=>> Building biology/mmseqs2 build started at Sat Feb 21 10:11:03 EST 2026 port directory: /usr/ports/biology/mmseqs2 package name: MMseqs2-17.b804.f building for: FreeBSD pkg.DaveG.ca 15.0-RELEASE-p3 FreeBSD 15.0-RELEASE-p3 1500068 amd64 maintained by: jwb@FreeBSD.org Makefile datestamp: -rw-r--r-- 1 root wheel 1134 Jan 31 2025 /usr/ports/biology/mmseqs2/Makefile Ports top last git commit: eac71dbf758c Ports top unclean checkout: no Port dir last git commit: 2889989be020 Port dir unclean checkout: no Poudriere version: poudriere-git-3.4.2 Host OSVERSION: 1500068 Jail OSVERSION: 1500068 Job Id: 14 ---Begin Environment--- SHELL=/bin/sh OSVERSION=1500068 UNAME_v=FreeBSD 15.0-RELEASE-p3 1500068 UNAME_r=15.0-RELEASE-p3 BLOCKSIZE=K MAIL=/var/mail/root MM_CHARSET=UTF-8 LANG=C.UTF-8 STATUS=1 HOME=/root PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin MAKE_OBJDIR_CHECK_WRITABLE=0 LOCALBASE=/usr/local USER=root POUDRIERE_NAME=poudriere-git LIBEXECPREFIX=/usr/local/libexec/poudriere POUDRIERE_VERSION=3.4.2 MASTERMNT=/usr/local/poudriere/data/.m/freebsd_15_0_x64-HEAD-ALL/ref LC_COLLATE=C POUDRIERE_BUILD_TYPE=bulk PACKAGE_BUILDING=yes SAVED_TERM=tmux-256color OUTPUT_REDIRECTED_STDERR=4 OUTPUT_REDIRECTED=1 PWD=/usr/local/poudriere/data/.m/freebsd_15_0_x64-HEAD-ALL/14/.p OUTPUT_REDIRECTED_STDOUT=3 P_PORTS_FEATURES=FLAVORS SUBPACKAGES SELECTED_OPTIONS MASTERNAME=freebsd_15_0_x64-HEAD-ALL SCRIPTPREFIX=/usr/local/share/poudriere SCRIPTNAME=bulk.sh OLDPWD=/usr/local/poudriere/data/.m/freebsd_15_0_x64-HEAD-ALL/ref/.p/pool POUDRIERE_PKGNAME=poudriere-git-3.4.2 SCRIPTPATH=/usr/local/share/poudriere/bulk.sh POUDRIEREPATH=/usr/local/bin/poudriere ---End Environment--- ---Begin Poudriere Port Flags/Env--- PORT_FLAGS= PKGENV= FLAVOR= MAKE_ARGS= ---End Poudriere Port Flags/Env--- ---Begin OPTIONS List--- ---End OPTIONS List--- --MAINTAINER-- jwb@FreeBSD.org --End MAINTAINER-- --CONFIGURE_ARGS-- --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- ac_cv_path_PERL=/usr/local/bin/perl ac_cv_path_PERL_PATH=/usr/local/bin/perl PERL_USE_UNSAFE_INC=1 XDG_DATA_HOME=/wrkdirs/usr/ports/biology/mmseqs2/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/mmseqs2/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/mmseqs2/work/.cache HOME=/wrkdirs/usr/ports/biology/mmseqs2/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/mmseqs2/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/mmseqs2/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh --End CONFIGURE_ENV-- --MAKE_ENV-- NINJA_STATUS="[%p %s/%t] " PERL_USE_UNSAFE_INC=1 XDG_DATA_HOME=/wrkdirs/usr/ports/biology/mmseqs2/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/mmseqs2/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/mmseqs2/work/.cache HOME=/wrkdirs/usr/ports/biology/mmseqs2/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/mmseqs2/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/mmseqs2/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES DESTDIR=/wrkdirs/usr/ports/biology/mmseqs2/work/stage PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -march=x86-64 -fstack-protector-strong -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" -lpthread " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -march=x86-64 -fstack-protector-strong -fno-strict-aliasing " BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 0644" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" --End MAKE_ENV-- --PLIST_SUB-- CMAKE_BUILD_TYPE="release" OSREL=15.0 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib PERL_VERSION=5.42.0 PERL_VER=5.42 PERL5_MAN1=lib/perl5/site_perl/man/man1 PERL5_MAN3=lib/perl5/site_perl/man/man3 SITE_PERL=lib/perl5/site_perl SITE_ARCH=lib/perl5/site_perl/mach/5.42 DOCSDIR="share/doc/MMseqs2" EXAMPLESDIR="share/examples/MMseqs2" DATADIR="share/MMseqs2" WWWDIR="www/MMseqs2" ETCDIR="etc/MMseqs2" --End PLIST_SUB-- --SUB_LIST-- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/MMseqs2 DOCSDIR=/usr/local/share/doc/MMseqs2 EXAMPLESDIR=/usr/local/share/examples/MMseqs2 WWWDIR=/usr/local/www/MMseqs2 ETCDIR=/usr/local/etc/MMseqs2 --End SUB_LIST-- ---Begin make.conf--- DEFAULT_VERSIONS+=pgsql=15 DEFAULT_VERSIONS+=php=82 DISABLE_LICENSES=yes SELECTED_OPTIONS+=OPENBLAS ARCHDEF=AMD64K10h64SSE3 USE_PACKAGE_DEPENDS=yes BATCH=yes WRKDIRPREFIX=/wrkdirs PORTSDIR=/usr/ports PACKAGES=/packages DISTDIR=/distfiles FORCE_PACKAGE=yes PACKAGE_BUILDING=yes PACKAGE_BUILDING_FLAVORS=yes #### #### DEFAULT_VERSIONS+=pgsql=15 DEFAULT_VERSIONS+=php=82 DISABLE_LICENSES=yes SELECTED_OPTIONS+=OPENBLAS ARCHDEF=AMD64K10h64SSE3 WITH_CCACHE_BUILD=yes CCACHE_DIR=/root/.ccache #### Misc Poudriere #### .include "/etc/make.conf.ports_env" GID=0 UID=0 ---End make.conf--- --Resource limits-- cpu time (seconds, -t) unlimited file size (512-blocks, -f) unlimited data seg size (kbytes, -d) 33554432 stack size (kbytes, -s) 524288 core file size (512-blocks, -c) unlimited max memory size (kbytes, -m) unlimited locked memory (kbytes, -l) unlimited max user processes (-u) 89999 open files (-n) 8192 virtual mem size (kbytes, -v) unlimited swap limit (kbytes, -w) unlimited socket buffer size (bytes, -b) unlimited pseudo-terminals (-p) unlimited kqueues (-k) unlimited umtx shared locks (-o) unlimited pipebuf (-y) unlimited --End resource limits-- =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> MMseqs2-17.b804.f depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-2.5.1.pkg [pkg.DaveG.ca] Installing pkg-2.5.1... [pkg.DaveG.ca] Extracting pkg-2.5.1: .......... done ===> MMseqs2-17.b804.f depends on file: /usr/local/sbin/pkg - found ===> Returning to build of MMseqs2-17.b804.f =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Fetching all distfiles required by MMseqs2-17.b804.f for building =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Fetching all distfiles required by MMseqs2-17.b804.f for building => SHA256 Checksum OK for soedinglab-MMseqs2-17-b804f_GH0.tar.gz. =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Fetching all distfiles required by MMseqs2-17.b804.f for building ===> Extracting for MMseqs2-17.b804.f => SHA256 Checksum OK for soedinglab-MMseqs2-17-b804f_GH0.tar.gz. =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Patching for MMseqs2-17.b804.f ===> Applying FreeBSD patches for MMseqs2-17.b804.f from /usr/ports/biology/mmseqs2/files =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> MMseqs2-17.b804.f depends on package: zstd>0 - not found ===> Installing existing package /packages/All/zstd-1.5.7_1.pkg [pkg.DaveG.ca] Installing zstd-1.5.7_1... [pkg.DaveG.ca] Extracting zstd-1.5.7_1: .......... done ===> MMseqs2-17.b804.f depends on package: zstd>0 - found ===> Returning to build of MMseqs2-17.b804.f ===> MMseqs2-17.b804.f depends on file: /usr/local/bin/cmake - not found ===> Installing existing package /packages/All/cmake-core-3.31.10_1.pkg [pkg.DaveG.ca] Installing cmake-core-3.31.10_1... [pkg.DaveG.ca] `-- Installing expat-2.7.4... [pkg.DaveG.ca] `-- Extracting expat-2.7.4: .......... done [pkg.DaveG.ca] `-- Installing jsoncpp-1.9.6_1... [pkg.DaveG.ca] `-- Extracting jsoncpp-1.9.6_1: .......... done [pkg.DaveG.ca] `-- Installing libidn2-2.3.8... [pkg.DaveG.ca] | `-- Installing indexinfo-0.3.1_1... [pkg.DaveG.ca] | `-- Extracting indexinfo-0.3.1_1: . done [pkg.DaveG.ca] | `-- Installing libunistring-1.4.1... [pkg.DaveG.ca] | `-- Extracting libunistring-1.4.1: .......... done [pkg.DaveG.ca] `-- Extracting libidn2-2.3.8: .......... done [pkg.DaveG.ca] `-- Installing libuv-1.52.0... [pkg.DaveG.ca] `-- Extracting libuv-1.52.0: .......... done [pkg.DaveG.ca] `-- Installing rhash-1.4.6... [pkg.DaveG.ca] | `-- Installing gettext-runtime-0.26... [pkg.DaveG.ca] | `-- Extracting gettext-runtime-0.26: .......... done [pkg.DaveG.ca] `-- Extracting rhash-1.4.6: .......... done [pkg.DaveG.ca] Extracting cmake-core-3.31.10_1: .......... done ===> MMseqs2-17.b804.f depends on file: /usr/local/bin/cmake - found ===> Returning to build of MMseqs2-17.b804.f ===> MMseqs2-17.b804.f depends on executable: ninja - not found ===> Installing existing package /packages/All/ninja-1.13.2,4.pkg [pkg.DaveG.ca] Installing ninja-1.13.2,4... [pkg.DaveG.ca] `-- Installing python311-3.11.14_2... [pkg.DaveG.ca] | `-- Installing libffi-3.5.1... [pkg.DaveG.ca] | `-- Extracting libffi-3.5.1: .......... done [pkg.DaveG.ca] | `-- Installing mpdecimal-4.0.1... [pkg.DaveG.ca] | `-- Extracting mpdecimal-4.0.1: .......... done [pkg.DaveG.ca] | `-- Installing readline-8.3.3... [pkg.DaveG.ca] | `-- Extracting readline-8.3.3: .......... done [pkg.DaveG.ca] `-- Extracting python311-3.11.14_2: .......... done [pkg.DaveG.ca] Extracting ninja-1.13.2,4: ..... done ===== Message from python311-3.11.14_2: -- Note that some standard Python modules are provided as separate ports as they require additional dependencies. They are available as: py311-gdbm databases/py-gdbm@py311 py311-sqlite3 databases/py-sqlite3@py311 py311-tkinter x11-toolkits/py-tkinter@py311 ===> MMseqs2-17.b804.f depends on executable: ninja - found ===> Returning to build of MMseqs2-17.b804.f ===> MMseqs2-17.b804.f depends on package: perl5>=5.42.r<5.43 - not found ===> Installing existing package /packages/All/perl5-5.42.0_1.pkg [pkg.DaveG.ca] Installing perl5-5.42.0_1... [pkg.DaveG.ca] Extracting perl5-5.42.0_1: .......... done ===> MMseqs2-17.b804.f depends on package: perl5>=5.42.r<5.43 - found ===> Returning to build of MMseqs2-17.b804.f ===> MMseqs2-17.b804.f depends on file: /usr/local/bin/ccache - not found ===> Installing existing package /packages/All/ccache-3.7.12_8.pkg [pkg.DaveG.ca] Installing ccache-3.7.12_8... [pkg.DaveG.ca] Extracting ccache-3.7.12_8: ......... done Create compiler links... create symlink for cc create symlink for cc (world) create symlink for c++ create symlink for c++ (world) create symlink for CC create symlink for CC (world) create symlink for clang create symlink for clang (world) create symlink for clang++ create symlink for clang++ (world) ===== Message from ccache-3.7.12_8: -- NOTE: Please read /usr/local/share/doc/ccache/ccache-howto-freebsd.txt for information on using ccache with FreeBSD ports and src. ===> MMseqs2-17.b804.f depends on file: /usr/local/bin/ccache - found ===> Returning to build of MMseqs2-17.b804.f =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Configuring for MMseqs2-17.b804.f ===> Performing out-of-source build /bin/mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- The CXX compiler identification is Clang 19.1.7 -- The C compiler identification is Clang 19.1.7 -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/local/libexec/ccache/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/local/libexec/ccache/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Source Directory: /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f -- Project Directory: /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f -- Compiler is clang(++) -- Performing Test HAVE_AVX2_EXTENSIONS -- Performing Test HAVE_AVX2_EXTENSIONS - Success -- Performing Test HAVE_AVX_EXTENSIONS -- Performing Test HAVE_AVX_EXTENSIONS - Success -- Performing Test HAVE_SSE4_2_EXTENSIONS -- Performing Test HAVE_SSE4_2_EXTENSIONS - Success -- Performing Test HAVE_SSE4_1_EXTENSIONS -- Performing Test HAVE_SSE4_1_EXTENSIONS - Success -- Performing Test HAVE_SSE3_EXTENSIONS -- Performing Test HAVE_SSE3_EXTENSIONS - Success -- Performing Test HAVE_SSE2_EXTENSIONS -- Performing Test HAVE_SSE2_EXTENSIONS - Success -- Performing Test HAVE_SSE_EXTENSIONS -- Performing Test HAVE_SSE_EXTENSIONS - Success -- Found ZSTD: /usr/local/lib/libzstd.a CMake Deprecation Warning at lib/tinyexpr/CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- xxd not found, using xxdi.pl instead -- ShellCheck disabled -- Performing Test HAVE_POSIX_FADVISE -- Performing Test HAVE_POSIX_FADVISE - Success -- Performing Test HAVE_POSIX_MADVISE -- Performing Test HAVE_POSIX_MADVISE - Success -- OMPTL sorting fallback -- Found ZLIB -- Performing Test HAVE_ZLIB_CHECK -- Performing Test HAVE_ZLIB_CHECK - Success -- ZLIB works -- Found BZLIB -- Performing Test HAVE_BZLIB_CHECK -- Performing Test HAVE_BZLIB_CHECK - Success -- BZLIB works -- Found OpenMP -- Configuring done (52.4s) -- Generating done (0.2s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_COLOR_MAKEFILE CMAKE_MODULE_LINKER_FLAGS CMAKE_SHARED_LINKER_FLAGS CMAKE_VERBOSE_MAKEFILE FETCHCONTENT_FULLY_DISCONNECTED THREADS_HAVE_PTHREAD_ARG -- Build files have been written to: /wrkdirs/usr/ports/biology/mmseqs2/work/.build =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Building for MMseqs2-17.b804.f [ 0% 62/242] /usr/local/libexec/ccache/cc -I/usr/local/include -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/lib/tinyexpr -O2 -pipe -march=x86-64 -fstack-protector-strong -fno-strict-aliasing -ansi -Wall -Wshadow -fPIC -O3 -O2 -pipe -march=x86-64 -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -fsigned-char -D_WITH_GETLINE -MD -MT lib/tinyexpr/CMakeFiles/tinyexpr.dir/tinyexpr.c.o -MF lib/tinyexpr/CMakeFiles/tinyexpr.dir/tinyexpr.c.o.d -o lib/tinyexpr/CMakeFiles/tinyexpr.dir/tinyexpr.c.o -c /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/lib/tinyexpr/tinyexpr.c [ 0% 63/242] /usr/local/libexec/ccache/cc -I/usr/local/include -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/lib/tinyexpr -I/wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/lib/microtar -O2 -pipe -march=x86-64 -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -march=x86-64 -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -fsigned-char -D_WITH_GETLINE -MD -MT lib/microtar/CMakeFiles/microtar.dir/microtar.c.o -MF lib/microtar/CMakeFiles/microtar.dir/microtar.c.o.d -o lib/microtar/CMakeFiles/microtar.dir/microtar.c.o -c /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/lib/microtar/microtar.c [ 1% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/resources && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true CovSeqidQscPercMinDiag.lib && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl CovSeqidQscPercMinDiag.lib > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/CovSeqidQscPercMinDiag.lib.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/CovSeqidQscPercMinDiag.lib.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/CovSeqidQscPercMinDiag.lib.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/CovSeqidQscPercMinDiag.lib.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/CovSeqidQscPercMinDiag.lib.h [ 1% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/resources && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true CovSeqidQscPercMinDiagTargetCov.lib && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl CovSeqidQscPercMinDiagTargetCov.lib > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/CovSeqidQscPercMinDiagTargetCov.lib.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/CovSeqidQscPercMinDiagTargetCov.lib.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/CovSeqidQscPercMinDiagTargetCov.lib.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/CovSeqidQscPercMinDiagTargetCov.lib.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/CovSeqidQscPercMinDiagTargetCov.lib.h [ 2% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/resources && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true ExpOpt3_8_polished.cs32.lib && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl ExpOpt3_8_polished.cs32.lib > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/ExpOpt3_8_polished.cs32.lib.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/ExpOpt3_8_polished.cs32.lib.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/ExpOpt3_8_polished.cs32.lib.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/ExpOpt3_8_polished.cs32.lib.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/ExpOpt3_8_polished.cs32.lib.h [ 2% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/resources && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true Library255_may17.lib && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl Library255_may17.lib > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/Library255_may17.lib.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/Library255_may17.lib.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/Library255_may17.lib.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/Library255_may17.lib.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/Library255_may17.lib.h [ 2% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true PAM30.out && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl PAM30.out > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/PAM30.out.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/PAM30.out.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/PAM30.out.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/PAM30.out.