Entering directory '/<>/build_ssse3' [ 85%] Building CXX object src/CMakeFiles/hhsearch-ssse3.dir/hhblits_app.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhblits_app.cpp [ 86%] Linking CXX executable hhsearch-ssse3 cd /<>/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhsearch-ssse3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_ssse3' [ 87%] Linking CXX executable hhfilter-ssse3 cd /<>/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhfilter-ssse3.dir/link.txt --verbose=1 [ 87%] Built target hhsearch-ssse3 make -f src/CMakeFiles/hhalign-ssse3.dir/build.make src/CMakeFiles/hhalign-ssse3.dir/depend make[4]: Entering directory '/<>/build_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_ssse3 /<>/build_ssse3/src /<>/build_ssse3/src/CMakeFiles/hhalign-ssse3.dir/DependInfo.cmake "--color=" /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_ssse3' make -f src/CMakeFiles/hhalign-ssse3.dir/build.make src/CMakeFiles/hhalign-ssse3.dir/build make[4]: Entering directory '/<>/build_ssse3' [ 88%] Building CXX object src/CMakeFiles/hhalign-ssse3.dir/hhblits_app.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhblits_app.cpp make[4]: Leaving directory '/<>/build_ssse3' [ 88%] Built target hhfilter-ssse3 make -f src/CMakeFiles/hhconsensus-ssse3.dir/build.make src/CMakeFiles/hhconsensus-ssse3.dir/depend make[4]: Entering directory '/<>/build_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_ssse3 /<>/build_ssse3/src /<>/build_ssse3/src/CMakeFiles/hhconsensus-ssse3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_ssse3' make -f src/CMakeFiles/hhconsensus-ssse3.dir/build.make src/CMakeFiles/hhconsensus-ssse3.dir/build make[4]: Entering directory '/<>/build_ssse3' [ 89%] Building CXX object src/CMakeFiles/hhconsensus-ssse3.dir/hhconsensus.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhconsensus.cpp [ 90%] Linking CXX executable hhalign-ssse3 cd /<>/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhalign-ssse3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_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_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_ssse3 /<>/build_ssse3/src /<>/build_ssse3/src/CMakeFiles/cstranslate-ssse3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_ssse3' make -f src/CMakeFiles/cstranslate-ssse3.dir/build.make src/CMakeFiles/cstranslate-ssse3.dir/build make[4]: Entering directory '/<>/build_ssse3' [ 91%] Building CXX object src/CMakeFiles/cstranslate-ssse3.dir/cs/cstranslate_app.cc.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/cstranslate_app.cc [ 92%] Linking CXX executable hhconsensus-ssse3 cd /<>/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhconsensus-ssse3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_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_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_ssse3 /<>/build_ssse3/src /<>/build_ssse3/src/CMakeFiles/hhblits_omp-ssse3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_ssse3' make -f src/CMakeFiles/hhblits_omp-ssse3.dir/build.make src/CMakeFiles/hhblits_omp-ssse3.dir/build make[4]: Entering directory '/<>/build_ssse3' [ 93%] Building CXX object src/CMakeFiles/hhblits_omp-ssse3.dir/hhblits_omp.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhblits_omp.cpp /<>/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /<>/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:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /<>/src/hhblits.h:11, from /<>/src/hhsearch.h:34, from /<>/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /<>/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /<>/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:54:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 94%] Linking CXX executable hhblits_omp-ssse3 cd /<>/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhblits_omp-ssse3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_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_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_ssse3 /<>/build_ssse3/src /<>/build_ssse3/src/CMakeFiles/hhsearch_omp-ssse3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_ssse3' make -f src/CMakeFiles/hhsearch_omp-ssse3.dir/build.make src/CMakeFiles/hhsearch_omp-ssse3.dir/build make[4]: Entering directory '/<>/build_ssse3' [ 95%] Building CXX object src/CMakeFiles/hhsearch_omp-ssse3.dir/hhblits_omp.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhblits_omp.cpp /<>/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /<>/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:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /<>/src/hhblits.h:11, from /<>/src/hhsearch.h:34, from /<>/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /<>/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /<>/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:54:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 96%] Linking CXX executable hhsearch_omp-ssse3 cd /<>/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhsearch_omp-ssse3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_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_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_ssse3 /<>/build_ssse3/src /<>/build_ssse3/src/CMakeFiles/hhalign_omp-ssse3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_ssse3' make -f src/CMakeFiles/hhalign_omp-ssse3.dir/build.make src/CMakeFiles/hhalign_omp-ssse3.dir/build make[4]: Entering directory '/<>/build_ssse3' [ 97%] Building CXX object src/CMakeFiles/hhalign_omp-ssse3.dir/hhblits_omp.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhblits_omp.cpp /<>/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /<>/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:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /<>/src/hhblits.h:11, from /<>/src/hhsearch.h:34, from /<>/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /<>/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /<>/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:54:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 98%] Linking CXX executable hhalign_omp-ssse3 cd /<>/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhalign_omp-ssse3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_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_ssse3' cd /<>/build_ssse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_ssse3 /<>/build_ssse3/src /<>/build_ssse3/src/CMakeFiles/hhblits_ca3m-ssse3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_ssse3' make -f src/CMakeFiles/hhblits_ca3m-ssse3.dir/build.make src/CMakeFiles/hhblits_ca3m-ssse3.dir/build make[4]: Entering directory '/<>/build_ssse3' [ 99%] Building CXX object src/CMakeFiles/hhblits_ca3m-ssse3.dir/hhblits_ca3m.cpp.o cd /<>/build_ssse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_ssse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_ssse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhblits_ca3m.cpp /<>/src/hhblits_ca3m.cpp: In function ‘int main(int, const char**)’: /<>/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:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /<>/src/hhblits.h:11, from /<>/src/hhblits_ca3m.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /<>/src/hhblits_ca3m.cpp:24:15, inlined from ‘int main(int, const char**)’ at /<>/src/hhblits_ca3m.cpp:358:29: /usr/include/x86_64-linux-gnu/bits/stdio2.h:54:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [100%] Linking CXX executable hhblits_ca3m-ssse3 cd /<>/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhblits_ca3m-ssse3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_ssse3' [100%] Built target hhblits_ca3m-ssse3 [100%] Linking CXX executable cstranslate-ssse3 cd /<>/build_ssse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/cstranslate-ssse3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_ssse3' [100%] Built target cstranslate-ssse3 make[3]: Leaving directory '/<>/build_ssse3' /usr/bin/cmake -E cmake_progress_start /<>/build_ssse3/CMakeFiles 0 make[2]: Leaving directory '/<>/build_ssse3' cd build_sse3 && make -j2 "INSTALL=install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/<>/build_sse3' /usr/bin/cmake -S/<> -B/<>/build_sse3 --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /<>/build_sse3/CMakeFiles /<>/build_sse3//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/<>/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_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/data /<>/build_sse3 /<>/build_sse3/data /<>/build_sse3/data/CMakeFiles/generated.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/build_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_sse3 /<>/build_sse3/lib/ffindex/src /<>/build_sse3/lib/ffindex/src/CMakeFiles/ffindex.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse3' make -f lib/ffindex/src/CMakeFiles/ffindex.dir/build.make lib/ffindex/src/CMakeFiles/ffindex.dir/build make[4]: Entering directory '/<>/build_sse3' make[4]: Leaving directory '/<>/build_sse3' make -f data/CMakeFiles/generated.dir/build.make data/CMakeFiles/generated.dir/build make[4]: Entering directory '/<>/build_sse3' [ 1%] Generating ../generated/context_data.crf.h cd /<>/data && mkdir -p /<>/build_sse3/generated [ 2%] Building C object lib/ffindex/src/CMakeFiles/ffindex.dir/ffindex.c.o cd /<>/build_sse3/lib/ffindex/src && /usr/bin/cc -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex.c cd /<>/data && /<>/cmake/xxdi.pl context_data.crf > /<>/build_sse3/generated/context_data.crf.h [ 3%] Building C object lib/ffindex/src/CMakeFiles/ffindex.dir/ffutil.c.o cd /<>/build_sse3/lib/ffindex/src && /usr/bin/cc -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffutil.c [ 4%] Linking C static library libffindex.a cd /<>/build_sse3/lib/ffindex/src && /usr/bin/cmake -P CMakeFiles/ffindex.dir/cmake_clean_target.cmake cd /<>/build_sse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex.dir/link.txt --verbose=1 /usr/bin/ar qc libffindex.a CMakeFiles/ffindex.dir/ffindex.c.o CMakeFiles/ffindex.dir/ffutil.c.o /usr/bin/ranlib libffindex.a make[4]: Leaving directory '/<>/build_sse3' [ 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_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse3 /<>/build_sse3/src /<>/build_sse3/src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse3' make -f src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/build make[4]: Entering directory '/<>/build_sse3' [ 5%] Building CXX object src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbialgorithm.cpp [ 6%] Linking CXX static library libhhviterbialgorithm_with_celloff.a cd /<>/build_sse3/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_with_celloff.dir/cmake_clean_target.cmake cd /<>/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_with_celloff.dir/link.txt --verbose=1 /usr/bin/ar qc libhhviterbialgorithm_with_celloff.a CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o /usr/bin/ranlib libhhviterbialgorithm_with_celloff.a make[4]: Leaving directory '/<>/build_sse3' [ 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_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse3 /<>/build_sse3/src /<>/build_sse3/src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_sse3' [ 7%] Building CXX object src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbialgorithm.cpp cd /<>/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /<>/build_sse3/generated/context_data.crf.h > /<>/build_sse3/generated/context_data.crf.h.tmp cd /<>/data && mv -f /<>/build_sse3/generated/context_data.crf.h.tmp /<>/build_sse3/generated/context_data.crf.h [ 8%] Generating ../generated/context_data.lib.h cd /<>/data && mkdir -p /<>/build_sse3/generated cd /<>/data && /<>/cmake/xxdi.pl context_data.lib > /<>/build_sse3/generated/context_data.lib.h [ 9%] Linking CXX static library libhhviterbialgorithm_with_celloff_and_ss.a cd /<>/build_sse3/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/cmake_clean_target.cmake cd /<>/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/link.txt --verbose=1 /usr/bin/ar qc libhhviterbialgorithm_with_celloff_and_ss.a CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o /usr/bin/ranlib libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/<>/build_sse3' [ 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_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse3 /<>/build_sse3/src /<>/build_sse3/src/CMakeFiles/hhviterbialgorithm_and_ss.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse3' make -f src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build make[4]: Entering directory '/<>/build_sse3' [ 10%] Building CXX object src/CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbialgorithm.cpp [ 11%] Linking CXX static library libhhviterbialgorithm_and_ss.a cd /<>/build_sse3/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_and_ss.dir/cmake_clean_target.cmake cd /<>/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_and_ss.dir/link.txt --verbose=1 /usr/bin/ar qc libhhviterbialgorithm_and_ss.a CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o /usr/bin/ranlib libhhviterbialgorithm_and_ss.a make[4]: Leaving directory '/<>/build_sse3' [ 11%] 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_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src/cs /<>/build_sse3 /<>/build_sse3/src/cs /<>/build_sse3/src/cs/CMakeFiles/CS_OBJECTS.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse3' make -f src/cs/CMakeFiles/CS_OBJECTS.dir/build.make src/cs/CMakeFiles/CS_OBJECTS.dir/build make[4]: Entering directory '/<>/build_sse3' [ 12%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/aa.cc.o cd /<>/build_sse3/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/aa.cc cd /<>/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /<>/build_sse3/generated/context_data.lib.h > /<>/build_sse3/generated/context_data.lib.h.tmp [ 13%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/as.cc.o cd /<>/build_sse3/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/as.cc cd /<>/data && mv -f /<>/build_sse3/generated/context_data.lib.h.tmp /<>/build_sse3/generated/context_data.lib.h [ 14%] Generating ../generated/cs219.lib.h cd /<>/data && mkdir -p /<>/build_sse3/generated cd /<>/data && /<>/cmake/xxdi.pl cs219.lib > /<>/build_sse3/generated/cs219.lib.h cd /<>/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /<>/build_sse3/generated/cs219.lib.h > /<>/build_sse3/generated/cs219.lib.h.tmp cd /<>/data && mv -f /<>/build_sse3/generated/cs219.lib.h.tmp /<>/build_sse3/generated/cs219.lib.h make[4]: Leaving directory '/<>/build_sse3' [ 14%] Built target generated make -f src/CMakeFiles/A3M_COMPRESS.dir/build.make src/CMakeFiles/A3M_COMPRESS.dir/depend make[4]: Entering directory '/<>/build_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse3 /<>/build_sse3/src /<>/build_sse3/src/CMakeFiles/A3M_COMPRESS.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse3' make -f src/CMakeFiles/A3M_COMPRESS.dir/build.make src/CMakeFiles/A3M_COMPRESS.dir/build make[4]: Entering directory '/<>/build_sse3' [ 14%] Building CXX object src/CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/a3m_compress.cpp /<>/src/a3m_compress.cpp: In function ‘std::string& rtrim(std::string&)’: /<>/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++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /<>/src/a3m_compress.h:11, from /<>/src/a3m_compress.cpp:8: /usr/include/c++/14/bits/stl_function.h:1123:5: note: declared here 1123 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ [ 15%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o cd /<>/build_sse3/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/assert_helpers.cc [ 16%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o cd /<>/build_sse3/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/blosum_matrix.cc [ 17%] Linking CXX static library libA3M_COMPRESS.a cd /<>/build_sse3/src && /usr/bin/cmake -P CMakeFiles/A3M_COMPRESS.dir/cmake_clean_target.cmake cd /<>/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/A3M_COMPRESS.dir/link.txt --verbose=1 /usr/bin/ar qc libA3M_COMPRESS.a CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o /usr/bin/ranlib libA3M_COMPRESS.a make[4]: Leaving directory '/<>/build_sse3' [ 17%] Built target A3M_COMPRESS [ 18%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o cd /<>/build_sse3/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/getopt_pp.cc [ 19%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/log.cc.o cd /<>/build_sse3/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/log.cc [ 20%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/application.cc.o cd /<>/build_sse3/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -g -O2 -ffile-prefix-map=/<>=. -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/application.cc.o -MF CMakeFiles/CS_OBJECTS.dir/application.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/application.cc.o -c /<>/src/cs/application.cc make -f lib/ffindex/src/CMakeFiles/ffindex_apply.