From nobody Thu Nov 18 15:26:29 2021 X-Original-To: pkg-fallout@mlmmj.nyi.freebsd.org Received: from mx1.freebsd.org (mx1.freebsd.org [IPv6:2610:1c1:1:606c::19:1]) by mlmmj.nyi.freebsd.org (Postfix) with ESMTP id 76CC5188AC47 for ; Thu, 18 Nov 2021 15:26:29 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: from mxrelay.nyi.freebsd.org (mxrelay.nyi.freebsd.org [IPv6:2610:1c1:1:606c::19:3]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits) key-exchange X25519 server-signature RSA-PSS (4096 bits) server-digest SHA256 client-signature RSA-PSS (4096 bits) client-digest SHA256) (Client CN "mxrelay.nyi.freebsd.org", Issuer "R3" (verified OK)) by mx1.freebsd.org (Postfix) with ESMTPS id 4Hw3YK2wwSz3JsV for ; Thu, 18 Nov 2021 15:26:29 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: from beefy7.nyi.freebsd.org (beefy7.nyi.freebsd.org [IPv6:2610:1c1:1:6080::16:16]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits) key-exchange X25519 server-signature RSA-PSS (4096 bits) server-digest SHA256) (Client did not present a certificate) by mxrelay.nyi.freebsd.org (Postfix) with ESMTPS id 452FA17789 for ; Thu, 18 Nov 2021 15:26:29 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: from beefy7.nyi.freebsd.org (localhost [127.0.0.1]) by beefy7.nyi.freebsd.org (8.16.1/8.16.1) with ESMTP id 1AIFQTfk006478 for ; Thu, 18 Nov 2021 15:26:29 GMT (envelope-from pkg-fallout@FreeBSD.org) Received: (from root@localhost) by beefy7.nyi.freebsd.org (8.16.1/8.16.1/Submit) id 1AIFQTaj006477; Thu, 18 Nov 2021 15:26:29 GMT (envelope-from pkg-fallout@FreeBSD.org) Date: Thu, 18 Nov 2021 15:26:29 GMT From: pkg-fallout@FreeBSD.org Message-Id: <202111181526.1AIFQTaj006477@beefy7.nyi.freebsd.org> To: pkg-fallout@FreeBSD.org Subject: [package - main-riscv64-default][biology/ncbi-blast+] Failed for ncbi-blast+-2.12.0_1 in build X-ThisMailContainsUnwantedMimeParts: N List-Id: Fallout logs from package building List-Archive: https://lists.freebsd.org/archives/freebsd-pkg-fallout List-Help: List-Post: List-Subscribe: List-Unsubscribe: Sender: owner-freebsd-pkg-fallout@freebsd.org You are receiving this mail as a port that you maintain is failing to build on the FreeBSD package build server. Please investigate the failure and submit a PR to fix build. Maintainer: jwb@FreeBSD.org Log URL: http://beefy7.nyi.freebsd.org/data/main-riscv64-default/p6f8cfad0ec95_sce9676de86/logs/ncbi-blast+-2.12.0_1.log Build URL: http://beefy7.nyi.freebsd.org/build.html?mastername=main-riscv64-default&build=p6f8cfad0ec95_sce9676de86 Log: =>> Building biology/ncbi-blast+ build started at Thu Nov 18 15:23:40 UTC 2021 port directory: /usr/ports/biology/ncbi-blast+ package name: ncbi-blast+-2.12.0_1 building for: FreeBSD main-riscv64-default-job-02 14.0-CURRENT FreeBSD 14.0-CURRENT 1400041 riscv maintained by: jwb@FreeBSD.org Makefile ident: Poudriere version: 3.2.8-21-g883afb07 Host OSVERSION: 1400008 Jail OSVERSION: 1400041 Job Id: 02 !!! Jail is newer than host. (Jail: 1400041, Host: 1400008) !!! !!! This is not supported. !!! !!! Host kernel must be same or newer than jail. !!! !!! Expect build failures. !!! ---Begin Environment--- SHELL=/bin/sh UNAME_p=riscv64 UNAME_m=riscv ABI_FILE=/usr/lib/crt1.o OSVERSION=1400041 UNAME_v=FreeBSD 14.0-CURRENT 1400041 UNAME_r=14.0-CURRENT 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 LOCALBASE=/usr/local QEMU_EMULATING=1 USER=root LIBEXECPREFIX=/usr/local/libexec/poudriere