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/PAM30.out.h [ 3% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true VTML40.out && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl VTML40.out > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/VTML40.out.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/VTML40.out.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/VTML40.out.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/VTML40.out.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/VTML40.out.h [ 3% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true VTML80.out && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl VTML80.out > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/VTML80.out.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/VTML80.out.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/VTML80.out.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/VTML80.out.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/VTML80.out.h [ 4% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/workflow && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true blastn.sh && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl blastn.sh > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/blastn.sh.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/blastn.sh.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/blastn.sh.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/blastn.sh.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/blastn.sh.h [ 4% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/workflow && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true blastp.sh && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl blastp.sh > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/blastp.sh.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/blastp.sh.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/blastp.sh.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/blastp.sh.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/blastp.sh.h [ 4% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/workflow && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true blastpgp.sh && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl blastpgp.sh > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/blastpgp.sh.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/blastpgp.sh.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/blastpgp.sh.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/blastpgp.sh.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/blastpgp.sh.h [ 5% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true blosum62.out && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl blosum62.out > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/blosum62.out.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/blosum62.out.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/blosum62.out.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/blosum62.out.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/blosum62.out.h [ 5% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/workflow && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true cascaded_clustering.sh && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl cascaded_clustering.sh > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/cascaded_clustering.sh.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/cascaded_clustering.sh.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/cascaded_clustering.sh.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/cascaded_clustering.sh.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/cascaded_clustering.sh.h [ 6% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/workflow && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true clustering.sh && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl clustering.sh > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/clustering.sh.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/clustering.sh.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/clustering.sh.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/clustering.sh.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/clustering.sh.h [ 6% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/workflow && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true createindex.sh && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl createindex.sh > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/createindex.sh.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/createindex.sh.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/createindex.sh.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/createindex.sh.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/createindex.sh.h [ 7% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/workflow && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true createtaxdb.sh && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl createtaxdb.sh > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/createtaxdb.sh.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/createtaxdb.sh.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/createtaxdb.sh.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/createtaxdb.sh.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/createtaxdb.sh.h [ 7% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/resources && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true cs219.lib && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl cs219.lib > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/cs219.lib.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/cs219.lib.