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_apply.dir/depend make[4]: Entering directory '/<>/build_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_sse3 /<>/build_sse3/lib/ffindex/src /<>/build_sse3/lib/ffindex/src/CMakeFiles/ffindex_apply.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_sse3' [ 21%] Building C object lib/ffindex/src/CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o cd /<>/build_sse3/lib/ffindex/src && /usr/bin/cc -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_apply_mpi.c /<>/lib/ffindex/src/ffindex_apply_mpi.c: In function ‘ffindex_apply_by_entry’: /<>/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 [ 22%] Linking C executable ffindex_apply cd /<>/build_sse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_apply.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o -o ffindex_apply libffindex.a make[4]: Leaving directory '/<>/build_sse3' [ 22%] 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_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_sse3 /<>/build_sse3/lib/ffindex/src /<>/build_sse3/lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_sse3' [ 23%] Building C object lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o cd /<>/build_sse3/lib/ffindex/src && /usr/bin/cc -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_reduce.c [ 24%] Linking C executable ffindex_reduce cd /<>/build_sse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_reduce.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o -o ffindex_reduce libffindex.a make[4]: Leaving directory '/<>/build_sse3' [ 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_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_sse3 /<>/build_sse3/lib/ffindex/src /<>/build_sse3/lib/ffindex/src/CMakeFiles/ffindex_build.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_sse3' [ 25%] Building C object lib/ffindex/src/CMakeFiles/ffindex_build.dir/ffindex_build.c.o cd /<>/build_sse3/lib/ffindex/src && /usr/bin/cc -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_build.c [ 26%] Linking C executable ffindex_build cd /<>/build_sse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_build.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_build.dir/ffindex_build.c.o -o ffindex_build libffindex.a make[4]: Leaving directory '/<>/build_sse3' [ 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_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_sse3 /<>/build_sse3/lib/ffindex/src /<>/build_sse3/lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_sse3' [ 27%] Building C object lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o cd /<>/build_sse3/lib/ffindex/src && /usr/bin/cc -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_from_fasta.c [ 28%] Linking CXX static library libCS_OBJECTS.a cd /<>/build_sse3/src/cs && /usr/bin/cmake -P CMakeFiles/CS_OBJECTS.dir/cmake_clean_target.cmake cd /<>/build_sse3/src/cs && /usr/bin/cmake -E cmake_link_script CMakeFiles/CS_OBJECTS.dir/link.txt --verbose=1 /usr/bin/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/ranlib libCS_OBJECTS.a make[4]: Leaving directory '/<>/build_sse3' [ 28%] Built target CS_OBJECTS make -f lib/ffindex/src/CMakeFiles/ffindex_get.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_get.dir/depend make[4]: Entering directory '/<>/build_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_sse3 /<>/build_sse3/lib/ffindex/src /<>/build_sse3/lib/ffindex/src/CMakeFiles/ffindex_get.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_sse3' [ 29%] Linking C executable ffindex_from_fasta cd /<>/build_sse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_from_fasta.dir/link.txt --verbose=1 [ 30%] Building C object lib/ffindex/src/CMakeFiles/ffindex_get.dir/ffindex_get.c.o cd /<>/build_sse3/lib/ffindex/src && /usr/bin/cc -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_get.c /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o -o ffindex_from_fasta libffindex.a make[4]: Leaving directory '/<>/build_sse3' [ 31%] Linking C executable ffindex_get cd /<>/build_sse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_get.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_get.dir/ffindex_get.c.o -o ffindex_get libffindex.a [ 31%] Built target ffindex_from_fasta make -f lib/ffindex/src/CMakeFiles/ffindex_modify.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_modify.dir/depend make[4]: Entering directory '/<>/build_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_sse3 /<>/build_sse3/lib/ffindex/src /<>/build_sse3/lib/ffindex/src/CMakeFiles/ffindex_modify.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse3' make[4]: Leaving directory '/<>/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_sse3' [ 31%] Built target ffindex_get make -f lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/depend make[4]: Entering directory '/<>/build_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_sse3 /<>/build_sse3/lib/ffindex/src /<>/build_sse3/lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/DependInfo.cmake "--color=" [ 32%] Building C object lib/ffindex/src/CMakeFiles/ffindex_modify.dir/ffindex_modify.c.o cd /<>/build_sse3/lib/ffindex/src && /usr/bin/cc -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_modify.c make[4]: Leaving directory '/<>/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_sse3' [ 33%] Building C object lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/ffindex_unpack.c.o cd /<>/build_sse3/lib/ffindex/src && /usr/bin/cc -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_unpack.c [ 34%] Linking C executable ffindex_modify cd /<>/build_sse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_modify.dir/link.txt --verbose=1 [ 35%] Linking C executable ffindex_unpack cd /<>/build_sse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_unpack.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_modify.dir/ffindex_modify.c.o -o ffindex_modify libffindex.a /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_unpack.dir/ffindex_unpack.c.o -o ffindex_unpack libffindex.a make[4]: Leaving directory '/<>/build_sse3' [ 35%] Built target ffindex_modify make -f lib/ffindex/src/CMakeFiles/ffindex_order.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_order.dir/depend make[4]: Entering directory '/<>/build_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_sse3 /<>/build_sse3/lib/ffindex/src /<>/build_sse3/lib/ffindex/src/CMakeFiles/ffindex_order.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse3' [ 35%] Built target ffindex_unpack 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]: Leaving directory '/<>/build_sse3' make -f lib/ffindex/src/CMakeFiles/ffindex_order.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_order.dir/build make[4]: Entering directory '/<>/build_sse3' make[4]: Entering directory '/<>/build_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_sse3 /<>/build_sse3/lib/ffindex/src /<>/build_sse3/lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/DependInfo.cmake "--color=" [ 36%] Building C object lib/ffindex/src/CMakeFiles/ffindex_order.dir/ffindex_order.c.o make[4]: Leaving directory '/<>/build_sse3' 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 cd /<>/build_sse3/lib/ffindex/src && /usr/bin/cc -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_order.c make[4]: Entering directory '/<>/build_sse3' [ 37%] Building C object lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/ffindex_from_fasta_with_split.c.o cd /<>/build_sse3/lib/ffindex/src && /usr/bin/cc -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_from_fasta_with_split.c [ 38%] Linking C executable ffindex_order cd /<>/build_sse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_order.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_order.dir/ffindex_order.c.o -o ffindex_order libffindex.a [ 39%] Linking C executable ffindex_from_fasta_with_split cd /<>/build_sse3/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_from_fasta_with_split.dir/link.txt --verbose=1 make[4]: Leaving directory '/<>/build_sse3' /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_from_fasta_with_split.dir/ffindex_from_fasta_with_split.c.o -o ffindex_from_fasta_with_split libffindex.a [ 39%] Built target ffindex_order make -f src/CMakeFiles/HH_OBJECTS.dir/build.make src/CMakeFiles/HH_OBJECTS.dir/depend make[4]: Entering directory '/<>/build_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse3 /<>/build_sse3/src /<>/build_sse3/src/CMakeFiles/HH_OBJECTS.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse3' make -f src/CMakeFiles/HH_OBJECTS.dir/build.make src/CMakeFiles/HH_OBJECTS.dir/build make[4]: Entering directory '/<>/build_sse3' make[4]: Leaving directory '/<>/build_sse3' [ 40%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhblits.cpp [ 40%] Built target ffindex_from_fasta_with_split make -f src/CMakeFiles/a3m_extract-sse3.dir/build.make src/CMakeFiles/a3m_extract-sse3.dir/depend make[4]: Entering directory '/<>/build_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse3 /<>/build_sse3/src /<>/build_sse3/src/CMakeFiles/a3m_extract-sse3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse3' make -f src/CMakeFiles/a3m_extract-sse3.dir/build.make src/CMakeFiles/a3m_extract-sse3.dir/build make[4]: Entering directory '/<>/build_sse3' [ 41%] Building CXX object src/CMakeFiles/a3m_extract-sse3.dir/a3m_extract.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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_extract-sse3.dir/a3m_extract.cpp.o -MF CMakeFiles/a3m_extract-sse3.dir/a3m_extract.cpp.o.d -o CMakeFiles/a3m_extract-sse3.dir/a3m_extract.cpp.o -c /<>/src/a3m_extract.cpp [ 42%] Linking CXX executable a3m_extract-sse3 cd /<>/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_extract-sse3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_sse3' [ 42%] Built target a3m_extract-sse3 make -f src/CMakeFiles/a3m_reduce-sse3.dir/build.make src/CMakeFiles/a3m_reduce-sse3.dir/depend make[4]: Entering directory '/<>/build_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse3 /<>/build_sse3/src /<>/build_sse3/src/CMakeFiles/a3m_reduce-sse3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse3' make -f src/CMakeFiles/a3m_reduce-sse3.dir/build.make src/CMakeFiles/a3m_reduce-sse3.dir/build make[4]: Entering directory '/<>/build_sse3' [ 43%] Building CXX object src/CMakeFiles/a3m_reduce-sse3.dir/a3m_reduce.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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_reduce-sse3.dir/a3m_reduce.cpp.o -MF CMakeFiles/a3m_reduce-sse3.dir/a3m_reduce.cpp.o.d -o CMakeFiles/a3m_reduce-sse3.dir/a3m_reduce.cpp.o -c /<>/src/a3m_reduce.cpp [ 44%] Linking CXX executable a3m_reduce-sse3 cd /<>/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_reduce-sse3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "CMakeFiles/a3m_reduce-sse3.dir/a3m_reduce.cpp.o" -o a3m_reduce-sse3 ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a make[4]: Leaving directory '/<>/build_sse3' [ 44%] Built target a3m_reduce-sse3 [ 45%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhdecl.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhdecl.cpp [ 46%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhhit.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o -c /<>/src/hhhit.cpp [ 47%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhmatrices.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o -c /<>/src/hhmatrices.cpp [ 48%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhsearch.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o -c /<>/src/hhsearch.cpp [ 49%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhalign.cpp make -f src/CMakeFiles/a3m_database_reduce-sse3.dir/build.make src/CMakeFiles/a3m_database_reduce-sse3.dir/depend make[4]: Entering directory '/<>/build_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse3 /<>/build_sse3/src /<>/build_sse3/src/CMakeFiles/a3m_database_reduce-sse3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_sse3' [ 50%] Building CXX object src/CMakeFiles/a3m_database_reduce-sse3.dir/a3m_database_reduce.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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_reduce-sse3.dir/a3m_database_reduce.cpp.o -MF CMakeFiles/a3m_database_reduce-sse3.dir/a3m_database_reduce.cpp.o.d -o CMakeFiles/a3m_database_reduce-sse3.dir/a3m_database_reduce.cpp.o -c /<>/src/a3m_database_reduce.cpp [ 51%] Linking CXX executable a3m_database_reduce-sse3 cd /<>/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_reduce-sse3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_sse3' [ 51%] Built target a3m_database_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_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse3 /<>/build_sse3/src /<>/build_sse3/src/CMakeFiles/a3m_database_extract-sse3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_sse3' [ 52%] Building CXX object src/CMakeFiles/a3m_database_extract-sse3.dir/a3m_database_extract.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/a3m_database_extract.cpp [ 53%] Linking CXX executable a3m_database_extract-sse3 cd /<>/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_extract-sse3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "CMakeFiles/a3m_database_extract-sse3.dir/a3m_database_extract.cpp.o" -o a3m_database_extract-sse3 ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a [ 54%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhhitlist.cpp make[4]: Leaving directory '/<>/build_sse3' [ 54%] Built target a3m_database_extract-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_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse3 /<>/build_sse3/src /<>/build_sse3/src/CMakeFiles/a3m_database_filter-sse3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_sse3' [ 55%] Building CXX object src/CMakeFiles/a3m_database_filter-sse3.dir/a3m_database_filter.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/a3m_database_filter.cpp [ 56%] Linking CXX executable a3m_database_filter-sse3 cd /<>/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_filter-sse3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_sse3' [ 56%] Built target a3m_database_filter-sse3 [ 57%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhposteriordecoder.cpp [ 58%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhutil.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o -c /<>/src/hhutil.cpp [ 59%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/util.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/util.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/util.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/util.cpp.o -c /<>/src/util.cpp [ 60%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhalignment.cpp [ 61%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhforwardalgorithm.cpp [ 62%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhhmm.cpp /<>/src/hhalignment.cpp: In member function ‘int Alignment::Filter2(char*, int, int, float, int, int, int, const float (*)[20])’: /<>/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:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /<>/src/hhalignment.h:6, from /<>/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 /<>/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_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhposteriordecoderrunner.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhposteriordecoderrunner.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhposteriordecoderrunner.cpp.o -c /<>/src/hhposteriordecoderrunner.cpp [ 64%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbialgorithm.cpp [ 65%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhfullalignment.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o -c /<>/src/hhfullalignment.cpp [ 66%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhhmmsimd.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o -c /<>/src/hhhmmsimd.cpp [ 67%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhposteriormatrix.cpp [ 68%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbi.cpp [ 69%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhbacktracemac.cpp [ 70%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhmacalgorithm.cpp [ 71%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhprefilter.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhprefilter.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhprefilter.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhprefilter.cpp.o -c /<>/src/hhprefilter.cpp [ 72%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbimatrix.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 CMakeFiles/HH_OBJECTS.dir/hhviterbimatrix.cpp.o -c /<>/src/hhviterbimatrix.cpp [ 73%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhbackwardalgorithm.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhbackwardalgorithm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhbackwardalgorithm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhbackwardalgorithm.cpp.o -c /<>/src/hhbackwardalgorithm.cpp [ 74%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/ffindexdatabase.