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Maintainer: [email protected] Log URL: https://pkg-status.freebsd.org/beefy16/data/135amd64-default/ac0d6e5009d2/logs/ncbi-cxx-toolkit-29.7.0.log Build URL: https://pkg-status.freebsd.org/beefy16/build.html?mastername=135amd64-default&build=ac0d6e5009d2 Log: =>> Building biology/ncbi-cxx-toolkit build started at Mon Dec 1 02:05:48 -00 2025 port directory: /usr/ports/biology/ncbi-cxx-toolkit package name: ncbi-cxx-toolkit-29.7.0 building for: FreeBSD 135amd64-default-job-04 13.5-RELEASE-p7 FreeBSD 13.5-RELEASE-p7 amd64 maintained by: [email protected] Makefile datestamp: -rw-r--r-- 1 root wheel 1609 Nov 8 01:03 /usr/ports/biology/ncbi-cxx-toolkit/Makefile Ports top last git commit: ac0d6e5009d2f6748717870e3d2cb015761dde4f Ports top unclean checkout: no Port dir last git commit: 118b49380838da67632bece0503fb73b8226754a Port dir unclean checkout: no Poudriere version: poudriere-git-3.4.4-6-gd1913ec3 Host OSVERSION: 1600000 Jail OSVERSION: 1305000 Job Id: 04 ---Begin Environment--- SHELL=/bin/csh OSVERSION=1305000 UNAME_v=FreeBSD 13.5-RELEASE-p7 UNAME_r=13.5-RELEASE-p7 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=3.4.4-6-gd1913ec3 MASTERMNT=/usr/local/poudriere/data/.m/135amd64-default/ref LC_COLLATE=C POUDRIERE_BUILD_TYPE=bulk PACKAGE_BUILDING=yes SAVED_TERM= OUTPUT_REDIRECTED_STDERR=4 OUTPUT_REDIRECTED=1 PWD=/usr/local/poudriere/data/.m/135amd64-default/04/.p OUTPUT_REDIRECTED_STDOUT=3 P_PORTS_FEATURES=FLAVORS SUBPACKAGES SELECTED_OPTIONS MASTERNAME=135amd64-default SCRIPTPREFIX=/usr/local/share/poudriere SCRIPTNAME=bulk.sh OLDPWD=/usr/local/poudriere/data/.m/135amd64-default/ref/.p/pool POUDRIERE_PKGNAME=poudriere-git-3.4.4-6-gd1913ec3 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-- [email protected] --End MAINTAINER-- --CONFIGURE_ARGS-- --without-debug --with-dll --without-static --without-vdb --x-libraries=/usr/local/lib --x-includes=/usr/local/include --prefix=/usr/local ${_LATE_CONFIGURE_ARGS} --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- MAKE=/usr/local/bin/gmake ac_cv_path_PERL=/usr/local/bin/perl ac_cv_path_PERL_PATH=/usr/local/bin/perl PERL_USE_UNSAFE_INC=1 PYTHON="/usr/local/bin/python3.11" XDG_DATA_HOME=/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/.cache HOME=/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh CONFIG_SITE=/usr/ports/Templates/config.site lt_cv_sys_max_cmd_len=524288 --End CONFIGURE_ENV-- --MAKE_ENV-- PERL_USE_UNSAFE_INC=1 OPENSSLBASE=/usr OPENSSLDIR=/etc/ssl OPENSSLINC=/usr/include OPENSSLLIB=/usr/lib XDG_DATA_HOME=/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/.cache HOME=/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/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 PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " BSD_INSTALL_PROGRAM="in stall -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-- PYTHON_INCLUDEDIR=include/python3.11 PYTHON_LIBDIR=lib/python3.11 PYTHON_PLATFORM=freebsd13 PYTHON_SITELIBDIR=lib/python3.11/site-packages PYTHON_SUFFIX=311 PYTHON_BASESUFFIX=311 PYTHON_TAG=.cpython-311 PYTHON_SOABI=.cpython-311 PYTHON_VER=3.11 PYTHON_BASEVER=3.11 PYTHON_VERSION=python3.11 PYTHON2="@comment " PYTHON3="" OSREL=13.5 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/ncbi-cxx-toolkit" EXAMPLESDIR="share/examples/ncbi-cxx-toolkit" DATADIR="share/ncbi-cxx-toolkit" WWWDIR="www/ncbi-cxx-toolkit" ETCDIR="etc/ncbi-cxx-toolkit" --End PLIST_SUB-- --SUB_LIST-- PYTHON_INCLUDEDIR=/usr/local/include/python3.11 PYTHON_LIBDIR=/usr/local/lib/python3.11 PYTHON_PLATFORM=freebsd13 PYTHON_SITELIBDIR=/usr/local/lib/python3.11/site-packages PYTHON_SUFFIX=311 PYTHON_BASESUFFIX=311 PYTHON_TAG=.cpython-311 PYTHON_SOABI=.cpython-311 PYTHON_VER=3.11 PYTHON_BASEVER=3.11 PYTHON_VERSION=python3.11 PYTHON2="@comment " PYTHON3="" PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/ncbi-cxx-toolkit DOCSDIR=/usr/local/share/doc/ncbi-cxx-toolkit EXAMPLESDIR=/usr/local/share/examples/ncbi-cxx-toolkit WWWDIR=/usr/local/www/ncbi-cxx-toolkit ETCDIR=/usr/local/etc/ncbi-cxx-toolkit --End SUB_LIST-- ---Begin make.conf--- USE_PACKAGE_DEPENDS=yes BATCH=yes WRKDIRPREFIX=/wrkdirs PORTSDIR=/usr/ports PACKAGES=/packages DISTDIR=/distfiles PACKAGE_BUILDING=yes PACKAGE_BUILDING_FLAVORS=yes #### #### # XXX: We really need this but cannot use it while 'make checksum' does not # try the next mirror