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/cs219.lib.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/cs219.lib.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/cs219.lib.h [ 7% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/workflow && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true databases.sh && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl databases.sh > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/databases.sh.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/databases.sh.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/databases.sh.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/databases.sh.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/databases.sh.h [ 8% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/workflow && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true easycluster.sh && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl easycluster.sh > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/easycluster.sh.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/easycluster.sh.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/easycluster.sh.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/easycluster.sh.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/easycluster.sh.h [ 8% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/workflow && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true easyrbh.sh && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl easyrbh.sh > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/easyrbh.sh.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/easyrbh.sh.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/easyrbh.sh.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/easyrbh.sh.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/easyrbh.sh.h [ 9% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/workflow && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true easysearch.sh && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl easysearch.sh > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/easysearch.sh.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/easysearch.sh.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/easysearch.sh.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/easysearch.sh.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/easysearch.sh.h [ 9% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/workflow && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true easytaxonomy.sh && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl easytaxonomy.sh > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/easytaxonomy.sh.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/easytaxonomy.sh.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/easytaxonomy.sh.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/easytaxonomy.sh.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/easytaxonomy.sh.h [ 9% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/workflow && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true enrich.sh && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl enrich.sh > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/enrich.sh.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/enrich.sh.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/enrich.sh.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/enrich.sh.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/enrich.sh.h [ 10% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/workflow && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true iterativepp.sh && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl iterativepp.sh > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/iterativepp.sh.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/iterativepp.sh.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/iterativepp.sh.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/iterativepp.sh.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/iterativepp.sh.h [ 10% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/resources && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true krona_prelude.html && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl krona_prelude.html > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/krona_prelude.html.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/krona_prelude.html.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/krona_prelude.html.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/krona_prelude.html.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/krona_prelude.html.h [ 11% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/resources && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true libPolished_8.lib && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl libPolished_8.lib > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/libPolished_8.lib.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/libPolished_8.lib.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/libPolished_8.lib.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/libPolished_8.lib.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/libPolished_8.lib.h [ 11% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/workflow && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true linclust.sh && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl linclust.sh > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/linclust.sh.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/linclust.sh.