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/ffindexdatabase.cpp [ 75%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhdatabase.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhdatabase.cpp [ 76%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhhalfalignment.cpp [ 77%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbirunner.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbirunner.cpp [ 78%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhfunc.cpp [ 79%] Linking CXX static library libHH_OBJECTS.a cd /<>/build_sse3/src && /usr/bin/cmake -P CMakeFiles/HH_OBJECTS.dir/cmake_clean_target.cmake cd /<>/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/HH_OBJECTS.dir/link.txt --verbose=1 /usr/bin/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/ranlib libHH_OBJECTS.a make[4]: Leaving directory '/<>/build_sse3' [ 79%] Built target HH_OBJECTS make -f src/CMakeFiles/hhblits-sse3.dir/build.make src/CMakeFiles/hhblits-sse3.dir/depend make -f src/CMakeFiles/hhmake-sse3.dir/build.make src/CMakeFiles/hhmake-sse3.dir/depend make[4]: Entering directory '/<>/build_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse3 /<>/build_sse3/src /<>/build_sse3/src/CMakeFiles/hhblits-sse3.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/build_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse3 /<>/build_sse3/src /<>/build_sse3/src/CMakeFiles/hhmake-sse3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse3' make -f src/CMakeFiles/hhblits-sse3.dir/build.make src/CMakeFiles/hhblits-sse3.dir/build make[4]: Entering directory '/<>/build_sse3' make[4]: Leaving directory '/<>/build_sse3' make -f src/CMakeFiles/hhmake-sse3.dir/build.make src/CMakeFiles/hhmake-sse3.dir/build make[4]: Entering directory '/<>/build_sse3' [ 80%] Building CXX object src/CMakeFiles/hhblits-sse3.dir/hhblits_app.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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-sse3.dir/hhblits_app.cpp.o -MF CMakeFiles/hhblits-sse3.dir/hhblits_app.cpp.o.d -o CMakeFiles/hhblits-sse3.dir/hhblits_app.cpp.o -c /<>/src/hhblits_app.cpp [ 81%] Building CXX object src/CMakeFiles/hhmake-sse3.dir/hhmake.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhmake-sse3.dir/hhmake.cpp.o -MF CMakeFiles/hhmake-sse3.dir/hhmake.cpp.o.d -o CMakeFiles/hhmake-sse3.dir/hhmake.cpp.o -c /<>/src/hhmake.cpp [ 82%] Linking CXX executable hhblits-sse3 cd /<>/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhblits-sse3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "CMakeFiles/hhblits-sse3.dir/hhblits_app.cpp.o" -o hhblits-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_sse3' [ 82%] Built target hhblits-sse3 make -f src/CMakeFiles/hhfilter-sse3.dir/build.make src/CMakeFiles/hhfilter-sse3.dir/depend make[4]: Entering directory '/<>/build_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse3 /<>/build_sse3/src /<>/build_sse3/src/CMakeFiles/hhfilter-sse3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse3' make -f src/CMakeFiles/hhfilter-sse3.dir/build.make src/CMakeFiles/hhfilter-sse3.dir/build make[4]: Entering directory '/<>/build_sse3' [ 83%] Building CXX object src/CMakeFiles/hhfilter-sse3.dir/hhfilter.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhfilter.cpp [ 84%] Linking CXX executable hhmake-sse3 cd /<>/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhmake-sse3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "CMakeFiles/hhmake-sse3.dir/hhmake.cpp.o" -o hhmake-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_sse3' [ 84%] Built target hhmake-sse3 make -f src/CMakeFiles/hhsearch-sse3.dir/build.make src/CMakeFiles/hhsearch-sse3.dir/depend make[4]: Entering directory '/<>/build_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse3 /<>/build_sse3/src /<>/build_sse3/src/CMakeFiles/hhsearch-sse3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse3' make -f src/CMakeFiles/hhsearch-sse3.dir/build.make src/CMakeFiles/hhsearch-sse3.dir/build make[4]: Entering directory '/<>/build_sse3' [ 85%] Building CXX object src/CMakeFiles/hhsearch-sse3.dir/hhblits_app.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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-sse3.dir/hhblits_app.cpp.o -MF CMakeFiles/hhsearch-sse3.dir/hhblits_app.cpp.o.d -o CMakeFiles/hhsearch-sse3.dir/hhblits_app.cpp.o -c /<>/src/hhblits_app.cpp [ 86%] Linking CXX executable hhfilter-sse3 cd /<>/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhfilter-sse3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_sse3' [ 86%] Built target hhfilter-sse3 make -f src/CMakeFiles/hhalign-sse3.dir/build.make src/CMakeFiles/hhalign-sse3.dir/depend make[4]: Entering directory '/<>/build_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse3 /<>/build_sse3/src /<>/build_sse3/src/CMakeFiles/hhalign-sse3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse3' make -f src/CMakeFiles/hhalign-sse3.dir/build.make src/CMakeFiles/hhalign-sse3.dir/build make[4]: Entering directory '/<>/build_sse3' [ 87%] Building CXX object src/CMakeFiles/hhalign-sse3.dir/hhblits_app.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhblits_app.cpp [ 88%] Linking CXX executable hhsearch-sse3 cd /<>/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhsearch-sse3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "CMakeFiles/hhsearch-sse3.dir/hhblits_app.cpp.o" -o hhsearch-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_sse3' [ 88%] Built target hhsearch-sse3 make -f src/CMakeFiles/hhconsensus-sse3.dir/build.make src/CMakeFiles/hhconsensus-sse3.dir/depend make[4]: Entering directory '/<>/build_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse3 /<>/build_sse3/src /<>/build_sse3/src/CMakeFiles/hhconsensus-sse3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse3' make -f src/CMakeFiles/hhconsensus-sse3.dir/build.make src/CMakeFiles/hhconsensus-sse3.dir/build make[4]: Entering directory '/<>/build_sse3' [ 89%] Building CXX object src/CMakeFiles/hhconsensus-sse3.dir/hhconsensus.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhconsensus.cpp [ 90%] Linking CXX executable hhalign-sse3 cd /<>/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhalign-sse3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_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_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse3 /<>/build_sse3/src /<>/build_sse3/src/CMakeFiles/cstranslate-sse3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse3' make -f src/CMakeFiles/cstranslate-sse3.dir/build.make src/CMakeFiles/cstranslate-sse3.dir/build make[4]: Entering directory '/<>/build_sse3' [ 91%] Building CXX object src/CMakeFiles/cstranslate-sse3.dir/cs/cstranslate_app.cc.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/cstranslate_app.cc [ 92%] Linking CXX executable hhconsensus-sse3 cd /<>/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhconsensus-sse3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_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_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse3 /<>/build_sse3/src /<>/build_sse3/src/CMakeFiles/hhblits_omp-sse3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse3' make -f src/CMakeFiles/hhblits_omp-sse3.dir/build.make src/CMakeFiles/hhblits_omp-sse3.dir/build make[4]: Entering directory '/<>/build_sse3' [ 93%] Building CXX object src/CMakeFiles/hhblits_omp-sse3.dir/hhblits_omp.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhblits_omp.cpp /<>/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /<>/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:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /<>/src/hhblits.h:11, from /<>/src/hhsearch.h:34, from /<>/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /<>/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /<>/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:54:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 94%] Linking CXX executable hhblits_omp-sse3 cd /<>/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhblits_omp-sse3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_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_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse3 /<>/build_sse3/src /<>/build_sse3/src/CMakeFiles/hhsearch_omp-sse3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse3' make -f src/CMakeFiles/hhsearch_omp-sse3.dir/build.make src/CMakeFiles/hhsearch_omp-sse3.dir/build make[4]: Entering directory '/<>/build_sse3' [ 95%] Building CXX object src/CMakeFiles/hhsearch_omp-sse3.dir/hhblits_omp.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhblits_omp.cpp /<>/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /<>/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:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /<>/src/hhblits.h:11, from /<>/src/hhsearch.h:34, from /<>/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /<>/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /<>/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:54:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 96%] Linking CXX executable hhsearch_omp-sse3 cd /<>/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhsearch_omp-sse3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_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_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse3 /<>/build_sse3/src /<>/build_sse3/src/CMakeFiles/hhalign_omp-sse3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse3' make -f src/CMakeFiles/hhalign_omp-sse3.dir/build.make src/CMakeFiles/hhalign_omp-sse3.dir/build make[4]: Entering directory '/<>/build_sse3' [ 97%] Building CXX object src/CMakeFiles/hhalign_omp-sse3.dir/hhblits_omp.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhblits_omp.cpp /<>/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /<>/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:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /<>/src/hhblits.h:11, from /<>/src/hhsearch.h:34, from /<>/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /<>/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /<>/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:54:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 98%] Linking CXX executable hhalign_omp-sse3 cd /<>/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhalign_omp-sse3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_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_sse3' cd /<>/build_sse3 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_sse3 /<>/build_sse3/src /<>/build_sse3/src/CMakeFiles/hhblits_ca3m-sse3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_sse3' make -f src/CMakeFiles/hhblits_ca3m-sse3.dir/build.make src/CMakeFiles/hhblits_ca3m-sse3.dir/build make[4]: Entering directory '/<>/build_sse3' [ 99%] Building CXX object src/CMakeFiles/hhblits_ca3m-sse3.dir/hhblits_ca3m.cpp.o cd /<>/build_sse3/src && /usr/bin/c++ -DOPENMP -I/<>/build_sse3/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_sse3/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhblits_ca3m.cpp /<>/src/hhblits_ca3m.cpp: In function ‘int main(int, const char**)’: /<>/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:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /<>/src/hhblits.h:11, from /<>/src/hhblits_ca3m.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /<>/src/hhblits_ca3m.cpp:24:15, inlined from ‘int main(int, const char**)’ at /<>/src/hhblits_ca3m.cpp:358:29: /usr/include/x86_64-linux-gnu/bits/stdio2.h:54:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [100%] Linking CXX executable hhblits_ca3m-sse3 cd /<>/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhblits_ca3m-sse3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_sse3' [100%] Built target hhblits_ca3m-sse3 [100%] Linking CXX executable cstranslate-sse3 cd /<>/build_sse3/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/cstranslate-sse3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_sse3' [100%] Built target cstranslate-sse3 make[3]: Leaving directory '/<>/build_sse3' /usr/bin/cmake -E cmake_progress_start /<>/build_sse3/CMakeFiles 0 make[2]: Leaving directory '/<>/build_sse3' cd build_plain && make -j2 "INSTALL=install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/<>/build_plain' /usr/bin/cmake -S/<> -B/<>/build_plain --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /<>/build_plain/CMakeFiles /<>/build_plain//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/<>/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_plain' cd /<>/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/data /<>/build_plain /<>/build_plain/data /<>/build_plain/data/CMakeFiles/generated.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/build_plain' cd /<>/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_plain /<>/build_plain/lib/ffindex/src /<>/build_plain/lib/ffindex/src/CMakeFiles/ffindex.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_plain' make -f data/CMakeFiles/generated.dir/build.make data/CMakeFiles/generated.dir/build make[4]: Entering directory '/<>/build_plain' make[4]: Leaving directory '/<>/build_plain' make -f lib/ffindex/src/CMakeFiles/ffindex.dir/build.make lib/ffindex/src/CMakeFiles/ffindex.dir/build make[4]: Entering directory '/<>/build_plain' [ 1%] Generating ../generated/context_data.crf.h [ 2%] Building C object lib/ffindex/src/CMakeFiles/ffindex.dir/ffindex.c.o cd /<>/data && mkdir -p /<>/build_plain/generated cd /<>/build_plain/lib/ffindex/src && /usr/bin/cc -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex.c cd /<>/data && /<>/cmake/xxdi.pl context_data.crf > /<>/build_plain/generated/context_data.crf.h [ 3%] Building C object lib/ffindex/src/CMakeFiles/ffindex.dir/ffutil.c.o cd /<>/build_plain/lib/ffindex/src && /usr/bin/cc -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffutil.c [ 4%] Linking C static library libffindex.a cd /<>/build_plain/lib/ffindex/src && /usr/bin/cmake -P CMakeFiles/ffindex.dir/cmake_clean_target.cmake cd /<>/build_plain/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex.dir/link.txt --verbose=1 /usr/bin/ar qc libffindex.a CMakeFiles/ffindex.dir/ffindex.c.o CMakeFiles/ffindex.dir/ffutil.c.o /usr/bin/ranlib libffindex.a make[4]: Leaving directory '/<>/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_plain' cd /<>/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_plain /<>/build_plain/src /<>/build_plain/src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_plain' make -f src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/build make[4]: Entering directory '/<>/build_plain' [ 5%] Building CXX object src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbialgorithm.cpp [ 6%] Linking CXX static library libhhviterbialgorithm_with_celloff.a cd /<>/build_plain/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_with_celloff.dir/cmake_clean_target.cmake cd /<>/build_plain/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_with_celloff.dir/link.txt --verbose=1 /usr/bin/ar qc libhhviterbialgorithm_with_celloff.a CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o /usr/bin/ranlib libhhviterbialgorithm_with_celloff.a make[4]: Leaving directory '/<>/build_plain' [ 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_plain' cd /<>/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_plain /<>/build_plain/src /<>/build_plain/src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_plain' [ 7%] Building CXX object src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbialgorithm.cpp [ 8%] Linking CXX static library libhhviterbialgorithm_with_celloff_and_ss.a cd /<>/build_plain/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/cmake_clean_target.cmake cd /<>/build_plain/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/link.txt --verbose=1 /usr/bin/ar qc libhhviterbialgorithm_with_celloff_and_ss.a CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o /usr/bin/ranlib libhhviterbialgorithm_with_celloff_and_ss.a make[4]: Leaving directory '/<>/build_plain' [ 8%] 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_plain' cd /<>/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_plain /<>/build_plain/src /<>/build_plain/src/CMakeFiles/hhviterbialgorithm_and_ss.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_plain' make -f src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build make[4]: Entering directory '/<>/build_plain' [ 9%] Building CXX object src/CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbialgorithm.cpp cd /<>/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /<>/build_plain/generated/context_data.crf.h > /<>/build_plain/generated/context_data.crf.h.tmp cd /<>/data && mv -f /<>/build_plain/generated/context_data.crf.h.tmp /<>/build_plain/generated/context_data.crf.h [ 10%] Generating ../generated/context_data.lib.h cd /<>/data && mkdir -p /<>/build_plain/generated cd /<>/data && /<>/cmake/xxdi.pl context_data.lib > /<>/build_plain/generated/context_data.lib.h [ 11%] Linking CXX static library libhhviterbialgorithm_and_ss.a cd /<>/build_plain/src && /usr/bin/cmake -P CMakeFiles/hhviterbialgorithm_and_ss.dir/cmake_clean_target.cmake cd /<>/build_plain/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_and_ss.dir/link.txt --verbose=1 /usr/bin/ar qc libhhviterbialgorithm_and_ss.a CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o /usr/bin/ranlib libhhviterbialgorithm_and_ss.a make[4]: Leaving directory '/<>/build_plain' [ 11%] 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_plain' cd /<>/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src/cs /<>/build_plain /<>/build_plain/src/cs /<>/build_plain/src/cs/CMakeFiles/CS_OBJECTS.