on checksum failure. It currently retries the same # failed mirror and then fails rather then trying another. It *does* # try the next if the size is mismatched though. #MASTER_SITE_FREEBSD=yes # Build ALLOW_MAKE_JOBS_PACKAGES with 3 jobs MAKE_JOBS_NUMBER=3 #### 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 --End resource limits-- =======================<phase: check-sanity >============================ ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License PD accepted by the user =========================================================================== =======================<phase: pkg-depends >============================ ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> ncbi-cxx-toolkit-29.7.0 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-2.4.2_1.pkg [135amd64-default-job-04] Installing pkg-2.4.2_1... [135amd64-default-job-04] Extracting pkg-2.4.2_1: .......... done ===> ncbi-cxx-toolkit-29.7.0 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of ncbi-cxx-toolkit-29.7.0 =========================================================================== =======================<phase: fetch-depends >============================ ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =======================<phase: fetch >============================ ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License PD accepted by the user ===> Fetching all distfiles required by ncbi-cxx-toolkit-29.7.0 for building =========================================================================== =======================<phase: checksum >============================ ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License PD accepted by the user ===> Fetching all distfiles required by ncbi-cxx-toolkit-29.7.0 for building => SHA256 Checksum OK for ncbi-ncbi-cxx-toolkit-public-release-29.7.0_GH0.tar.gz. =========================================================================== =======================<phase: extract-depends>============================ ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =======================<phase: extract >============================ ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License PD accepted by the user ===> Fetching all distfiles required by ncbi-cxx-toolkit-29.7.0 for building ===> Extracting for ncbi-cxx-toolkit-29.7.0 => SHA256 Checksum OK for ncbi-ncbi-cxx-toolkit-public-release-29.7.0_GH0.tar.gz. =========================================================================== =======================<phase: patch-depends >============================ ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =======================<phase: patch >============================ ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Patching for ncbi-cxx-toolkit-29.7.0 ===> Applying FreeBSD patches for ncbi-cxx-toolkit-29.7.0 from /usr/ports/biology/ncbi-cxx-toolkit/files =========================================================================== =======================<phase: build-depends >============================ ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> ncbi-cxx-toolkit-29.7.0 depends on package: gmake>=4.4.1 - not found ===> Installing existing package /packages/All/gmake-4.4.1.pkg [135amd64-default-job-04] Installing gmake-4.4.1... [135amd64-default-job-04] `-- Installing gettext-runtime-0.23.1... [135amd64-default-job-04] | `-- Installing indexinfo-0.3.1_1... [135amd64-default-job-04] | `-- Extracting indexinfo-0.3.1_1: .... done [135amd64-default-job-04] `-- Extracting gettext-runtime-0.23.1: .......... done [135amd64-default-job-04] Extracting gmake-4.4.1: .......... done ===> ncbi-cxx-toolkit-29.7.0 depends on package: gmake>=4.4.1 - found ===> Returning to build of ncbi-cxx-toolkit-29.7.0 ===> ncbi-cxx-toolkit-29.7.0 depends on file: /usr/local/bin/python3.11 - not found ===> Installing existing package /packages/All/python311-3.11.14.pkg [135amd64-default-job-04] Installing python311-3.11.14... [135amd64-default-job-04] `-- Installing libffi-3.5.1... [135amd64-default-job-04] `-- Extracting libffi-3.5.1: .......... done [135amd64-default-job-04] `-- Installing mpdecimal-4.0.1... [135amd64-default-job-04] `-- Extracting mpdecimal-4.0.1: .......... done [135amd64-default-job-04] `-- Installing readline-8.3.1... [135amd64-default-job-04] `-- Extracting readline-8.3.1: .......... done [135amd64-default-job-04] Extracting python311-3.11.14: .......... done ===== Message from python311-3.11.14: -- Note that some standard Python modules are provided as separate ports as they require additional dependencies. They are available as: <snip> gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/build/objtools/eutils/api' gmake[5]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/build/objtools/eutils/api' gmake[5]: Nothing to be done for 'export-headers'. gmake[5]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/build/objtools/eutils/api' gmake[5]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/build/objtools/eutils/api' gmake[5]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/build/objtools/eutils/api' gmake[5]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/build/objtools/eutils/api' Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/eutils/api/eutils.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/eutils/api/efetch.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/eutils/api/einfo.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/eutils/api/esearch.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/eutils/api/egquery.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/eutils/api/epost.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/eutils/api/elink.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/eutils/api/esummary.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/eutils/api/espell.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/eutils/api/ehistory.cpp. /usr/bin/c++ -stdlib=libc++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-deprecated-register -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/inc -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/include -DNCBI_BUILD_SESSION_ID=7beff766-ce5a-11f0-af51-0cc47ad937e2 /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/eutils/api/eutils.cpp -o eutils.o /usr/bin/c++ -stdlib=libc++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-deprecated-register -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/inc -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/include -DNCBI_BUILD_SESSION_ID=7beff766-ce5a-11f0-af51-0cc47ad937e2 /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/eutils/api/efetch.cpp -o efetch.o /usr/bin/c++ -stdlib=libc++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-deprecated-register -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/inc -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/include -DNCBI_BUILD_SESSION_ID=7beff766-ce5a-11f0-af51-0cc47ad937e2 /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/eutils/api/einfo.cpp -o einfo.o /usr/bin/c++ -stdlib=libc++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-deprecated-register -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/inc -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/include -DNCBI_BUILD_SESSION_ID=7beff766-ce5a-11f0-af51-0cc47ad937e2 /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/eutils/api/esearch.cpp -o esearch.o /usr/bin/c++ -stdlib=libc++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-deprecated-register -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/inc -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/include -DNCBI_BUILD_SESSION_ID=7beff766-ce5a-11f0-af51-0cc47ad937e2 /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/eutils/api/egquery.cpp -o egquery.o /usr/bin/c++ -stdlib=libc++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-deprecated-register -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/inc -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/include -DNCBI_BUILD_SESSION_ID=7beff766-ce5a-11f0-af51-0cc47ad937e2 /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/eutils/api/epost.cpp -o epost.o /usr/bin/c++ -stdlib=libc++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-deprecated-register -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/inc -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/include -DNCBI_BUILD_SESSION_ID=7beff766-ce5a-11f0-af51-0cc47ad937e2 /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/eutils/api/elink.cpp -o elink.o /usr/bin/c++ -stdlib=libc++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-deprecated-register -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/inc -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/include -DNCBI_BUILD_SESSION_ID=7beff766-ce5a-11f0-af51-0cc47ad937e2 /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/eutils/api/esummary.cpp -o esummary.o /usr/bin/c++ -stdlib=libc++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-deprecated-register -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/inc -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/include -DNCBI_BUILD_SESSION_ID=7beff766-ce5a-11f0-af51-0cc47ad937e2 /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/eutils/api/espell.cpp -o espell.o /usr/bin/c++ -stdlib=libc++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-deprecated-register -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/inc -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/include -DNCBI_BUILD_SESSION_ID=7beff766-ce5a-11f0-af51-0cc47ad937e2 /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/eutils/api/ehistory.cpp -o ehistory.o /bin/rm -f libeutils.so .libeutils.so.stamp /usr/bin/c++ -stdlib=libc++ -std=gnu++20 -shared -o libeutils.so -Wl,-rpath,/usr/local/lib -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -O -fPIC eutils.o efetch.o einfo.o esearch.o egquery.o epost.o elink.o esummary.o espell.o ehistory.o -L/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/lib -leinfo -lesearch -legquery -lepost -lelink -lesummary -lespell -luilist -lehistory -lm -pthread /bin/sh /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/scripts/common/impl/if_diff.sh /bin/ln -f libeutils.so /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/lib /bin/ln -f libeutils.so /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/lib/libeutils.so /bin/ln -f .eutils.dep /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/status/.eutils.dep gmake[5]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/build/objtools/eutils/api' gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/build/objtools/eutils/api' gmake[3]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/build/objtools/eutils' /usr/local/bin/gmake -C edit --jobserver-auth=fifo:/tmp/GMfifo54927 all_r || exit 5 gmake[3]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/build/objtools/edit' gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/build/objtools/edit' gmake[4]: Nothing to be done for 'export-headers'. gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/build/objtools/edit' gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/build/objtools/edit' gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/build/objtools/edit' /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/bin/run_with_lock: Unable to rename log file make_edit.log.new: No such file or directory. PLEASE submit a bug report to https://bugs.freebsd.org/submit/ and include the crash backtrace, preprocessed source, and associated run script. Stack dump: 0. Program arguments: /usr/bin/c++ -stdlib=libc++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-deprecated-register -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/inc -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/include -DNCBI_BUILD_SESSION_ID=7beff766-ce5a-11f0-af51-0cc47ad937e2 /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/promote.cpp -o promote.o 1. /usr/include/c++/v1/__algorithm/ranges_reverse.h:49:25: current parser token ';' 2. /usr/include/c++/v1/__algorithm/ranges_reverse.h:27:1 <Spelling=/usr/include/c++/v1/__config:617:39>: parsing namespace 'std' 3. /usr/include/c++/v1/__algorithm/ranges_reverse.h:27:1 <Spelling=/usr/include/c++/v1/__config:618:39>: parsing namespace 'std::__1' 4. /usr/include/c++/v1/__algorithm/ranges_reverse.h:29:1: parsing namespace 'std::ranges' 5. /usr/include/c++/v1/__algorithm/ranges_reverse.h:30:1: parsing namespace 'std::ranges::__reverse' 6. /usr/include/c++/v1/__algorithm/ranges_reverse.h:31:1: parsing struct/union/class body 'std::ranges::__reverse::__fn' 7. /usr/include/c++/v1/__algorithm/ranges_reverse.h:34:87: parsing function body 'std::ranges::__reverse::__fn::operator()' 8. /usr/include/c++/v1/__algorithm/ranges_reverse.h:34:87: in compound statement ('{}') 9. /usr/include/c++/v1/__algorithm/ranges_reverse.h:47:12: in compound statement ('{}') #0 0x00000000055395b1 (/usr/bin/c+++0x55395b1) #1 0x0000000005537565 (/usr/bin/c+++0x5537565) #2 0x0000000005503628 (/usr/bin/c+++0x5503628) #3 0x000000082a50c310 (/lib/libthr.so.3+0x1a310) #4 0x000000082a50b8db (/lib/libthr.so.3+0x198db) #5 0x00000008272342d3 ([vdso]+0x2d3) #6 0x00000000025daf20 (/usr/bin/c+++0x25daf20) #7 0x00000000025b7424 (/usr/bin/c+++0x25b7424) #8 0x0000000003d3def7 (/usr/bin/c+++0x3d3def7) #9 0x0000000003d3e4ee (/usr/bin/c+++0x3d3e4ee) #10 0x0000000003d069c9 (/usr/bin/c+++0x3d069c9) #11 0x0000000003d0641e (/usr/bin/c+++0x3d0641e) #12 0x0000000003d06305 (/usr/bin/c+++0x3d06305) #13 0x0000000003d09c66 (/usr/bin/c+++0x3d09c66) #14 0x0000000003d089e8 (/usr/bin/c+++0x3d089e8) #15 0x0000000003d00aea (/usr/bin/c+++0x3d00aea) #16 0x000000000379aef2 (/usr/bin/c+++0x379aef2) #17 0x0000000003794b35 (/usr/bin/c+++0x3794b35) #18 0x00000000037e670e (/usr/bin/c+++0x37e670e) #19 0x00000000037e3cad (/usr/bin/c+++0x37e3cad) #20 0x00000000037e317f (/usr/bin/c+++0x37e317f) #21 0x00000000037e2a59 (/usr/bin/c+++0x37e2a59) #22 0x0000000003823ff4 (/usr/bin/c+++0x3823ff4) #23 0x0000000003822330 (/usr/bin/c+++0x3822330) #24 0x000000000382ad22 (/usr/bin/c+++0x382ad22) #25 0x0000000003823c66 (/usr/bin/c+++0x3823c66) #26 0x0000000003822330 (/usr/bin/c+++0x3822330) #27 0x0000000003825f1f (/usr/bin/c+++0x3825f1f) #28 0x00000000038232f6 (/usr/bin/c+++0x38232f6) #29 0x0000000003822330 (/usr/bin/c+++0x3822330) #30 0x000000000382ad22 (/usr/bin/c+++0x382ad22) #31 0x000000000382bdb8 (/usr/bin/c+++0x382bdb8) #32 0x00000000038513f3 (/usr/bin/c+++0x38513f3) #33 0x000000000384ff6a (/usr/bin/c+++0x384ff6a) #34 0x00000000037c9c55 (/usr/bin/c+++0x37c9c55) #35 0x00000000037c7791 (/usr/bin/c+++0x37c7791) #36 0x00000000037e8613 (/usr/bin/c+++0x37e8613) #37 0x0000000003776ba6 (/usr/bin/c+++0x3776ba6) #38 0x00000000037768cb (/usr/bin/c+++0x37768cb) #39 0x00000000037758cd (/usr/bin/c+++0x37758cd) #40 0x00000000037bfe4a (/usr/bin/c+++0x37bfe4a) #41 0x00000000037bf884 (/usr/bin/c+++0x37bf884) #42 0x00000000037e2bf2 (/usr/bin/c+++0x37e2bf2) #43 0x000000000377514e (/usr/bin/c+++0x377514e) #44 0x00000000037bfe4a (/usr/bin/c+++0x37bfe4a) #45 0x00000000037bf884 (/usr/bin/c+++0x37bf884) #46 0x00000000037e2bf2 (/usr/bin/c+++0x37e2bf2) #47 0x000000000377514e (/usr/bin/c+++0x377514e) #48 0x00000000037bfe4a (/usr/bin/c+++0x37bfe4a) #49 0x00000000037bf884 (/usr/bin/c+++0x37bf884) #50 0x00000000037e2da0 (/usr/bin/c+++0x37e2da0) #51 0x000000000377514e (/usr/bin/c+++0x377514e) #52 0x00000000037bfe4a (/usr/bin/c+++0x37bfe4a) #53 0x00000000037bf884 (/usr/bin/c+++0x37bf884) #54 0x00000000037e2bf2 (/usr/bin/c+++0x37e2bf2) #55 0x000000000377514e (/usr/bin/c+++0x377514e) #56 0x0000000003773858 (/usr/bin/c+++0x3773858) #57 0x000000000376efbe (/usr/bin/c+++0x376efbe) #58 0x0000000003142326 (/usr/bin/c+++0x3142326) #59 0x0000000003071904 (/usr/bin/c+++0x3071904) #60 0x00000000031fedf0 (/usr/bin/c+++0x31fedf0) #61 0x000000000248c33b (/usr/bin/c+++0x248c33b) #62 0x000000000249965c (/usr/bin/c+++0x249965c) #63 0x0000000002eeb83e (/usr/bin/c+++0x2eeb83e) #64 0x0000000005503422 (/usr/bin/c+++0x5503422) #65 0x0000000002eeafcc (/usr/bin/c+++0x2eeafcc) #66 0x0000000002eaea3d (/usr/bin/c+++0x2eaea3d) #67 0x0000000002eaeccc (/usr/bin/c+++0x2eaeccc) #68 0x0000000002ec9b20 (/usr/bin/c+++0x2ec9b20) #69 0x0000000002498df1 (/usr/bin/c+++0x2498df1) c++: error: clang frontend command failed with exit code 139 (use -v to see invocation) FreeBSD clang version 19.1.7 (https://github.com/llvm/llvm-project.git llvmorg-19.1.7-0-gcd708029e0b2) Target: x86_64-unknown-freebsd13.5 Thread model: posix InstalledDir: /usr/bin c++: note: diagnostic msg: ******************** PLEASE ATTACH THE FOLLOWING FILES TO THE BUG REPORT: Preprocessed source(s) and associated run script(s) are located at: c++: note: diagnostic msg: /tmp/promote-48e7c3.cpp c++: note: diagnostic msg: /tmp/promote-48e7c3.sh c++: note: diagnostic msg: ******************** gmake[4]: *** [/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/build/Makefile.rules:103: promote.o] Error 1 gmake[4]: *** Waiting for unfinished jobs.... /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/seq_entry_edit.cpp:2454:13: warning: 5 enumeration values not handled in switch: 'eSeqSubMap', 'eSeqRef', 'eSeqEnd'... [-Wswitch] 2454 | switch (seqmap_ci.GetType()) { | ^~~~~~~~~~~~~~~~~~~ 1 warning generated. gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/build/objtools/edit' Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/gene_utils.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/seq_entry_edit.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/promote.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/autodef_with_tax.