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/linclust.sh.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/linclust.sh.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/linclust.sh.h [ 11% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/workflow && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true linsearch.sh && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl linsearch.sh > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/linsearch.sh.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/linsearch.sh.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/linsearch.sh.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/linsearch.sh.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/linsearch.sh.h [ 12% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/workflow && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true map.sh && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl map.sh > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/map.sh.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/map.sh.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/map.sh.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/map.sh.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/map.sh.h [ 12% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/workflow && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true multihitdb.sh && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl multihitdb.sh > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/multihitdb.sh.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/multihitdb.sh.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/multihitdb.sh.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/multihitdb.sh.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/multihitdb.sh.h [ 13% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/workflow && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true multihitsearch.sh && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl multihitsearch.sh > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/multihitsearch.sh.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/multihitsearch.sh.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/multihitsearch.sh.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/multihitsearch.sh.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/multihitsearch.sh.h [ 13% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true nucleotide.out && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl nucleotide.out > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/nucleotide.out.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/nucleotide.out.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/nucleotide.out.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/nucleotide.out.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/nucleotide.out.h [ 14% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/workflow && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true nucleotide_clustering.sh && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl nucleotide_clustering.sh > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/nucleotide_clustering.sh.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/nucleotide_clustering.sh.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/nucleotide_clustering.sh.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/nucleotide_clustering.sh.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/nucleotide_clustering.sh.h [ 14% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/workflow && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true rbh.sh && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl rbh.sh > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/rbh.sh.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/rbh.sh.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/rbh.sh.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/rbh.sh.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/rbh.sh.h [ 14% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/resources && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true result_viz_prelude.html.zst && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl result_viz_prelude.html.zst > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/result_viz_prelude.html.zst.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/result_viz_prelude.html.zst.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/result_viz_prelude.html.zst.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/result_viz_prelude.html.zst.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/result_viz_prelude.html.zst.h [ 15% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/workflow && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true searchslicedtargetprofile.sh && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl searchslicedtargetprofile.sh > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/searchslicedtargetprofile.sh.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/searchslicedtargetprofile.sh.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/searchslicedtargetprofile.sh.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/searchslicedtargetprofile.sh.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/searchslicedtargetprofile.sh.h [ 15% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/workflow && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true searchtargetprofile.sh && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl searchtargetprofile.sh > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/searchtargetprofile.sh.