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_plain' make -f src/cs/CMakeFiles/CS_OBJECTS.dir/build.make src/cs/CMakeFiles/CS_OBJECTS.dir/build make[4]: Entering directory '/<>/build_plain' [ 12%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/aa.cc.o cd /<>/build_plain/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/aa.cc [ 13%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/as.cc.o cd /<>/build_plain/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/as.cc cd /<>/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /<>/build_plain/generated/context_data.lib.h > /<>/build_plain/generated/context_data.lib.h.tmp [ 14%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o cd /<>/build_plain/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/assert_helpers.cc cd /<>/data && mv -f /<>/build_plain/generated/context_data.lib.h.tmp /<>/build_plain/generated/context_data.lib.h [ 15%] Generating ../generated/cs219.lib.h cd /<>/data && mkdir -p /<>/build_plain/generated cd /<>/data && /<>/cmake/xxdi.pl cs219.lib > /<>/build_plain/generated/cs219.lib.h cd /<>/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /<>/build_plain/generated/cs219.lib.h > /<>/build_plain/generated/cs219.lib.h.tmp cd /<>/data && mv -f /<>/build_plain/generated/cs219.lib.h.tmp /<>/build_plain/generated/cs219.lib.h make[4]: Leaving directory '/<>/build_plain' [ 15%] Built target generated make -f src/CMakeFiles/A3M_COMPRESS.dir/build.make src/CMakeFiles/A3M_COMPRESS.dir/depend make[4]: Entering directory '/<>/build_plain' cd /<>/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_plain /<>/build_plain/src /<>/build_plain/src/CMakeFiles/A3M_COMPRESS.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_plain' make -f src/CMakeFiles/A3M_COMPRESS.dir/build.make src/CMakeFiles/A3M_COMPRESS.dir/build make[4]: Entering directory '/<>/build_plain' [ 15%] Building CXX object src/CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/a3m_compress.cpp /<>/src/a3m_compress.cpp: In function ‘std::string& rtrim(std::string&)’: /<>/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++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /<>/src/a3m_compress.h:11, from /<>/src/a3m_compress.cpp:8: /usr/include/c++/14/bits/stl_function.h:1123:5: note: declared here 1123 | ptr_fun(_Result (*__x)(_Arg)) | ^~~~~~~ [ 16%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o cd /<>/build_plain/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/blosum_matrix.cc [ 17%] Linking CXX static library libA3M_COMPRESS.a cd /<>/build_plain/src && /usr/bin/cmake -P CMakeFiles/A3M_COMPRESS.dir/cmake_clean_target.cmake cd /<>/build_plain/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/A3M_COMPRESS.dir/link.txt --verbose=1 /usr/bin/ar qc libA3M_COMPRESS.a CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o /usr/bin/ranlib libA3M_COMPRESS.a make[4]: Leaving directory '/<>/build_plain' [ 17%] Built target A3M_COMPRESS [ 18%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o cd /<>/build_plain/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/cs/getopt_pp.cc [ 19%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/log.cc.o cd /<>/build_plain/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -g -O2 -ffile-prefix-map=/<>=. -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/log.cc.o -MF CMakeFiles/CS_OBJECTS.dir/log.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/log.cc.o -c /<>/src/cs/log.cc [ 20%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/application.cc.o cd /<>/build_plain/src/cs && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -g -O2 -ffile-prefix-map=/<>=. -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/application.cc.o -MF CMakeFiles/CS_OBJECTS.dir/application.cc.o.d -o CMakeFiles/CS_OBJECTS.dir/application.cc.o -c /<>/src/cs/application.cc make -f lib/ffindex/src/CMakeFiles/ffindex_apply.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_apply.dir/depend make[4]: Entering directory '/<>/build_plain' cd /<>/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_plain /<>/build_plain/lib/ffindex/src /<>/build_plain/lib/ffindex/src/CMakeFiles/ffindex_apply.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/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_plain' [ 21%] Building C object lib/ffindex/src/CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o cd /<>/build_plain/lib/ffindex/src && /usr/bin/cc -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_apply_mpi.c /<>/lib/ffindex/src/ffindex_apply_mpi.c: In function ‘ffindex_apply_by_entry’: /<>/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 [ 22%] Linking C executable ffindex_apply cd /<>/build_plain/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_apply.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o -o ffindex_apply libffindex.a make[4]: Leaving directory '/<>/build_plain' [ 22%] Built target ffindex_apply make -f lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/depend [ 23%] Linking CXX static library libCS_OBJECTS.a cd /<>/build_plain/src/cs && /usr/bin/cmake -P CMakeFiles/CS_OBJECTS.dir/cmake_clean_target.cmake make[4]: Entering directory '/<>/build_plain' cd /<>/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_plain /<>/build_plain/lib/ffindex/src /<>/build_plain/lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/DependInfo.cmake "--color=" cd /<>/build_plain/src/cs && /usr/bin/cmake -E cmake_link_script 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-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 /<>/lib/ffindex/src/ffindex_reduce.c make[4]: Leaving directory '/<>/build_plain' [ 24%] Built target CS_OBJECTS make -f lib/ffindex/src/CMakeFiles/ffindex_build.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_build.dir/depend make[4]: Entering directory '/<>/build_plain' cd /<>/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_plain /<>/build_plain/lib/ffindex/src /<>/build_plain/lib/ffindex/src/CMakeFiles/ffindex_build.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_plain' make -f lib/ffindex/src/CMakeFiles/ffindex_build.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_build.dir/build make[4]: Entering directory '/<>/build_plain' [ 25%] Building C object lib/ffindex/src/CMakeFiles/ffindex_build.dir/ffindex_build.c.o cd /<>/build_plain/lib/ffindex/src && /usr/bin/cc -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_build.c [ 26%] Linking C executable ffindex_reduce cd /<>/build_plain/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_reduce.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o -o ffindex_reduce libffindex.a [ 27%] Linking C executable ffindex_build cd /<>/build_plain/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_build.dir/link.txt --verbose=1 make[4]: Leaving directory '/<>/build_plain' /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_build.dir/ffindex_build.c.o -o ffindex_build libffindex.a [ 27%] Built target ffindex_reduce 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_plain' cd /<>/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_plain /<>/build_plain/lib/ffindex/src /<>/build_plain/lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_plain' make[4]: Leaving directory '/<>/build_plain' 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_plain' [ 27%] Built target ffindex_build make -f lib/ffindex/src/CMakeFiles/ffindex_get.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_get.dir/depend make[4]: Entering directory '/<>/build_plain' cd /<>/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_plain /<>/build_plain/lib/ffindex/src /<>/build_plain/lib/ffindex/src/CMakeFiles/ffindex_get.dir/DependInfo.cmake "--color=" [ 28%] Building C object lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o cd /<>/build_plain/lib/ffindex/src && /usr/bin/cc -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_from_fasta.c make[4]: Leaving directory '/<>/build_plain' make -f lib/ffindex/src/CMakeFiles/ffindex_get.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_get.dir/build make[4]: Entering directory '/<>/build_plain' [ 29%] Building C object lib/ffindex/src/CMakeFiles/ffindex_get.dir/ffindex_get.c.o cd /<>/build_plain/lib/ffindex/src && /usr/bin/cc -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_get.c [ 30%] Linking C executable ffindex_from_fasta cd /<>/build_plain/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_from_fasta.dir/link.txt --verbose=1 [ 31%] Linking C executable ffindex_get cd /<>/build_plain/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_get.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o -o ffindex_from_fasta libffindex.a /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_get.dir/ffindex_get.c.o -o ffindex_get libffindex.a make[4]: Leaving directory '/<>/build_plain' make[4]: Leaving directory '/<>/build_plain' [ 31%] Built target ffindex_get make -f lib/ffindex/src/CMakeFiles/ffindex_modify.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_modify.dir/depend [ 31%] Built target ffindex_from_fasta make -f lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/depend make[4]: Entering directory '/<>/build_plain' cd /<>/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_plain /<>/build_plain/lib/ffindex/src /<>/build_plain/lib/ffindex/src/CMakeFiles/ffindex_modify.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/build_plain' cd /<>/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_plain /<>/build_plain/lib/ffindex/src /<>/build_plain/lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_plain' make -f lib/ffindex/src/CMakeFiles/ffindex_modify.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_modify.dir/build make[4]: Entering directory '/<>/build_plain' make[4]: Leaving directory '/<>/build_plain' make -f lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/build make[4]: Entering directory '/<>/build_plain' [ 32%] Building C object lib/ffindex/src/CMakeFiles/ffindex_modify.dir/ffindex_modify.c.o cd /<>/build_plain/lib/ffindex/src && /usr/bin/cc -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_modify.c [ 33%] Building C object lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/ffindex_unpack.c.o cd /<>/build_plain/lib/ffindex/src && /usr/bin/cc -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_unpack.c [ 34%] Linking C executable ffindex_unpack cd /<>/build_plain/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_unpack.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_unpack.dir/ffindex_unpack.c.o -o ffindex_unpack libffindex.a [ 35%] Linking C executable ffindex_modify cd /<>/build_plain/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_modify.dir/link.txt --verbose=1 make[4]: Leaving directory '/<>/build_plain' [ 35%] Built target ffindex_unpack /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_modify.dir/ffindex_modify.c.o -o ffindex_modify libffindex.a make -f lib/ffindex/src/CMakeFiles/ffindex_order.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_order.dir/depend make[4]: Entering directory '/<>/build_plain' cd /<>/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_plain /<>/build_plain/lib/ffindex/src /<>/build_plain/lib/ffindex/src/CMakeFiles/ffindex_order.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_plain' make -f lib/ffindex/src/CMakeFiles/ffindex_order.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_order.dir/build make[4]: Entering directory '/<>/build_plain' make[4]: Leaving directory '/<>/build_plain' [ 36%] Building C object lib/ffindex/src/CMakeFiles/ffindex_order.dir/ffindex_order.c.o cd /<>/build_plain/lib/ffindex/src && /usr/bin/cc -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_order.c [ 36%] Built target ffindex_modify 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_plain' cd /<>/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/lib/ffindex/src /<>/build_plain /<>/build_plain/lib/ffindex/src /<>/build_plain/lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_plain' 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_plain' [ 37%] Building C object lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/ffindex_from_fasta_with_split.c.o cd /<>/build_plain/lib/ffindex/src && /usr/bin/cc -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/lib/ffindex/src/ext -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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 /<>/lib/ffindex/src/ffindex_from_fasta_with_split.c [ 38%] Linking C executable ffindex_order cd /<>/build_plain/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_order.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/ffindex_order.dir/ffindex_order.c.o -o ffindex_order libffindex.a make[4]: Leaving directory '/<>/build_plain' [ 38%] Built target ffindex_order make -f src/CMakeFiles/HH_OBJECTS.dir/build.make src/CMakeFiles/HH_OBJECTS.dir/depend [ 39%] Linking C executable ffindex_from_fasta_with_split cd /<>/build_plain/lib/ffindex/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ffindex_from_fasta_with_split.dir/link.txt --verbose=1 make[4]: Entering directory '/<>/build_plain' cd /<>/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_plain /<>/build_plain/src /<>/build_plain/src/CMakeFiles/HH_OBJECTS.dir/DependInfo.cmake "--color=" /usr/bin/cc -std=c99 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic 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_plain' make -f src/CMakeFiles/HH_OBJECTS.dir/build.make src/CMakeFiles/HH_OBJECTS.dir/build make[4]: Entering directory '/<>/build_plain' [ 40%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhblits.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o -c /<>/src/hhblits.cpp make[4]: Leaving directory '/<>/build_plain' [ 40%] Built target ffindex_from_fasta_with_split make -f src/CMakeFiles/a3m_extract-plain.dir/build.make src/CMakeFiles/a3m_extract-plain.dir/depend make[4]: Entering directory '/<>/build_plain' cd /<>/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_plain /<>/build_plain/src 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/<>/src/a3m_extract.cpp [ 42%] Linking CXX executable a3m_extract-plain cd /<>/build_plain/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_extract-plain.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "CMakeFiles/a3m_extract-plain.dir/a3m_extract.cpp.o" -o a3m_extract-plain ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a make[4]: Leaving directory '/<>/build_plain' [ 42%] Built target a3m_extract-plain make -f src/CMakeFiles/a3m_reduce-plain.dir/build.make src/CMakeFiles/a3m_reduce-plain.dir/depend make[4]: Entering directory '/<>/build_plain' cd /<>/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_plain /<>/build_plain/src 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/<>/src/a3m_reduce.cpp [ 44%] Linking CXX executable a3m_reduce-plain cd /<>/build_plain/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_reduce-plain.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "CMakeFiles/a3m_reduce-plain.dir/a3m_reduce.cpp.o" -o a3m_reduce-plain ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a make[4]: Leaving directory '/<>/build_plain' [ 44%] Built target a3m_reduce-plain make -f src/CMakeFiles/a3m_database_reduce-plain.dir/build.make src/CMakeFiles/a3m_database_reduce-plain.dir/depend make[4]: Entering directory '/<>/build_plain' cd /<>/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_plain /<>/build_plain/src /<>/build_plain/src/CMakeFiles/a3m_database_reduce-plain.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_plain' make -f src/CMakeFiles/a3m_database_reduce-plain.dir/build.make src/CMakeFiles/a3m_database_reduce-plain.dir/build make[4]: Entering directory '/<>/build_plain' [ 45%] Building CXX object src/CMakeFiles/a3m_database_reduce-plain.dir/a3m_database_reduce.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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_database_reduce-plain.dir/a3m_database_reduce.cpp.o -MF CMakeFiles/a3m_database_reduce-plain.dir/a3m_database_reduce.cpp.o.d -o CMakeFiles/a3m_database_reduce-plain.dir/a3m_database_reduce.cpp.o -c /<>/src/a3m_database_reduce.cpp [ 46%] Linking CXX executable a3m_database_reduce-plain cd /<>/build_plain/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_reduce-plain.