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/field_handler.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/apply_object.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/string_constraint.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/seqid_guesser.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/dblink_field.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/struc_comm_field.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/text_desc_field.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/gb_block_field.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/link_cds_mrna.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/cds_fix.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/loc_edit.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/mail_report.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/feattable_edit.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/gaps_edit.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/source_edit.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/rna_edit.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/remote_updater.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/eutils_updater.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/parse_text_options.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/publication_edit.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/gap_trim.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/external_annots.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/feature_propagate.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/text_object_description.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/seq_edit.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/pub_fix.cpp. /usr/bin/c++ -stdlib=libc++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-deprecated-register -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/inc -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/include -DNCBI_BUILD_SESSION_ID=7beff766-ce5a-11f0-af51-0cc47ad937e2 /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/gene_utils.cpp -o gene_utils.o /usr/bin/c++ -stdlib=libc++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-deprecated-register -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/inc -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/include -DNCBI_BUILD_SESSION_ID=7beff766-ce5a-11f0-af51-0cc47ad937e2 /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/seq_entry_edit.cpp -o seq_entry_edit.o /usr/bin/c++ -stdlib=libc++ -std=gnu++20 -c -Wall -Wno-format-y2k -pthread -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-deprecated-register -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/inc -I/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/include -DNCBI_BUILD_SESSION_ID=7beff766-ce5a-11f0-af51-0cc47ad937e2 /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/objtools/edit/promote.cpp -o promote.o gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/build/objtools/edit' FAILED: src/objtools/edit/Makefile.edit.lib gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/build/objtools/edit' /bin/rm -f libxobjedit.so libxobjedit.so .xobjedit.dep .libxobjedit.so.stamp /bin/rm -f /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/lib/libxobjedit.so /wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/status/.xobjedit.dep gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/build/objtools/edit' gmake[3]: *** [/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/build-system/Makefile.meta_l:336: all.nonusr] Error 2 gmake[3]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/build/objtools/edit' gmake[2]: *** [/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/build-system/Makefile.meta_r:41: all_r.real] Error 5 gmake[2]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/build/objtools' gmake[1]: *** [/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/src/build-system/Makefile.meta_r:41: all_r.real] Error 5 gmake[1]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-cxx-toolkit/work/ncbi-cxx-toolkit-public-release-29.7.0/Clang1917-ReleaseMTDLL64/build' gmake: *** [Makefile:24: all] Error 2 ===> Compilation failed unexpectedly. Try to set MAKE_JOBS_UNSAFE=yes and rebuild before reporting the failure to the maintainer. *** Error code 1 Stop. make: stopped in /usr/ports/biology/ncbi-cxx-toolkit