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/searchtargetprofile.sh.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/searchtargetprofile.sh.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/searchtargetprofile.sh.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/searchtargetprofile.sh.h [ 16% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/workflow && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true taxonomy.sh && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl taxonomy.sh > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/taxonomy.sh.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/taxonomy.sh.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/taxonomy.sh.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/taxonomy.sh.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/taxonomy.sh.h [ 16% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/workflow && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true taxpercontig.sh && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl taxpercontig.sh > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/taxpercontig.sh.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/taxpercontig.sh.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/taxpercontig.sh.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/taxpercontig.sh.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/taxpercontig.sh.h [ 16% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/workflow && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true translated_search.sh && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl translated_search.sh > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/translated_search.sh.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/translated_search.sh.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/translated_search.sh.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/translated_search.sh.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/translated_search.sh.h [ 17% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/workflow && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true tsv2exprofiledb.sh && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl tsv2exprofiledb.sh > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/tsv2exprofiledb.sh.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/tsv2exprofiledb.sh.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/tsv2exprofiledb.sh.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/tsv2exprofiledb.sh.h.tmp /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/tsv2exprofiledb.sh.h [ 17% 64/242] cd /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/data/workflow && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/checkshell.sh true update_clustering.sh && mkdir -p /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated && /wrkdirs/usr/ports/biology/mmseqs2/work/MMseqs2-17-b804f/cmake/xxdi.pl update_clustering.sh > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/update_clustering.sh.h && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/update_clustering.sh.h > /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/update_clustering.sh.h.tmp && mv -f /wrkdirs/usr/ports/biology/mmseqs2/work/.build/generated/update_clustering.sh.h.tmp 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src/CMakeFiles/mmseqs-framework.dir/MMseqsBase.cpp.o && /usr/bin/llvm-ranlib src/libmmseqs-framework.a && : [100% 242/242] : && /usr/local/libexec/ccache/c++ -O2 -pipe -march=x86-64 -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -march=x86-64 -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -lpthread -fsigned-char -D_WITH_GETLINE -std=c++1y -stdlib=libc++ -pedantic -Wall -Wextra -Wdisabled-optimization -fno-exceptions -fopenmp=libomp -Xlinker --dependency-file=src/CMakeFiles/mmseqs.dir/link.d src/CMakeFiles/mmseqs.dir/mmseqs.cpp.o -o src/mmseqs src/libmmseqs-framework.a src/version/libversion.a lib/tinyexpr/libtinyexpr.a -lm /usr/local/lib/libzstd.a lib/microtar/libmicrotar.a lib/tantan/libtantan.a -lz -lbz2 -lomp && : =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Staging for MMseqs2-17.b804.f ===> Generating temporary packing list [ 0% 1/1] cd /wrkdirs/usr/ports/biology/mmseqs2/work/.build && /usr/local/bin/cmake -DCMAKE_INSTALL_DO_STRIP=1 -P cmake_install.cmake -- Install configuration: "Release" -- Installing: /wrkdirs/usr/ports/biology/mmseqs2/work/stage/usr/local/bin/mmseqs -- Installing: /wrkdirs/usr/ports/biology/mmseqs2/work/stage/usr/local/util/bash-completion.sh /bin/mv /wrkdirs/usr/ports/biology/mmseqs2/work/stage/usr/local/util /wrkdirs/usr/ports/biology/mmseqs2/work/stage/usr/local/share/MMseqs2 ====> Compressing man pages (compress-man) =========================================================================== =================================================== ===== env: 'PKG_NOTES=build_timestamp ports_top_git_hash ports_top_checkout_unclean port_git_hash port_checkout_unclean built_by' 'PKG_NOTE_build_timestamp=2026-02-21T15:11:03+0000' 'PKG_NOTE_ports_top_git_hash=eac71dbf758c' 'PKG_NOTE_ports_top_checkout_unclean=no' 'PKG_NOTE_port_git_hash=2889989be020' 'PKG_NOTE_port_checkout_unclean=no' 'PKG_NOTE_built_by=poudriere-git-3.4.2' NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Building packages for MMseqs2-17.b804.f ===> Building MMseqs2-17.b804.f =========================================================================== =>> Cleaning up wrkdir ===> Cleaning for MMseqs2-17.b804.f build of biology/mmseqs2 | MMseqs2-17.b804.f ended at Sat Feb 21 10:14:40 EST 2026 build time: 00:03:46