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "CMakeFiles/a3m_database_reduce-plain.dir/a3m_database_reduce.cpp.o" -o a3m_database_reduce-plain ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a make[4]: Leaving directory '/<>/build_plain' [ 46%] Built target a3m_database_reduce-plain make -f src/CMakeFiles/a3m_database_extract-plain.dir/build.make src/CMakeFiles/a3m_database_extract-plain.dir/depend make[4]: Entering directory '/<>/build_plain' cd /<>/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_plain /<>/build_plain/src /<>/build_plain/src/CMakeFiles/a3m_database_extract-plain.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_plain' make -f src/CMakeFiles/a3m_database_extract-plain.dir/build.make src/CMakeFiles/a3m_database_extract-plain.dir/build make[4]: Entering directory '/<>/build_plain' [ 47%] Building CXX object src/CMakeFiles/a3m_database_extract-plain.dir/a3m_database_extract.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -include stdlib.h -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time 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../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a make[4]: Leaving directory '/<>/build_plain' [ 48%] Built target a3m_database_extract-plain [ 49%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhdecl.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhdecl.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhdecl.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhdecl.cpp.o -c /<>/src/hhdecl.cpp [ 50%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhhit.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o -c /<>/src/hhhit.cpp [ 51%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhmatrices.cpp [ 52%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhsearch.cpp make -f src/CMakeFiles/a3m_database_filter-plain.dir/build.make src/CMakeFiles/a3m_database_filter-plain.dir/depend make[4]: Entering directory '/<>/build_plain' cd /<>/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_plain /<>/build_plain/src /<>/build_plain/src/CMakeFiles/a3m_database_filter-plain.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_plain' make -f src/CMakeFiles/a3m_database_filter-plain.dir/build.make src/CMakeFiles/a3m_database_filter-plain.dir/build make[4]: Entering directory '/<>/build_plain' [ 53%] Building CXX object src/CMakeFiles/a3m_database_filter-plain.dir/a3m_database_filter.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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_database_filter-plain.dir/a3m_database_filter.cpp.o -MF CMakeFiles/a3m_database_filter-plain.dir/a3m_database_filter.cpp.o.d -o CMakeFiles/a3m_database_filter-plain.dir/a3m_database_filter.cpp.o -c /<>/src/a3m_database_filter.cpp [ 54%] Linking CXX executable a3m_database_filter-plain cd /<>/build_plain/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_filter-plain.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "CMakeFiles/a3m_database_filter-plain.dir/a3m_database_filter.cpp.o" -o a3m_database_filter-plain ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a make[4]: Leaving directory '/<>/build_plain' [ 54%] Built target a3m_database_filter-plain [ 55%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhalign.cpp [ 56%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhhitlist.cpp [ 57%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhposteriordecoder.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o -c /<>/src/hhposteriordecoder.cpp [ 58%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhutil.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o -c /<>/src/hhutil.cpp [ 59%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/util.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/util.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/util.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/util.cpp.o -c /<>/src/util.cpp [ 60%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhalignment.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o -c /<>/src/hhalignment.cpp [ 61%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhforwardalgorithm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o -c /<>/src/hhforwardalgorithm.cpp [ 62%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhhmm.cpp /<>/src/hhalignment.cpp: In member function ‘int Alignment::Filter2(char*, int, int, float, int, int, int, const float (*)[20])’: /<>/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:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /<>/src/hhalignment.h:6, from /<>/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 /<>/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_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhposteriordecoderrunner.cpp [ 64%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbialgorithm.cpp [ 65%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhfullalignment.cpp [ 66%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhhmmsimd.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o -c /<>/src/hhhmmsimd.cpp [ 67%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhposteriormatrix.cpp [ 68%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhviterbi.cpp [ 69%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhbacktracemac.cpp [ 70%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhmacalgorithm.cpp [ 71%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhprefilter.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhprefilter.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhprefilter.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhprefilter.cpp.o -c /<>/src/hhprefilter.cpp [ 72%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbimatrix.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhviterbimatrix.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhviterbimatrix.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhviterbimatrix.cpp.o -c /<>/src/hhviterbimatrix.cpp [ 73%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhbackwardalgorithm.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhbackwardalgorithm.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhbackwardalgorithm.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhbackwardalgorithm.cpp.o -c /<>/src/hhbackwardalgorithm.cpp [ 74%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/ffindexdatabase.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/ffindexdatabase.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/ffindexdatabase.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/ffindexdatabase.cpp.o -c /<>/src/ffindexdatabase.cpp [ 75%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhdatabase.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhdatabase.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhdatabase.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhdatabase.cpp.o -c /<>/src/hhdatabase.cpp [ 76%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhhalfalignment.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o -c /<>/src/hhhalfalignment.cpp [ 77%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbirunner.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhviterbirunner.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhviterbirunner.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhviterbirunner.cpp.o -c /<>/src/hhviterbirunner.cpp [ 78%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhfunc.cpp.o -MF CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o.d -o CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o -c /<>/src/hhfunc.cpp [ 79%] Linking CXX static library libHH_OBJECTS.a cd /<>/build_plain/src && /usr/bin/cmake -P CMakeFiles/HH_OBJECTS.dir/cmake_clean_target.cmake cd /<>/build_plain/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/HH_OBJECTS.dir/link.txt --verbose=1 /usr/bin/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/ranlib libHH_OBJECTS.a make[4]: Leaving directory '/<>/build_plain' [ 79%] Built target HH_OBJECTS make -f src/CMakeFiles/hhblits-plain.dir/build.make src/CMakeFiles/hhblits-plain.dir/depend make -f 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81%] Building CXX object src/CMakeFiles/hhblits-plain.dir/hhblits_app.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhmake-plain.dir/hhmake.cpp.o -MF CMakeFiles/hhmake-plain.dir/hhmake.cpp.o.d -o CMakeFiles/hhmake-plain.dir/hhmake.cpp.o -c /<>/src/hhmake.cpp cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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-plain.dir/hhblits_app.cpp.o -MF CMakeFiles/hhblits-plain.dir/hhblits_app.cpp.o.d -o CMakeFiles/hhblits-plain.dir/hhblits_app.cpp.o -c /<>/src/hhblits_app.cpp [ 82%] Linking CXX executable hhblits-plain cd /<>/build_plain/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhblits-plain.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "CMakeFiles/hhblits-plain.dir/hhblits_app.cpp.o" -o hhblits-plain libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a 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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 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -fsigned-char -mfpmath=sse -fopenmp -fno-strict-aliasing -MD -MT src/CMakeFiles/hhfilter-plain.dir/hhfilter.cpp.o -MF CMakeFiles/hhfilter-plain.dir/hhfilter.cpp.o.d -o CMakeFiles/hhfilter-plain.dir/hhfilter.cpp.o -c /<>/src/hhfilter.cpp [ 84%] Linking CXX executable hhmake-plain cd /<>/build_plain/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhmake-plain.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "CMakeFiles/hhmake-plain.dir/hhmake.cpp.o" -o hhmake-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_plain' [ 84%] Built target hhmake-plain make -f src/CMakeFiles/hhsearch-plain.dir/build.make src/CMakeFiles/hhsearch-plain.dir/depend make[4]: Entering directory '/<>/build_plain' cd /<>/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_plain /<>/build_plain/src /<>/build_plain/src/CMakeFiles/hhsearch-plain.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_plain' make -f src/CMakeFiles/hhsearch-plain.dir/build.make src/CMakeFiles/hhsearch-plain.dir/build make[4]: Entering directory '/<>/build_plain' [ 85%] Building CXX object src/CMakeFiles/hhsearch-plain.dir/hhblits_app.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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-plain.dir/hhblits_app.cpp.o -MF CMakeFiles/hhsearch-plain.dir/hhblits_app.cpp.o.d -o CMakeFiles/hhsearch-plain.dir/hhblits_app.cpp.o -c /<>/src/hhblits_app.cpp [ 86%] Linking CXX executable hhsearch-plain cd /<>/build_plain/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhsearch-plain.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "CMakeFiles/hhsearch-plain.dir/hhblits_app.cpp.o" -o hhsearch-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 [ 87%] Linking CXX executable hhfilter-plain cd /<>/build_plain/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhfilter-plain.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "CMakeFiles/hhfilter-plain.dir/hhfilter.cpp.o" -o hhfilter-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_plain' [ 87%] Built target hhfilter-plain make -f src/CMakeFiles/hhalign-plain.dir/build.make src/CMakeFiles/hhalign-plain.dir/depend make[4]: Leaving directory '/<>/build_plain' make[4]: Entering directory '/<>/build_plain' cd /<>/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_plain /<>/build_plain/src /<>/build_plain/src/CMakeFiles/hhalign-plain.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_plain' make -f src/CMakeFiles/hhalign-plain.dir/build.make src/CMakeFiles/hhalign-plain.dir/build make[4]: Entering directory '/<>/build_plain' [ 87%] Built target hhsearch-plain make -f src/CMakeFiles/hhconsensus-plain.dir/build.make src/CMakeFiles/hhconsensus-plain.dir/depend [ 88%] Building CXX object src/CMakeFiles/hhalign-plain.dir/hhblits_app.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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-plain.dir/hhblits_app.cpp.o -MF CMakeFiles/hhalign-plain.dir/hhblits_app.cpp.o.d -o CMakeFiles/hhalign-plain.dir/hhblits_app.cpp.o -c /<>/src/hhblits_app.cpp make[4]: Entering directory '/<>/build_plain' cd /<>/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_plain /<>/build_plain/src /<>/build_plain/src/CMakeFiles/hhconsensus-plain.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_plain' make -f src/CMakeFiles/hhconsensus-plain.dir/build.make src/CMakeFiles/hhconsensus-plain.dir/build make[4]: Entering directory '/<>/build_plain' [ 89%] Building CXX object src/CMakeFiles/hhconsensus-plain.dir/hhconsensus.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/hhconsensus-plain.dir/hhconsensus.cpp.o -MF CMakeFiles/hhconsensus-plain.dir/hhconsensus.cpp.o.d -o CMakeFiles/hhconsensus-plain.dir/hhconsensus.cpp.o -c /<>/src/hhconsensus.cpp [ 90%] Linking CXX executable hhalign-plain cd /<>/build_plain/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhalign-plain.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "CMakeFiles/hhalign-plain.dir/hhblits_app.cpp.o" -o hhalign-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_plain' [ 90%] Built target hhalign-plain make -f src/CMakeFiles/cstranslate-plain.dir/build.make src/CMakeFiles/cstranslate-plain.dir/depend make[4]: Entering directory '/<>/build_plain' cd /<>/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_plain /<>/build_plain/src /<>/build_plain/src/CMakeFiles/cstranslate-plain.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_plain' make -f src/CMakeFiles/cstranslate-plain.dir/build.make src/CMakeFiles/cstranslate-plain.dir/build make[4]: Entering directory '/<>/build_plain' [ 91%] Building CXX object src/CMakeFiles/cstranslate-plain.dir/cs/cstranslate_app.cc.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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/cstranslate-plain.dir/cs/cstranslate_app.cc.o -MF CMakeFiles/cstranslate-plain.dir/cs/cstranslate_app.cc.o.d -o CMakeFiles/cstranslate-plain.dir/cs/cstranslate_app.cc.o -c /<>/src/cs/cstranslate_app.cc [ 92%] Linking CXX executable hhconsensus-plain cd /<>/build_plain/src && /usr/bin/cmake 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/<>/build_plain/src /<>/build_plain/src/CMakeFiles/hhblits_omp-plain.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_plain' make -f src/CMakeFiles/hhblits_omp-plain.dir/build.make src/CMakeFiles/hhblits_omp-plain.dir/build make[4]: Entering directory '/<>/build_plain' [ 93%] Building CXX object src/CMakeFiles/hhblits_omp-plain.dir/hhblits_omp.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhblits_omp.cpp /<>/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /<>/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:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /<>/src/hhblits.h:11, from /<>/src/hhsearch.h:34, from /<>/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /<>/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /<>/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:54:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 94%] Linking CXX executable hhblits_omp-plain cd /<>/build_plain/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhblits_omp-plain.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_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_plain' cd /<>/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_plain /<>/build_plain/src /<>/build_plain/src/CMakeFiles/hhsearch_omp-plain.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_plain' make -f src/CMakeFiles/hhsearch_omp-plain.dir/build.make src/CMakeFiles/hhsearch_omp-plain.dir/build make[4]: Entering directory '/<>/build_plain' [ 95%] Building CXX object src/CMakeFiles/hhsearch_omp-plain.dir/hhblits_omp.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhblits_omp.cpp /<>/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /<>/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:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /<>/src/hhblits.h:11, from /<>/src/hhsearch.h:34, from /<>/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /<>/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /<>/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:54:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 96%] Linking CXX executable hhsearch_omp-plain cd /<>/build_plain/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhsearch_omp-plain.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_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_plain' cd /<>/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_plain /<>/build_plain/src /<>/build_plain/src/CMakeFiles/hhalign_omp-plain.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_plain' make -f src/CMakeFiles/hhalign_omp-plain.dir/build.make src/CMakeFiles/hhalign_omp-plain.dir/build make[4]: Entering directory '/<>/build_plain' [ 97%] Building CXX object src/CMakeFiles/hhalign_omp-plain.dir/hhblits_omp.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhblits_omp.cpp /<>/src/hhblits_omp.cpp: In function ‘int main(int, const char**)’: /<>/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:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /<>/src/hhblits.h:11, from /<>/src/hhsearch.h:34, from /<>/src/hhblits_omp.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /<>/src/hhblits_omp.cpp:26:17, inlined from ‘int main(int, const char**)’ at /<>/src/hhblits_omp.cpp:167:33: /usr/include/x86_64-linux-gnu/bits/stdio2.h:54:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [ 98%] Linking CXX executable hhalign_omp-plain cd /<>/build_plain/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhalign_omp-plain.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_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_plain' cd /<>/build_plain && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/build_plain /<>/build_plain/src /<>/build_plain/src/CMakeFiles/hhblits_ca3m-plain.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/build_plain' make -f src/CMakeFiles/hhblits_ca3m-plain.dir/build.make src/CMakeFiles/hhblits_ca3m-plain.dir/build make[4]: Entering directory '/<>/build_plain' [ 99%] Building CXX object src/CMakeFiles/hhblits_ca3m-plain.dir/hhblits_ca3m.cpp.o cd /<>/build_plain/src && /usr/bin/c++ -DOPENMP -I/<>/build_plain/generated -I/<>/src -I/<>/lib/ffindex/src -I/<>/lib/simde -I/<>/lib/simd -I/<>/build_plain/src -I/<>/src/cs -g -O2 -ffile-prefix-map=/<>=. -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 /<>/src/hhblits_ca3m.cpp /<>/src/hhblits_ca3m.cpp: In function ‘int main(int, const char**)’: /<>/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:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /<>/src/hhblits.h:11, from /<>/src/hhblits_ca3m.cpp:8: In function ‘int snprintf(char*, size_t, const char*, ...)’, inlined from ‘void OutputFFIndex::close()’ at /<>/src/hhblits_ca3m.cpp:24:15, inlined from ‘int main(int, const char**)’ at /<>/src/hhblits_ca3m.cpp:358:29: /usr/include/x86_64-linux-gnu/bits/stdio2.h:54:35: note: ‘__builtin___snprintf_chk’ output between 9 and 4104 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ [100%] Linking CXX executable hhblits_ca3m-plain cd /<>/build_plain/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/hhblits_ca3m-plain.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_plain' [100%] Built target hhblits_ca3m-plain [100%] Linking CXX executable cstranslate-plain cd /<>/build_plain/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/cstranslate-plain.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -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 -rdynamic "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_plain' [100%] Built target cstranslate-plain make[3]: Leaving directory '/<>/build_plain' /usr/bin/cmake -E cmake_progress_start /<>/build_plain/CMakeFiles 0 make[2]: Leaving directory '/<>/build_plain' make[1]: Leaving directory '/<>' debian/rules override_dh_auto_build-indep make[1]: Entering directory '/<>' dh_auto_build --builddirectory mybuild/data cd mybuild/data && make -j2 "INSTALL=install --strip-program=true" make[2]: Entering directory '/<>/mybuild/data' cd /<>/mybuild && /usr/bin/cmake -S/<> -B/<>/mybuild --check-build-system CMakeFiles/Makefile.cmake 0 cd /<>/mybuild && /usr/bin/cmake -E cmake_progress_start /<>/mybuild/CMakeFiles /<>/mybuild/data//CMakeFiles/progress.marks cd /<>/mybuild && make -f CMakeFiles/Makefile2 data/all make[3]: Entering directory '/<>/mybuild' make -f data/CMakeFiles/generated.dir/build.make data/CMakeFiles/generated.dir/depend make[4]: Entering directory '/<>/mybuild' cd /<>/mybuild && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/data /<>/mybuild /<>/mybuild/data /<>/mybuild/data/CMakeFiles/generated.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/mybuild' make -f data/CMakeFiles/generated.dir/build.make data/CMakeFiles/generated.dir/build make[4]: Entering directory '/<>/mybuild' [ 33%] Generating ../generated/context_data.crf.h cd /<>/data && mkdir -p /<>/mybuild/generated cd /<>/data && /<>/cmake/xxdi.pl context_data.crf > /<>/mybuild/generated/context_data.crf.h [ 66%] Generating ../generated/context_data.lib.h cd /<>/data && mkdir -p /<>/mybuild/generated cd /<>/data && /<>/cmake/xxdi.pl context_data.lib > /<>/mybuild/generated/context_data.lib.h cd /<>/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /<>/mybuild/generated/context_data.lib.h > /<>/mybuild/generated/context_data.lib.h.tmp cd /<>/data && mv -f /<>/mybuild/generated/context_data.lib.h.tmp /<>/mybuild/generated/context_data.lib.h [100%] Generating ../generated/cs219.lib.h cd /<>/data && mkdir -p /<>/mybuild/generated cd /<>/data && /<>/cmake/xxdi.pl cs219.lib > /<>/mybuild/generated/cs219.lib.h cd /<>/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /<>/mybuild/generated/cs219.lib.h > /<>/mybuild/generated/cs219.lib.h.tmp cd /<>/data && mv -f /<>/mybuild/generated/cs219.lib.h.tmp /<>/mybuild/generated/cs219.lib.h cd /<>/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /<>/mybuild/generated/context_data.crf.h > /<>/mybuild/generated/context_data.crf.h.tmp cd /<>/data && mv -f /<>/mybuild/generated/context_data.crf.h.tmp /<>/mybuild/generated/context_data.crf.h make[4]: Leaving directory '/<>/mybuild' [100%] Built target generated make[3]: Leaving directory '/<>/mybuild' /usr/bin/cmake -E cmake_progress_start /<>/mybuild/CMakeFiles 0 make[2]: Leaving directory '/<>/mybuild/data' make[1]: Leaving directory '/<>' debian/rules override_dh_auto_test-arch make[1]: Entering directory '/<>' rm -Rf /<>/debian/testdir mkdir -p /<>/debian/testdir cd build_plain/src && \ for file in *-plain ; \ do ln -s /<>/build_plain/src/${file} /<>/debian/testdir/${file%%-plain} ; done cd /<>/data && PATH=$PATH:/<>/build_plain/lib/ffindex/src/:/<>/debian/testdir ./test.sh - 01:22:15.644 INFO: query.a3m is in A2M, A3M or FASTA format - 01:22:16.508 INFO: Alternative alignment: 0 - 01:22:16.517 INFO: 1 alignments done - 01:22:16.538 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 Sun Aug 4 01:22:16 2024 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 935 0 query.a3m 0 32666 6 0 query.a3m 0 32666 127 0 Reading context library for pseudocounts from internal ... Reading abstract state alphabet from internal ... Processing entry: query.a3m Adding cs-pseudocounts (admix=0.30) ... - 01:22:19.032 INFO: Searching 1 column state sequences. - 01:22:19.172 INFO: query.a3m is in A2M, A3M or FASTA format - 01:22:19.214 INFO: Iteration 1 - 01:22:20.066 INFO: Prefiltering database - 01:22:20.861 INFO: HMMs passed 1st prefilter (gapless profile-profile alignment) : 1 - 01:22:20.869 INFO: HMMs passed 2nd prefilter (gapped profile-profile alignment) : 1 - 01:22:20.869 INFO: HMMs passed 2nd prefilter and not found in previous iterations : 1 - 01:22:20.869 INFO: Scoring 1 HMMs using HMM-HMM Viterbi alignment - 01:22:20.981 INFO: Alternative alignment: 0 - 01:22:20.992 INFO: 1 alignments done - 01:22:20.992 INFO: Alternative alignment: 1 - 01:22:21.008 INFO: 1 alignments done - 01:22:21.010 INFO: Alternative alignment: 2 - 01:22:21.010 INFO: Alternative alignment: 3 - 01:22:21.903 INFO: Premerge done - 01:22:21.903 INFO: Realigning 2 HMM-HMM alignments using Maximum Accuracy algorithm - 01:22:21.943 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 Sun Aug 4 01:22:21 2024 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) - 01:22:21.975 INFO: Searching 1 column state sequences. - 01:22:22.123 INFO: Thread 1 query.a3m - 01:22:22.164 INFO: query.a3m is in A2M, A3M or FASTA format - 01:22:22.201 INFO: Iteration 1 - 01:22:23.539 INFO: Prefiltering database - 01:22:24.799 INFO: HMMs passed 1st prefilter (gapless profile-profile alignment) : 1 - 01:22:24.799 INFO: HMMs passed 2nd prefilter (gapped profile-profile alignment) : 1 - 01:22:24.799 INFO: HMMs passed 2nd prefilter and not found in previous iterations : 1 - 01:22:24.799 INFO: Scoring 1 HMMs using HMM-HMM Viterbi alignment - 01:22:24.827 INFO: Alternative alignment: 0 - 01:22:24.833 INFO: 1 alignments done - 01:22:24.833 INFO: Alternative alignment: 1 - 01:22:24.839 INFO: 1 alignments done - 01:22:24.839 INFO: Alternative alignment: 2 - 01:22:24.839 INFO: Alternative alignment: 3 - 01:22:25.915 INFO: Premerge done - 01:22:25.915 INFO: Realigning 2 HMM-HMM alignments using Maximum Accuracy algorithm - 01:22:25.934 INFO: 2 sequences belonging to 2 database HMMs found with an E-value < 0.001 - 01:22:26.072 INFO: query.a3m is in A2M, A3M or FASTA format - 01:22:26.104 INFO: Searching 1 database HHMs without prefiltering - 01:22:26.109 INFO: Iteration 1 - 01:22:27.062 INFO: Scoring 1 HMMs using HMM-HMM Viterbi alignment - 01:22:27.163 INFO: Alternative alignment: 0 - 01:22:27.169 INFO: 1 alignments done - 01:22:27.169 INFO: Alternative alignment: 1 - 01:22:27.184 INFO: 1 alignments done - 01:22:27.186 INFO: Alternative alignment: 2 - 01:22:27.187 INFO: Alternative alignment: 3 - 01:22:28.056 INFO: Premerge done - 01:22:28.057 INFO: Realigning 2 HMM-HMM alignments using Maximum Accuracy algorithm - 01:22:28.084 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 Sun Aug 4 01:22:28 2024 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) - 01:22:28.190 INFO: Thread 0 query.a3m - 01:22:28.207 INFO: query.a3m is in A2M, A3M or FASTA format - 01:22:28.223 INFO: Searching 1 database HHMs without prefiltering - 01:22:28.224 INFO: Iteration 1 - 01:22:29.280 INFO: Scoring 1 HMMs using HMM-HMM Viterbi alignment - 01:22:29.334 INFO: Alternative alignment: 0 - 01:22:29.344 INFO: 1 alignments done - 01:22:29.344 INFO: Alternative alignment: 1 - 01:22:29.358 INFO: 1 alignments done - 01:22:29.358 INFO: Alternative alignment: 2 - 01:22:29.358 INFO: Alternative alignment: 3 - 01:22:30.607 INFO: Premerge done - 01:22:30.607 INFO: Realigning 2 HMM-HMM alignments using Maximum Accuracy algorithm - 01:22:30.626 INFO: 2 sequences belonging to 2 database HMMs found with an E-value < 0.001 make[1]: Leaving directory '/<>' create-stamp debian/debhelper-build-stamp dh_prep debian/rules override_dh_auto_install-arch make[1]: Entering directory '/<>' mkdir -p /<>/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=/<>/hhsuite-3.3.0\+ds/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[2]: Entering directory '/<>/build_avx2' /usr/bin/cmake -S/<> -B/<>/build_avx2 --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/<>/build_avx2' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/<>/build_avx2' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /<>/debian/tmp/usr/bin/ffindex_reduce -- Installing: /<>/debian/tmp/usr/bin/ffindex_apply -- Installing: /<>/debian/tmp/usr/bin/ffindex_build -- Installing: /<>/debian/tmp/usr/bin/ffindex_from_fasta -- Installing: /<>/debian/tmp/usr/bin/ffindex_get -- Installing: /<>/debian/tmp/usr/bin/ffindex_modify -- Installing: /<>/debian/tmp/usr/bin/ffindex_unpack -- Installing: /<>/debian/tmp/usr/bin/ffindex_order -- Installing: /<>/debian/tmp/usr/bin/ffindex_from_fasta_with_split -- Installing: /<>/debian/tmp/usr/data/context_data.crf -- Installing: /<>/debian/tmp/usr/data/context_data.lib -- Installing: /<>/debian/tmp/usr/data/cs219.lib -- Installing: /<>/debian/tmp/usr/data/do_not_delete -- Installing: /<>/debian/tmp/usr/data/do_not_delete.phr -- Installing: /<>/debian/tmp/usr/data/do_not_delete.pin -- Installing: /<>/debian/tmp/usr/data/do_not_delete.psq -- Installing: /<>/debian/tmp/usr/bin/hhblits-avx2 -- Installing: /<>/debian/tmp/usr/bin/hhmake-avx2 -- Installing: /<>/debian/tmp/usr/bin/hhfilter-avx2 -- Installing: /<>/debian/tmp/usr/bin/hhsearch-avx2 -- Installing: /<>/debian/tmp/usr/bin/hhalign-avx2 -- Installing: /<>/debian/tmp/usr/bin/hhconsensus-avx2 -- Installing: /<>/debian/tmp/usr/bin/a3m_extract-avx2 -- Installing: /<>/debian/tmp/usr/bin/a3m_reduce-avx2 -- Installing: /<>/debian/tmp/usr/bin/a3m_database_reduce-avx2 -- Installing: /<>/debian/tmp/usr/bin/a3m_database_extract-avx2 -- Installing: /<>/debian/tmp/usr/bin/a3m_database_filter-avx2 -- Installing: /<>/debian/tmp/usr/bin/cstranslate-avx2 -- Installing: /<>/debian/tmp/usr/bin/hhblits_omp-avx2 -- Installing: /<>/debian/tmp/usr/bin/hhsearch_omp-avx2 -- Installing: /<>/debian/tmp/usr/bin/hhalign_omp-avx2 -- Installing: /<>/debian/tmp/usr/bin/hhblits_ca3m-avx2 -- Installing: /<>/debian/tmp/usr/scripts/a3m.py -- Installing: /<>/debian/tmp/usr/scripts/addss.pl -- Installing: /<>/debian/tmp/usr/scripts/Align.pm -- Installing: /<>/debian/tmp/usr/scripts/check_a3m.py -- Installing: /<>/debian/tmp/usr/scripts/cif2fasta.py -- Installing: /<>/debian/tmp/usr/scripts/create_profile_from_hhm.pl -- Installing: /<>/debian/tmp/usr/scripts/create_profile_from_hmmer.pl -- Installing: /<>/debian/tmp/usr/scripts/ffindex.py -- Installing: /<>/debian/tmp/usr/scripts/get_a3m_size.py -- Installing: /<>/debian/tmp/usr/scripts/hh_reader.py -- Installing: /<>/debian/tmp/usr/scripts/hhmakemodel.pl -- Installing: /<>/debian/tmp/usr/scripts/hhmakemodel.py -- Installing: /<>/debian/tmp/usr/scripts/HHPaths.pm -- Installing: /<>/debian/tmp/usr/scripts/hhsuitedb.py -- Installing: /<>/debian/tmp/usr/scripts/mergeali.pl -- Installing: /<>/debian/tmp/usr/scripts/multithread.pl -- Installing: /<>/debian/tmp/usr/scripts/pdb2fasta.pl -- Installing: /<>/debian/tmp/usr/scripts/pdbfilter.pl -- Installing: /<>/debian/tmp/usr/scripts/pdbfilter.py -- Installing: /<>/debian/tmp/usr/scripts/reformat.pl -- Installing: /<>/debian/tmp/usr/scripts/renumberpdb.pl -- Installing: /<>/debian/tmp/usr/scripts/splitfasta.pl make[2]: Leaving directory '/<>/build_avx2' cd build_avx && make -j2 install DESTDIR=/<>/hhsuite-3.3.0\+ds/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[2]: Entering directory '/<>/build_avx' /usr/bin/cmake -S/<> -B/<>/build_avx --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/<>/build_avx' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/<>/build_avx' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /<>/debian/tmp/usr/bin/ffindex_reduce -- Installing: /<>/debian/tmp/usr/bin/ffindex_apply -- Installing: /<>/debian/tmp/usr/bin/ffindex_build -- Installing: /<>/debian/tmp/usr/bin/ffindex_from_fasta -- Installing: /<>/debian/tmp/usr/bin/ffindex_get -- Installing: /<>/debian/tmp/usr/bin/ffindex_modify -- Installing: /<>/debian/tmp/usr/bin/ffindex_unpack -- Installing: /<>/debian/tmp/usr/bin/ffindex_order -- Installing: /<>/debian/tmp/usr/bin/ffindex_from_fasta_with_split -- Up-to-date: /<>/debian/tmp/usr/data/context_data.crf -- Up-to-date: /<>/debian/tmp/usr/data/context_data.lib -- Up-to-date: /<>/debian/tmp/usr/data/cs219.lib -- Up-to-date: /<>/debian/tmp/usr/data/do_not_delete -- Up-to-date: /<>/debian/tmp/usr/data/do_not_delete.phr -- Up-to-date: /<>/debian/tmp/usr/data/do_not_delete.pin -- Up-to-date: /<>/debian/tmp/usr/data/do_not_delete.psq -- Installing: /<>/debian/tmp/usr/bin/hhblits-avx -- Installing: /<>/debian/tmp/usr/bin/hhmake-avx -- Installing: /<>/debian/tmp/usr/bin/hhfilter-avx -- Installing: /<>/debian/tmp/usr/bin/hhsearch-avx -- Installing: /<>/debian/tmp/usr/bin/hhalign-avx -- Installing: /<>/debian/tmp/usr/bin/hhconsensus-avx -- Installing: /<>/debian/tmp/usr/bin/a3m_extract-avx -- Installing: /<>/debian/tmp/usr/bin/a3m_reduce-avx -- Installing: /<>/debian/tmp/usr/bin/a3m_database_reduce-avx -- Installing: /<>/debian/tmp/usr/bin/a3m_database_extract-avx -- Installing: /<>/debian/tmp/usr/bin/a3m_database_filter-avx -- Installing: /<>/debian/tmp/usr/bin/cstranslate-avx -- Installing: /<>/debian/tmp/usr/bin/hhblits_omp-avx -- Installing: /<>/debian/tmp/usr/bin/hhsearch_omp-avx -- Installing: /<>/debian/tmp/usr/bin/hhalign_omp-avx -- Installing: /<>/debian/tmp/usr/bin/hhblits_ca3m-avx -- Up-to-date: /<>/debian/tmp/usr/scripts/a3m.py -- Up-to-date: /<>/debian/tmp/usr/scripts/addss.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/Align.pm -- Up-to-date: /<>/debian/tmp/usr/scripts/check_a3m.py -- Up-to-date: /<>/debian/tmp/usr/scripts/cif2fasta.py -- Up-to-date: /<>/debian/tmp/usr/scripts/create_profile_from_hhm.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/create_profile_from_hmmer.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/ffindex.py -- Up-to-date: /<>/debian/tmp/usr/scripts/get_a3m_size.py -- Up-to-date: /<>/debian/tmp/usr/scripts/hh_reader.py -- Up-to-date: /<>/debian/tmp/usr/scripts/hhmakemodel.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/hhmakemodel.py -- Up-to-date: /<>/debian/tmp/usr/scripts/HHPaths.pm -- Up-to-date: /<>/debian/tmp/usr/scripts/hhsuitedb.py -- Up-to-date: /<>/debian/tmp/usr/scripts/mergeali.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/multithread.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/pdb2fasta.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/pdbfilter.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/pdbfilter.py -- Up-to-date: /<>/debian/tmp/usr/scripts/reformat.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/renumberpdb.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/splitfasta.pl make[2]: Leaving directory '/<>/build_avx' cd build_sse4.1 && make -j2 install DESTDIR=/<>/hhsuite-3.3.0\+ds/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[2]: Entering directory '/<>/build_sse4.1' /usr/bin/cmake -S/<> -B/<>/build_sse4.1 --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/<>/build_sse4.1' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/<>/build_sse4.1' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /<>/debian/tmp/usr/bin/ffindex_reduce -- Installing: /<>/debian/tmp/usr/bin/ffindex_apply -- Installing: /<>/debian/tmp/usr/bin/ffindex_build -- Installing: /<>/debian/tmp/usr/bin/ffindex_from_fasta -- Installing: /<>/debian/tmp/usr/bin/ffindex_get -- Installing: /<>/debian/tmp/usr/bin/ffindex_modify -- Installing: /<>/debian/tmp/usr/bin/ffindex_unpack -- Installing: /<>/debian/tmp/usr/bin/ffindex_order -- Installing: /<>/debian/tmp/usr/bin/ffindex_from_fasta_with_split -- Up-to-date: /<>/debian/tmp/usr/data/context_data.crf -- Up-to-date: /<>/debian/tmp/usr/data/context_data.lib -- Up-to-date: /<>/debian/tmp/usr/data/cs219.lib -- Up-to-date: /<>/debian/tmp/usr/data/do_not_delete -- Up-to-date: /<>/debian/tmp/usr/data/do_not_delete.phr -- Up-to-date: /<>/debian/tmp/usr/data/do_not_delete.pin -- Up-to-date: /<>/debian/tmp/usr/data/do_not_delete.psq -- Installing: /<>/debian/tmp/usr/bin/hhblits-sse4.1 -- Installing: /<>/debian/tmp/usr/bin/hhmake-sse4.1 -- Installing: /<>/debian/tmp/usr/bin/hhfilter-sse4.1 -- Installing: /<>/debian/tmp/usr/bin/hhsearch-sse4.1 -- Installing: /<>/debian/tmp/usr/bin/hhalign-sse4.1 -- Installing: /<>/debian/tmp/usr/bin/hhconsensus-sse4.1 -- Installing: /<>/debian/tmp/usr/bin/a3m_extract-sse4.1 -- Installing: /<>/debian/tmp/usr/bin/a3m_reduce-sse4.1 -- Installing: /<>/debian/tmp/usr/bin/a3m_database_reduce-sse4.1 -- Installing: /<>/debian/tmp/usr/bin/a3m_database_extract-sse4.1 -- Installing: /<>/debian/tmp/usr/bin/a3m_database_filter-sse4.1 -- Installing: /<>/debian/tmp/usr/bin/cstranslate-sse4.1 -- Installing: /<>/debian/tmp/usr/bin/hhblits_omp-sse4.1 -- Installing: /<>/debian/tmp/usr/bin/hhsearch_omp-sse4.1 -- Installing: /<>/debian/tmp/usr/bin/hhalign_omp-sse4.1 -- Installing: /<>/debian/tmp/usr/bin/hhblits_ca3m-sse4.1 -- Up-to-date: /<>/debian/tmp/usr/scripts/a3m.py -- Up-to-date: /<>/debian/tmp/usr/scripts/addss.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/Align.pm -- Up-to-date: /<>/debian/tmp/usr/scripts/check_a3m.py -- Up-to-date: /<>/debian/tmp/usr/scripts/cif2fasta.py -- Up-to-date: /<>/debian/tmp/usr/scripts/create_profile_from_hhm.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/create_profile_from_hmmer.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/ffindex.py -- Up-to-date: /<>/debian/tmp/usr/scripts/get_a3m_size.py -- Up-to-date: /<>/debian/tmp/usr/scripts/hh_reader.py -- Up-to-date: /<>/debian/tmp/usr/scripts/hhmakemodel.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/hhmakemodel.py -- Up-to-date: /<>/debian/tmp/usr/scripts/HHPaths.pm -- Up-to-date: /<>/debian/tmp/usr/scripts/hhsuitedb.py -- Up-to-date: /<>/debian/tmp/usr/scripts/mergeali.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/multithread.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/pdb2fasta.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/pdbfilter.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/pdbfilter.py -- Up-to-date: /<>/debian/tmp/usr/scripts/reformat.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/renumberpdb.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/splitfasta.pl make[2]: Leaving directory '/<>/build_sse4.1' cd build_ssse3 && make -j2 install DESTDIR=/<>/hhsuite-3.3.0\+ds/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[2]: Entering directory '/<>/build_ssse3' /usr/bin/cmake -S/<> -B/<>/build_ssse3 --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/<>/build_ssse3' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/<>/build_ssse3' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /<>/debian/tmp/usr/bin/ffindex_reduce -- Installing: /<>/debian/tmp/usr/bin/ffindex_apply -- Installing: /<>/debian/tmp/usr/bin/ffindex_build -- Installing: /<>/debian/tmp/usr/bin/ffindex_from_fasta -- Installing: /<>/debian/tmp/usr/bin/ffindex_get -- Installing: /<>/debian/tmp/usr/bin/ffindex_modify -- Installing: /<>/debian/tmp/usr/bin/ffindex_unpack -- Installing: /<>/debian/tmp/usr/bin/ffindex_order -- Installing: /<>/debian/tmp/usr/bin/ffindex_from_fasta_with_split -- Up-to-date: /<>/debian/tmp/usr/data/context_data.crf -- Up-to-date: /<>/debian/tmp/usr/data/context_data.lib -- Up-to-date: /<>/debian/tmp/usr/data/cs219.lib -- Up-to-date: /<>/debian/tmp/usr/data/do_not_delete -- Up-to-date: /<>/debian/tmp/usr/data/do_not_delete.phr -- Up-to-date: /<>/debian/tmp/usr/data/do_not_delete.pin -- Up-to-date: /<>/debian/tmp/usr/data/do_not_delete.psq -- Installing: /<>/debian/tmp/usr/bin/hhblits-ssse3 -- Installing: /<>/debian/tmp/usr/bin/hhmake-ssse3 -- Installing: /<>/debian/tmp/usr/bin/hhfilter-ssse3 -- Installing: /<>/debian/tmp/usr/bin/hhsearch-ssse3 -- Installing: /<>/debian/tmp/usr/bin/hhalign-ssse3 -- Installing: /<>/debian/tmp/usr/bin/hhconsensus-ssse3 -- Installing: /<>/debian/tmp/usr/bin/a3m_extract-ssse3 -- Installing: /<>/debian/tmp/usr/bin/a3m_reduce-ssse3 -- Installing: /<>/debian/tmp/usr/bin/a3m_database_reduce-ssse3 -- Installing: /<>/debian/tmp/usr/bin/a3m_database_extract-ssse3 -- Installing: /<>/debian/tmp/usr/bin/a3m_database_filter-ssse3 -- Installing: /<>/debian/tmp/usr/bin/cstranslate-ssse3 -- Installing: /<>/debian/tmp/usr/bin/hhblits_omp-ssse3 -- Installing: /<>/debian/tmp/usr/bin/hhsearch_omp-ssse3 -- Installing: /<>/debian/tmp/usr/bin/hhalign_omp-ssse3 -- Installing: /<>/debian/tmp/usr/bin/hhblits_ca3m-ssse3 -- Up-to-date: /<>/debian/tmp/usr/scripts/a3m.py -- Up-to-date: /<>/debian/tmp/usr/scripts/addss.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/Align.pm -- Up-to-date: /<>/debian/tmp/usr/scripts/check_a3m.py -- Up-to-date: /<>/debian/tmp/usr/scripts/cif2fasta.py -- Up-to-date: /<>/debian/tmp/usr/scripts/create_profile_from_hhm.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/create_profile_from_hmmer.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/ffindex.py -- Up-to-date: /<>/debian/tmp/usr/scripts/get_a3m_size.py -- Up-to-date: /<>/debian/tmp/usr/scripts/hh_reader.py -- Up-to-date: /<>/debian/tmp/usr/scripts/hhmakemodel.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/hhmakemodel.py -- Up-to-date: /<>/debian/tmp/usr/scripts/HHPaths.pm -- Up-to-date: /<>/debian/tmp/usr/scripts/hhsuitedb.py -- Up-to-date: /<>/debian/tmp/usr/scripts/mergeali.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/multithread.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/pdb2fasta.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/pdbfilter.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/pdbfilter.py -- Up-to-date: /<>/debian/tmp/usr/scripts/reformat.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/renumberpdb.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/splitfasta.pl make[2]: Leaving directory '/<>/build_ssse3' cd build_sse3 && make -j2 install DESTDIR=/<>/hhsuite-3.3.0\+ds/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[2]: Entering directory '/<>/build_sse3' /usr/bin/cmake -S/<> -B/<>/build_sse3 --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/<>/build_sse3' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/<>/build_sse3' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /<>/debian/tmp/usr/bin/ffindex_reduce -- Installing: /<>/debian/tmp/usr/bin/ffindex_apply -- Installing: /<>/debian/tmp/usr/bin/ffindex_build -- Installing: /<>/debian/tmp/usr/bin/ffindex_from_fasta -- Installing: /<>/debian/tmp/usr/bin/ffindex_get -- Installing: /<>/debian/tmp/usr/bin/ffindex_modify -- Installing: /<>/debian/tmp/usr/bin/ffindex_unpack -- Installing: /<>/debian/tmp/usr/bin/ffindex_order -- Installing: /<>/debian/tmp/usr/bin/ffindex_from_fasta_with_split -- Up-to-date: /<>/debian/tmp/usr/data/context_data.crf -- Up-to-date: /<>/debian/tmp/usr/data/context_data.lib -- Up-to-date: /<>/debian/tmp/usr/data/cs219.lib -- Up-to-date: /<>/debian/tmp/usr/data/do_not_delete -- Up-to-date: /<>/debian/tmp/usr/data/do_not_delete.phr -- Up-to-date: /<>/debian/tmp/usr/data/do_not_delete.pin -- Up-to-date: /<>/debian/tmp/usr/data/do_not_delete.psq -- Installing: /<>/debian/tmp/usr/bin/hhblits-sse3 -- Installing: /<>/debian/tmp/usr/bin/hhmake-sse3 -- Installing: /<>/debian/tmp/usr/bin/hhfilter-sse3 -- Installing: /<>/debian/tmp/usr/bin/hhsearch-sse3 -- Installing: /<>/debian/tmp/usr/bin/hhalign-sse3 -- Installing: /<>/debian/tmp/usr/bin/hhconsensus-sse3 -- Installing: /<>/debian/tmp/usr/bin/a3m_extract-sse3 -- Installing: /<>/debian/tmp/usr/bin/a3m_reduce-sse3 -- Installing: /<>/debian/tmp/usr/bin/a3m_database_reduce-sse3 -- Installing: /<>/debian/tmp/usr/bin/a3m_database_extract-sse3 -- Installing: /<>/debian/tmp/usr/bin/a3m_database_filter-sse3 -- Installing: /<>/debian/tmp/usr/bin/cstranslate-sse3 -- Installing: /<>/debian/tmp/usr/bin/hhblits_omp-sse3 -- Installing: /<>/debian/tmp/usr/bin/hhsearch_omp-sse3 -- Installing: /<>/debian/tmp/usr/bin/hhalign_omp-sse3 -- Installing: /<>/debian/tmp/usr/bin/hhblits_ca3m-sse3 -- Up-to-date: /<>/debian/tmp/usr/scripts/a3m.py -- Up-to-date: /<>/debian/tmp/usr/scripts/addss.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/Align.pm -- Up-to-date: /<>/debian/tmp/usr/scripts/check_a3m.py -- Up-to-date: /<>/debian/tmp/usr/scripts/cif2fasta.py -- Up-to-date: /<>/debian/tmp/usr/scripts/create_profile_from_hhm.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/create_profile_from_hmmer.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/ffindex.py -- Up-to-date: /<>/debian/tmp/usr/scripts/get_a3m_size.py -- Up-to-date: /<>/debian/tmp/usr/scripts/hh_reader.py -- Up-to-date: /<>/debian/tmp/usr/scripts/hhmakemodel.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/hhmakemodel.py -- Up-to-date: /<>/debian/tmp/usr/scripts/HHPaths.pm -- Up-to-date: /<>/debian/tmp/usr/scripts/hhsuitedb.py -- Up-to-date: /<>/debian/tmp/usr/scripts/mergeali.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/multithread.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/pdb2fasta.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/pdbfilter.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/pdbfilter.py -- Up-to-date: /<>/debian/tmp/usr/scripts/reformat.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/renumberpdb.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/splitfasta.pl make[2]: Leaving directory '/<>/build_sse3' cd build_plain && make -j2 install DESTDIR=/<>/hhsuite-3.3.0\+ds/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[2]: Entering directory '/<>/build_plain' /usr/bin/cmake -S/<> -B/<>/build_plain --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/<>/build_plain' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/<>/build_plain' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /<>/debian/tmp/usr/bin/ffindex_reduce -- Installing: /<>/debian/tmp/usr/bin/ffindex_apply -- Installing: /<>/debian/tmp/usr/bin/ffindex_build -- Installing: /<>/debian/tmp/usr/bin/ffindex_from_fasta -- Installing: /<>/debian/tmp/usr/bin/ffindex_get -- Installing: /<>/debian/tmp/usr/bin/ffindex_modify -- Installing: /<>/debian/tmp/usr/bin/ffindex_unpack -- Installing: /<>/debian/tmp/usr/bin/ffindex_order -- Installing: /<>/debian/tmp/usr/bin/ffindex_from_fasta_with_split -- Up-to-date: /<>/debian/tmp/usr/data/context_data.crf -- Up-to-date: /<>/debian/tmp/usr/data/context_data.lib -- Up-to-date: /<>/debian/tmp/usr/data/cs219.lib -- Up-to-date: /<>/debian/tmp/usr/data/do_not_delete -- Up-to-date: /<>/debian/tmp/usr/data/do_not_delete.phr -- Up-to-date: /<>/debian/tmp/usr/data/do_not_delete.pin -- Up-to-date: /<>/debian/tmp/usr/data/do_not_delete.psq -- Installing: /<>/debian/tmp/usr/bin/hhblits-plain -- Installing: /<>/debian/tmp/usr/bin/hhmake-plain -- Installing: /<>/debian/tmp/usr/bin/hhfilter-plain -- Installing: /<>/debian/tmp/usr/bin/hhsearch-plain -- Installing: /<>/debian/tmp/usr/bin/hhalign-plain -- Installing: /<>/debian/tmp/usr/bin/hhconsensus-plain -- Installing: /<>/debian/tmp/usr/bin/a3m_extract-plain -- Installing: /<>/debian/tmp/usr/bin/a3m_reduce-plain -- Installing: /<>/debian/tmp/usr/bin/a3m_database_reduce-plain -- Installing: /<>/debian/tmp/usr/bin/a3m_database_extract-plain -- Installing: /<>/debian/tmp/usr/bin/a3m_database_filter-plain -- Installing: /<>/debian/tmp/usr/bin/cstranslate-plain -- Installing: /<>/debian/tmp/usr/bin/hhblits_omp-plain -- Installing: /<>/debian/tmp/usr/bin/hhsearch_omp-plain -- Installing: /<>/debian/tmp/usr/bin/hhalign_omp-plain -- Installing: /<>/debian/tmp/usr/bin/hhblits_ca3m-plain -- Up-to-date: /<>/debian/tmp/usr/scripts/a3m.py -- Up-to-date: /<>/debian/tmp/usr/scripts/addss.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/Align.pm -- Up-to-date: /<>/debian/tmp/usr/scripts/check_a3m.py -- Up-to-date: /<>/debian/tmp/usr/scripts/cif2fasta.py -- Up-to-date: /<>/debian/tmp/usr/scripts/create_profile_from_hhm.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/create_profile_from_hmmer.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/ffindex.py -- Up-to-date: /<>/debian/tmp/usr/scripts/get_a3m_size.py -- Up-to-date: /<>/debian/tmp/usr/scripts/hh_reader.py -- Up-to-date: /<>/debian/tmp/usr/scripts/hhmakemodel.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/hhmakemodel.py -- Up-to-date: /<>/debian/tmp/usr/scripts/HHPaths.pm -- Up-to-date: /<>/debian/tmp/usr/scripts/hhsuitedb.py -- Up-to-date: /<>/debian/tmp/usr/scripts/mergeali.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/multithread.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/pdb2fasta.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/pdbfilter.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/pdbfilter.py -- Up-to-date: /<>/debian/tmp/usr/scripts/reformat.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/renumberpdb.pl -- Up-to-date: /<>/debian/tmp/usr/scripts/splitfasta.pl make[2]: Leaving directory '/<>/build_plain' mkdir -p /<>/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 /<>/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 /<>/debian/hhsuite/usr/libexec/hhsuite/bin \ && for prog in cstranslate ; do \ ln -s ../simd-dispatch ${prog} ; done dh_install -phhsuite usr/bin/ffindex_* usr/bin/ make[1]: Leaving directory '/<>' debian/rules override_dh_auto_install-indep make[1]: Entering directory '/<>' dh_auto_install --builddirectory mybuild/data cd mybuild/data && make -j2 install DESTDIR=/<>/hhsuite-3.3.0\+ds/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[2]: Entering directory '/<>/mybuild/data' cd /<>/mybuild && /usr/bin/cmake -S/<> -B/<>/mybuild --check-build-system CMakeFiles/Makefile.cmake 0 cd /<>/mybuild && make -f CMakeFiles/Makefile2 data/preinstall make[3]: Entering directory '/<>/mybuild' make[3]: Nothing to be done for 'data/preinstall'. make[3]: Leaving directory '/<>/mybuild' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Up-to-date: /<>/debian/tmp/usr/data/context_data.crf -- Up-to-date: /<>/debian/tmp/usr/data/context_data.lib -- Up-to-date: /<>/debian/tmp/usr/data/cs219.lib -- Up-to-date: /<>/debian/tmp/usr/data/do_not_delete -- Up-to-date: /<>/debian/tmp/usr/data/do_not_delete.phr -- Up-to-date: /<>/debian/tmp/usr/data/do_not_delete.pin -- Up-to-date: /<>/debian/tmp/usr/data/do_not_delete.psq make[2]: Leaving directory '/<>/mybuild/data' make[1]: Leaving directory '/<>' dh_install dh_installdocs dh_installchangelogs dh_installexamples debian/rules override_dh_installman-arch make[1]: Entering directory '/<>' export HHLIB=. && help2man --no-info --help-option '-h all' --version-string 3.3.0+ds -n "$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 '/<>' dh_installman -Nhhsuite dh_perl dh_link dh_strip_nondeterminism dh_compress debian/rules override_dh_fixperms-arch make[1]: Entering directory '/<>' dh_fixperms chmod -x debian/hhsuite/usr/share/hhsuite/scripts/*.pm make[1]: Leaving directory '/<>' 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 '/<>' dh_gencontrol -- -Vsimde:Built-Using="simde (= 0.8.2-1), " make[1]: Leaving directory '/<>' dh_md5sums dh_builddeb dpkg-deb: building package 'hhsuite' in '../hhsuite_3.3.0+ds-8_amd64.deb'. dpkg-deb: building package 'hhsuite-data' in '../hhsuite-data_3.3.0+ds-8_all.deb'. dpkg-deb: building package 'hhsuite-dbgsym' in '../hhsuite-dbgsym_3.3.0+ds-8_amd64.deb'. dpkg-genbuildinfo -O../hhsuite_3.3.0+ds-8_amd64.buildinfo dpkg-genchanges -O../hhsuite_3.3.0+ds-8_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 2024-08-04T01:30:42Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ hhsuite_3.3.0+ds-8_amd64.changes: --------------------------------- Format: 1.8 Date: Sun, 13 Aug 2023 10:47:11 +0200 Source: hhsuite Binary: hhsuite hhsuite-data hhsuite-dbgsym Architecture: source all amd64 Version: 3.3.0+ds-8 Distribution: perl-5.40-throwaway Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Étienne Mollier Description: hhsuite - sensitive protein sequence searching based on HMM-HMM alignment hhsuite-data - sensitive protein sequence searching based on HMM-HMM alignment ( Closes: 1037689 Changes: hhsuite (3.3.0+ds-8) unstable; urgency=medium . * Team upload. * gcc-13.patch: new: fix ftbfs with gcc 13. (Closes: #1037689) * d/control: declare compliance to standards version 4.6.2. Checksums-Sha1: a31150dbd4ba5a8fee5393a98a505d34720f5aa2 1243 hhsuite_3.3.0+ds-8.dsc 0c6aa80d717ee79df31a05f33d2f461b1b6f0c88 16868 hhsuite_3.3.0+ds-8.debian.tar.xz 262e7be5b83dc9c81fc3723d97e7a6f2828ad07f 4402152 hhsuite-data_3.3.0+ds-8_all.deb c7b46cb4ab3e21303ff78e2828e66097ea9f17ff 124793192 hhsuite-dbgsym_3.3.0+ds-8_amd64.deb e002e56c5cb9870048b7c52a4afc8520a41ef135 7948 hhsuite_3.3.0+ds-8_amd64.buildinfo 790bacf022d34c66579f77094c6712f62f957f4b 56379568 hhsuite_3.3.0+ds-8_amd64.deb Checksums-Sha256: 35c9801c38ae7554ad58c3b91d452b398dff6a5b834cb52bae4aa458027f252f 1243 hhsuite_3.3.0+ds-8.dsc d408a3d42581737068f06b96cd922c462f672beeb4faf94f41ac37340170b3cb 16868 hhsuite_3.3.0+ds-8.debian.tar.xz a63b9845bb3133774e061b97e68ea55d257a970f86cf588d8f4f3123558839a5 4402152 hhsuite-data_3.3.0+ds-8_all.deb 584922e7a26a0bf4e37bbadedafdbf53f324dd247261c0d2d342659b8e57da59 124793192 hhsuite-dbgsym_3.3.0+ds-8_amd64.deb 7dc6a29c5d9ed65605d60c8d46480d5f2a7a87ac6b52c7b9c1a80c7cc2d79f04 7948 hhsuite_3.3.0+ds-8_amd64.buildinfo b3588f60856fdae0bf2eafd40bf9dac9ae8f0984faaa9c799616f69c3eb8cdd9 56379568 hhsuite_3.3.0+ds-8_amd64.deb Files: b91affbdd2af3b370976fc58fed3d2aa 1243 science optional hhsuite_3.3.0+ds-8.dsc 81b05abfd099550bfb153063e218961e 16868 science optional hhsuite_3.3.0+ds-8.debian.tar.xz c9b8c4baaf198c024d9f15d0e5ed4ffa 4402152 science optional hhsuite-data_3.3.0+ds-8_all.deb 7633158a72978f711353bc5e046e3e6e 124793192 debug optional hhsuite-dbgsym_3.3.0+ds-8_amd64.deb abe27a70727a13ed5bc5aa0f5e15bde2 7948 science optional hhsuite_3.3.0+ds-8_amd64.buildinfo 183cba90539ad83fad9086d6d3761d0f 56379568 science optional hhsuite_3.3.0+ds-8_amd64.deb +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: hhsuite Binary: hhsuite hhsuite-data hhsuite-dbgsym Architecture: all amd64 source Version: 3.3.0+ds-8 Checksums-Md5: b91affbdd2af3b370976fc58fed3d2aa 1243 hhsuite_3.3.0+ds-8.dsc c9b8c4baaf198c024d9f15d0e5ed4ffa 4402152 hhsuite-data_3.3.0+ds-8_all.deb 7633158a72978f711353bc5e046e3e6e 124793192 hhsuite-dbgsym_3.3.0+ds-8_amd64.deb 183cba90539ad83fad9086d6d3761d0f 56379568 hhsuite_3.3.0+ds-8_amd64.deb Checksums-Sha1: a31150dbd4ba5a8fee5393a98a505d34720f5aa2 1243 hhsuite_3.3.0+ds-8.dsc 262e7be5b83dc9c81fc3723d97e7a6f2828ad07f 4402152 hhsuite-data_3.3.0+ds-8_all.deb c7b46cb4ab3e21303ff78e2828e66097ea9f17ff 124793192 hhsuite-dbgsym_3.3.0+ds-8_amd64.deb 790bacf022d34c66579f77094c6712f62f957f4b 56379568 hhsuite_3.3.0+ds-8_amd64.deb Checksums-Sha256: 35c9801c38ae7554ad58c3b91d452b398dff6a5b834cb52bae4aa458027f252f 1243 hhsuite_3.3.0+ds-8.dsc a63b9845bb3133774e061b97e68ea55d257a970f86cf588d8f4f3123558839a5 4402152 hhsuite-data_3.3.0+ds-8_all.deb 584922e7a26a0bf4e37bbadedafdbf53f324dd247261c0d2d342659b8e57da59 124793192 hhsuite-dbgsym_3.3.0+ds-8_amd64.deb b3588f60856fdae0bf2eafd40bf9dac9ae8f0984faaa9c799616f69c3eb8cdd9 56379568 hhsuite_3.3.0+ds-8_amd64.deb Build-Origin: Debian Build-Architecture: amd64 Build-Date: Sun, 04 Aug 2024 01:30:40 +0000 Build-Path: /<> Build-Tainted-By: merged-usr-via-aliased-dirs usr-local-has-programs Installed-Build-Depends: autoconf (= 2.71-3), automake (= 1:1.16.5-1.3), autopoint (= 0.22.5-2), autotools-dev (= 20220109.1), base-files (= 13.4), base-passwd (= 3.6.4), bash (= 5.2.21-2.1), binutils (= 2.42.90.20240720-2), binutils-common (= 2.42.90.20240720-2), binutils-x86-64-linux-gnu (= 2.42.90.20240720-2), bsdextrautils (= 2.40.2-1), bsdutils (= 1:2.40.2-1), build-essential (= 12.10), bzip2 (= 1.0.8-5.1), cmake (= 3.30.2-1), cmake-data (= 3.30.2-1), coreutils (= 9.4-3.1), cpp (= 4:14.1.0-2), cpp-13 (= 13.3.0-4), cpp-13-x86-64-linux-gnu (= 13.3.0-4), cpp-14 (= 14.2.0-1), cpp-14-x86-64-linux-gnu (= 14.2.0-1), cpp-x86-64-linux-gnu (= 4:14.1.0-2), dash (= 0.5.12-9), debconf (= 1.5.87), debhelper (= 13.16), debianutils (= 5.20), dh-autoreconf (= 20), dh-strip-nondeterminism (= 1.14.0-1), diffutils (= 1:3.10-1), dpkg (= 1.22.11), dpkg-dev (= 1.22.11), dwz (= 0.15-1+b1), file (= 1:5.45-3), findutils (= 4.10.0-2), fontconfig-config (= 2.15.0-1.1), fonts-dejavu-core (= 2.37-8), fonts-dejavu-mono (= 2.37-8), g++ (= 4:14.1.0-2), g++-14 (= 14.2.0-1), g++-14-x86-64-linux-gnu (= 14.2.0-1), g++-x86-64-linux-gnu (= 4:14.1.0-2), gcc (= 4:14.1.0-2), gcc-13 (= 13.3.0-4), gcc-13-base (= 13.3.0-4), gcc-13-x86-64-linux-gnu (= 13.3.0-4), gcc-14 (= 14.2.0-1), gcc-14-base (= 14.2.0-1), gcc-14-x86-64-linux-gnu (= 14.2.0-1), gcc-x86-64-linux-gnu (= 4:14.1.0-2), gettext (= 0.22.5-2), gettext-base (= 0.22.5-2), grep (= 3.11-4), groff-base (= 1.23.0-5), gzip (= 1.12-1.1), help2man (= 1.49.3), hicolor-icon-theme (= 0.18-1), hostname (= 3.23+nmu2), imagemagick (= 8:6.9.13.12+dfsg1-1+b1), imagemagick-6-common (= 8:6.9.13.12+dfsg1-1), imagemagick-6.q16 (= 8:6.9.13.12+dfsg1-1+b1), init-system-helpers (= 1.66), intltool-debian (= 0.35.0+20060710.6), libacl1 (= 2.3.2-2), libarchive-zip-perl (= 1.68-1), libarchive13t64 (= 3.7.2-2.1), libasan8 (= 14.2.0-1), libatomic1 (= 14.2.0-1), libattr1 (= 1:2.5.2-1), libaudit-common (= 1:3.1.2-4), libaudit1 (= 1:3.1.2-4+b1), libbinutils (= 2.42.90.20240720-2), libblkid1 (= 2.40.2-1), libbrotli1 (= 1.1.0-2+b4), libbsd0 (= 0.12.2-1), libbz2-1.0 (= 1.0.8-5.1), libc-bin (= 2.39-6), libc-dev-bin (= 2.39-6), libc6 (= 2.39-6), libc6-dev (= 2.39-6), libcap-ng0 (= 0.8.5-1+b1), libcap2 (= 1:2.66-5), libcc1-0 (= 14.2.0-1), libcom-err2 (= 1.47.1-1), libcrypt-dev (= 1:4.4.36-4), libcrypt1 (= 1:4.4.36-4), libctf-nobfd0 (= 2.42.90.20240720-2), libctf0 (= 2.42.90.20240720-2), libcurl4t64 (= 8.9.1-1), libdav1d7 (= 1.4.3-1), libdb5.3t64 (= 5.3.28+dfsg2-7), libde265-0 (= 1.0.15-1+b2), libdebconfclient0 (= 0.272), libdebhelper-perl (= 13.16), libdeflate0 (= 1.20-1), libdpkg-perl (= 1.22.11), libelf1t64 (= 0.191-2), libexpat1 (= 2.6.2-1), libffi8 (= 3.4.6-1), libfftw3-double3 (= 3.3.10-1+b3), libfile-stripnondeterminism-perl (= 1.14.0-1), libfontconfig1 (= 2.15.0-1.1), libfreetype6 (= 2.13.2+dfsg-1+b4), libgcc-13-dev (= 13.3.0-4), libgcc-14-dev (= 14.2.0-1), libgcc-s1 (= 14.2.0-1), libgdbm-compat4t64 (= 1.23-6), libgdbm6t64 (= 1.23-6), libglib2.0-0t64 (= 2.81.1-3), libgmp10 (= 2:6.3.0+dfsg-2+b1), libgnutls30t64 (= 3.8.6-2), libgomp1 (= 14.2.0-1), libgprofng0 (= 2.42.90.20240720-2), libgssapi-krb5-2 (= 1.21.3-3), libheif-plugin-dav1d (= 1.18.1-1), libheif-plugin-libde265 (= 1.18.1-1), libheif1 (= 1.18.1-1), libhogweed6t64 (= 3.10-1), libhwasan0 (= 14.2.0-1), libicu72 (= 72.1-5), libidn2-0 (= 2.3.7-2), libisl23 (= 0.26-3+b2), libitm1 (= 14.2.0-1), libjansson4 (= 2.14-2+b2), libjbig0 (= 2.1-6.1+b1), libjpeg62-turbo (= 1:2.1.5-3), libjsoncpp25 (= 1.9.5-6+b2), libk5crypto3 (= 1.21.3-3), libkeyutils1 (= 1.6.3-3), libkrb5-3 (= 1.21.3-3), libkrb5support0 (= 1.21.3-3), liblcms2-2 (= 2.14-2+b1), libldap-2.5-0 (= 2.5.18+dfsg-2+b1), liblerc4 (= 4.0.0+ds-4+b1), liblocale-gettext-perl (= 1.07-7+b1), liblqr-1-0 (= 0.4.2-2.1+b1), liblsan0 (= 14.2.0-1), libltdl7 (= 2.4.7-7+b1), liblz4-1 (= 1.9.4-3), liblzma5 (= 5.6.2-2), libmagic-mgc (= 1:5.45-3), libmagic1t64 (= 1:5.45-3), libmagickcore-6.q16-7t64 (= 8:6.9.13.12+dfsg1-1+b1), libmagickwand-6.q16-7t64 (= 8:6.9.13.12+dfsg1-1+b1), libmd0 (= 1.1.0-2), libmount1 (= 2.40.2-1), libmpc3 (= 1.3.1-1+b2), libmpfr6 (= 4.2.1-1+b1), libncursesw6 (= 6.5-2), libnettle8t64 (= 3.10-1), libnghttp2-14 (= 1.62.1-2), libopenjp2-7 (= 2.5.0-2+b3), libp11-kit0 (= 0.25.5-2), libpam-modules (= 1.5.3-7), libpam-modules-bin (= 1.5.3-7), libpam-runtime (= 1.5.3-7), libpam0g (= 1.5.3-7), libpcre2-8-0 (= 10.42-4+b1), libperl5.40 (= 5.40.0-1), libpipeline1 (= 1.5.7-2), libpng16-16t64 (= 1.6.43-5), libproc2-0 (= 2:4.0.4-5), libpsl5t64 (= 0.21.2-1.1), libquadmath0 (= 14.2.0-1), libraw23t64 (= 0.21.2-2.1), librhash0 (= 1.4.3-3+b1), librtmp1 (= 2.4+20151223.gitfa8646d.1-2+b4), libsasl2-2 (= 2.1.28+dfsg1-6), libsasl2-modules-db (= 2.1.28+dfsg1-6), libseccomp2 (= 2.5.5-1+b1), libselinux1 (= 3.5-2+b3), libsframe1 (= 2.42.90.20240720-2), libsharpyuv0 (= 1.4.0-0.1), libsimde-dev (= 0.8.2-1), libsmartcols1 (= 2.40.2-1), libssh2-1t64 (= 1.11.0-7), libssl3t64 (= 3.3.1-2), libstdc++-14-dev (= 14.2.0-1), libstdc++6 (= 14.2.0-1), libsystemd0 (= 256.4-2), libtasn1-6 (= 4.19.0-3+b2), libtiff6 (= 4.5.1+git230720-4), libtinfo6 (= 6.5-2), libtool (= 2.4.7-7), libtsan2 (= 14.2.0-1), libubsan1 (= 14.2.0-1), libuchardet0 (= 0.0.8-1+b1), libudev1 (= 256.4-2), libunistring5 (= 1.2-1), libuuid1 (= 2.40.2-1), libuv1t64 (= 1.48.0-5), libwebp7 (= 1.4.0-0.1), libwebpdemux2 (= 1.4.0-0.1), libwebpmux3 (= 1.4.0-0.1), libx11-6 (= 2:1.8.7-1+b1), libx11-data (= 2:1.8.7-1), libxau6 (= 1:1.0.9-1+b1), libxcb1 (= 1.17.0-2), libxdmcp6 (= 1:1.1.2-3+b1), libxext6 (= 2:1.3.4-1+b1), libxml2 (= 2.12.7+dfsg-3+b1), libxxhash0 (= 0.8.2-2+b1), libzstd1 (= 1.5.6+dfsg-1), linux-libc-dev (= 6.9.12-1), m4 (= 1.4.19-4), make (= 4.3-4.1), man-db (= 2.12.1-2), mawk (= 1.3.4.20240622-2), ncurses-base (= 6.5-2), ncurses-bin (= 6.5-2), patch (= 2.7.6-7), perl (= 5.40.0-1), perl-base (= 5.40.0-1), perl-modules-5.40 (= 5.40.0-1), po-debconf (= 1.0.21+nmu1), procps (= 2:4.0.4-5), rpcsvc-proto (= 1.4.3-1), sed (= 4.9-2), sensible-utils (= 0.0.24), sysvinit-utils (= 3.09-2), tar (= 1.35+dfsg-3), usr-is-merged (= 39), util-linux (= 2.40.2-1), xz-utils (= 5.6.2-2), zlib1g (= 1:1.3.dfsg+really1.3.1-1) Environment: DEB_BUILD_OPTIONS="parallel=2" LANG="C.UTF-8" LC_COLLATE="C.UTF-8" LC_CTYPE="C.UTF-8" LD_LIBRARY_PATH="/usr/lib/libeatmydata" SOURCE_DATE_EPOCH="1691916431" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ hhsuite-data_3.3.0+ds-8_all.deb ------------------------------- new Debian package, version 2.0. size 4402152 bytes: control archive=796 bytes. 593 bytes, 15 lines control 367 bytes, 5 lines md5sums Package: hhsuite-data Source: hhsuite Version: 3.3.0+ds-8 Architecture: all Maintainer: Debian Med Packaging Team Installed-Size: 12890 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 2023-08-13 08:47 ./ drwxr-xr-x root/root 0 2023-08-13 08:47 ./usr/ drwxr-xr-x root/root 0 2023-08-13 08:47 ./usr/lib/ drwxr-xr-x root/root 0 2023-08-13 08:47 ./usr/lib/hhsuite/ drwxr-xr-x root/root 0 2023-08-13 08:47 ./usr/lib/hhsuite/data/ lrwxrwxrwx root/root 0 2023-08-13 08:47 ./usr/lib/hhsuite/data/context_data.crf -> ../../../share/hhsuite/data/context_data.crf lrwxrwxrwx root/root 0 2023-08-13 08:47 ./usr/lib/hhsuite/data/context_data.lib -> ../../../share/hhsuite/data/context_data.lib lrwxrwxrwx root/root 0 2023-08-13 08:47 ./usr/lib/hhsuite/data/cs219.lib -> ../../../share/hhsuite/data/cs219.lib drwxr-xr-x root/root 0 2023-08-13 08:47 ./usr/share/ drwxr-xr-x root/root 0 2023-08-13 08:47 ./usr/share/doc/ drwxr-xr-x root/root 0 2023-08-13 08:47 ./usr/share/doc/hhsuite-data/ -rw-r--r-- root/root 1841 2023-08-13 08:47 ./usr/share/doc/hhsuite-data/changelog.Debian.gz -rw-r--r-- root/root 20399 2023-08-13 08:47 ./usr/share/doc/hhsuite-data/copyright drwxr-xr-x root/root 0 2023-08-13 08:47 ./usr/share/hhsuite/ drwxr-xr-x root/root 0 2023-08-13 08:47 ./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-8_amd64.deb ----------------------------------- new Debian package, version 2.0. size 124793192 bytes: control archive=5184 bytes. 4643 bytes, 12 lines control 11214 bytes, 106 lines md5sums Package: hhsuite-dbgsym Source: hhsuite Version: 3.3.0+ds-8 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 127670 Depends: hhsuite (= 3.3.0+ds-8) Section: debug Priority: optional Description: debug symbols for hhsuite Build-Ids: 00a0b1d254110cf20c9c261e53de1cab7797764c 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2608888 2023-08-13 08:47 ./usr/lib/debug/.build-id/fc/bf81ebbc8b32b06067dbea33a34faf5c8b4aee.debug drwxr-xr-x root/root 0 2023-08-13 08:47 ./usr/lib/debug/.build-id/ff/ -rw-r--r-- root/root 2466368 2023-08-13 08:47 ./usr/lib/debug/.build-id/ff/2f69f9c51bff1de99475eb0540a74921c79b1a.debug drwxr-xr-x root/root 0 2023-08-13 08:47 ./usr/lib/debug/.dwz/ drwxr-xr-x root/root 0 2023-08-13 08:47 ./usr/lib/debug/.dwz/x86_64-linux-gnu/ -rw-r--r-- root/root 879008 2023-08-13 08:47 ./usr/lib/debug/.dwz/x86_64-linux-gnu/hhsuite.debug drwxr-xr-x root/root 0 2023-08-13 08:47 ./usr/share/ drwxr-xr-x root/root 0 2023-08-13 08:47 ./usr/share/doc/ lrwxrwxrwx root/root 0 2023-08-13 08:47 ./usr/share/doc/hhsuite-dbgsym -> hhsuite hhsuite_3.3.0+ds-8_amd64.deb ---------------------------- new Debian package, version 2.0. size 56379568 bytes: control archive=4592 bytes. 1472 bytes, 29 lines control 10398 bytes, 146 lines md5sums Package: hhsuite Version: 3.3.0+ds-8 Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 467543 Depends: libc6 (>= 2.38), libgcc-s1 (>= 3.0), libgomp1 (>= 6), libstdc++6 (>= 14), perl:any, hhsuite-data (= 3.3.0+ds-8), python3 Conflicts: ffindex Built-Using: simde (= 0.8.2-1) 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 2023-08-13 08:47 ./ drwxr-xr-x root/root 0 2023-08-13 08:47 ./usr/ drwxr-xr-x root/root 0 2023-08-13 08:47 ./usr/bin/ lrwxrwxrwx root/root 0 2023-08-13 08:47 ./usr/bin/a3m_database_extract -> ../libexec/hhsuite/simd-dispatch lrwxrwxrwx root/root 0 2023-08-13 08:47 ./usr/bin/a3m_database_filter -> ../libexec/hhsuite/simd-dispatch lrwxrwxrwx root/root 0 2023-08-13 08:47 ./usr/bin/a3m_database_reduce -> ../libexec/hhsuite/simd-dispatch lrwxrwxrwx root/root 0 2023-08-13 08:47 ./usr/bin/a3m_extract -> ../libexec/hhsuite/simd-dispatch lrwxrwxrwx root/root 0 2023-08-13 08:47 ./usr/bin/a3m_reduce -> ../libexec/hhsuite/simd-dispatch -rwxr-xr-x root/root 31136 2023-08-13 08:47 ./usr/bin/ffindex_apply -rwxr-xr-x root/root 31200 2023-08-13 08:47 ./usr/bin/ffindex_build -rwxr-xr-x root/root 26976 2023-08-13 08:47 ./usr/bin/ffindex_from_fasta -rwxr-xr-x root/root 30960 2023-08-13 08:47 ./usr/bin/ffindex_from_fasta_with_split -rwxr-xr-x root/root 26944 2023-08-13 08:47 ./usr/bin/ffindex_get -rwxr-xr-x root/root 27040 2023-08-13 08:47 ./usr/bin/ffindex_modify -rwxr-xr-x root/root 22768 2023-08-13 08:47 ./usr/bin/ffindex_order -rwxr-xr-x root/root 22768 2023-08-13 08:47 ./usr/bin/ffindex_reduce -rwxr-xr-x root/root 22768 2023-08-13 08:47 ./usr/bin/ffindex_unpack lrwxrwxrwx root/root 0 2023-08-13 08:47 ./usr/bin/hhalign -> ../libexec/hhsuite/simd-dispatch lrwxrwxrwx root/root 0 2023-08-13 08:47 ./usr/bin/hhalign_omp -> ../libexec/hhsuite/simd-dispatch lrwxrwxrwx root/root 0 2023-08-13 08:47 ./usr/bin/hhblits -> ../libexec/hhsuite/simd-dispatch lrwxrwxrwx root/root 0 2023-08-13 08:47 ./usr/bin/hhblits_ca3m -> ../libexec/hhsuite/simd-dispatch lrwxrwxrwx root/root 0 2023-08-13 08:47 ./usr/bin/hhblits_omp -> ../libexec/hhsuite/simd-dispatch lrwxrwxrwx root/root 0 2023-08-13 08:47 ./usr/bin/hhconsensus -> ../libexec/hhsuite/simd-dispatch lrwxrwxrwx root/root 0 2023-08-13 08:47 ./usr/bin/hhfilter -> ../libexec/hhsuite/simd-dispatch lrwxrwxrwx root/root 0 2023-08-13 08:47 ./usr/bin/hhmake -> ../libexec/hhsuite/simd-dispatch lrwxrwxrwx root/root 0 2023-08-13 08:47 ./usr/bin/hhsearch -> ../libexec/hhsuite/simd-dispatch lrwxrwxrwx root/root 0 2023-08-13 08:47 ./usr/bin/hhsearch_omp -> ../libexec/hhsuite/simd-dispatch drwxr-xr-x root/root 0 2023-08-13 08:47 ./usr/lib/ lrwxrwxrwx root/root 0 2023-08-13 08:47 ./usr/lib/hh -> hhsuite drwxr-xr-x root/root 0 2023-08-13 08:47 ./usr/lib/hhsuite/ drwxr-xr-x root/root 0 2023-08-13 08:47 ./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 2023-08-13 08:47 ./usr/lib/hhsuite/scripts -> ../../share/hhsuite/scripts drwxr-xr-x root/root 0 2023-08-13 08:47 ./usr/libexec/ drwxr-xr-x root/root 0 2023-08-13 08:47 ./usr/libexec/hhsuite/ -rwxr-xr-x root/root 51608 2023-08-13 08:47 ./usr/libexec/hhsuite/a3m_database_extract-avx -rwxr-xr-x root/root 51608 2023-08-13 08:47 ./usr/libexec/hhsuite/a3m_database_extract-avx2 -rwxr-xr-x root/root 51608 2023-08-13 08:47 ./usr/libexec/hhsuite/a3m_database_extract-plain -rwxr-xr-x root/root 51608 2023-08-13 08:47 ./usr/libexec/hhsuite/a3m_database_extract-sse3 -rwxr-xr-x root/root 51608 2023-08-13 08:47 ./usr/libexec/hhsuite/a3m_database_extract-sse4.1 -rwxr-xr-x root/root 51608 2023-08-13 08:47 ./usr/libexec/hhsuite/a3m_database_extract-ssse3 -rwxr-xr-x root/root 59800 2023-08-13 08:47 ./usr/libexec/hhsuite/a3m_database_filter-avx -rwxr-xr-x root/root 59800 2023-08-13 08:47 ./usr/libexec/hhsuite/a3m_database_filter-avx2 -rwxr-xr-x root/root 59800 2023-08-13 08:47 ./usr/libexec/hhsuite/a3m_database_filter-plain -rwxr-xr-x root/root 59800 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root/root 1021 2023-08-13 08:47 ./usr/share/man/man1/hhfilter.1.gz -rw-r--r-- root/root 1656 2023-08-13 08:47 ./usr/share/man/man1/hhmake.1.gz -rw-r--r-- root/root 3357 2023-08-13 08:47 ./usr/share/man/man1/hhsearch.1.gz +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: full Build-Space: 3768504 Build-Time: 1419 Distribution: perl-5.40-throwaway Host Architecture: amd64 Install-Time: 12 Job: /srv/debomatic/incoming/hhsuite_3.3.0+ds-8.dsc Machine Architecture: amd64 Package: hhsuite Package-Time: 1438 Source-Version: 3.3.0+ds-8 Space: 3768504 Status: successful Version: 3.3.0+ds-8 -------------------------------------------------------------------------------- Finished at 2024-08-04T01:30:42Z Build needed 00:23:58, 3768504k disk space