POUDRIERE_VERSION=3.2.8-21-g883afb07 MASTERMNT=/usr/local/poudriere/data/.m/main-riscv64-default/ref POUDRIERE_BUILD_TYPE=bulk PACKAGE_BUILDING=yes SAVED_TERM= PWD=/usr/local/poudriere/data/.m/main-riscv64-default/ref/.p/pool P_PORTS_FEATURES=FLAVORS SELECTED_OPTIONS MASTERNAME=main-riscv64-default SCRIPTPREFIX=/usr/local/share/poudriere OLDPWD=/usr/local/poudriere/data/.m/main-riscv64-default/ref/.p SCRIPTPATH=/usr/local/share/poudriere/bulk.sh POUDRIEREPATH=/usr/local/bin/poudriere ---End Environment--- ---Begin Poudriere Port Flags/Env--- PORT_FLAGS= PKGENV= FLAVOR= DEPENDS_ARGS= MAKE_ARGS= ---End Poudriere Port Flags/Env--- ---Begin OPTIONS List--- ---End OPTIONS List--- --MAINTAINER-- jwb@FreeBSD.org --End MAINTAINER-- --CONFIGURE_ARGS-- AR="ar cr" --without-boost --libdir=/usr/local/lib/ncbi-tools++ --prefix=/usr/local ${_LATE_CONFIGURE_ARGS} --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- MAKE=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/python3.8" XDG_DATA_HOME=/wrkdirs/usr/ports/biology/ncbi-blast+/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/ncbi-blast+/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/ncbi-blast+/work/.cache HOME=/wrkdirs/usr/ports/biology/ncbi-blast+/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/ncbi-blast+/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin SHELL=/bin/sh CONFIG_SHELL=/bin/sh CMAKE_PREFIX_PATH="/usr/local" CONFIG_SITE=/usr/ports/Templates/config.site lt_cv_sys_max_cmd_len=524288 --End CONFIGURE_ENV-- --MAKE_ENV-- PERL_USE_UNSAFE_INC=1 XDG_DATA_HOME=/wrkdirs/usr/ports/biology/ncbi-blast+/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/ncbi-blast+/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/ncbi-blast+/work/.cache HOME=/wrkdirs/usr/ports/biology/ncbi-blast+/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/ncbi-blast+/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin NO_PIE=yes MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES PREFIX=/usr/local LOCALBASE=/usr/local CC="/nxb-bin/usr/bin/cc" CFLAGS="-O2 -pipe -march=rv64imafdc -mabi=lp64d -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing " CPP="/nxb-bin/usr/bin/cpp" CPPFLAGS="-isystem /usr/local/include" LDFLAGS=" -fstack-protector-strong -L/usr/local/lib " LIBS="" CXX="/nxb-bin/usr/bin/c++" CXXFLAGS="-O2 -pipe -march=rv64imafdc -mabi=lp64d -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include " MANPREFIX="/usr/loca l" 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-- PYTHON_INCLUDEDIR=include/python3.8 PYTHON_LIBDIR=lib/python3.8 PYTHON_PLATFORM=freebsd14 PYTHON_SITELIBDIR=lib/python3.8/site-packages PYTHON_SUFFIX=38 PYTHON_EXT_SUFFIX=.cpython-38 PYTHON_VER=3.8 PYTHON_VERSION=python3.8 PYTHON2="@comment " PYTHON3="" OSREL=14.0 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib PERL_VERSION=5.32.1 PERL_VER=5.32 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/5.32 DOCSDIR="share/doc/ncbi-blast+" EXAMPLESDIR="share/examples/ncbi-blast+" DATADIR="share/ncbi-blast+" WWWDIR="www/ncbi-blast+" ETCDIR="etc/ncbi-blast+" --End PLIST_SUB-- --SUB_LIST-- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/ncbi-blast+ DOCSDIR=/usr/local/share/doc/ncbi-blast+ EXAMPLESDIR=/usr/local/share/examples/ncbi-blast+ WWWDIR=/usr/local/www/ncbi-blast+ ETCDIR=/usr/local/etc/ncbi-blast+ --End SUB_LIST-- ---Begin make.conf--- .sinclude "/etc/make.nxb.conf" USE_PACKAGE_DEPENDS=yes BATCH=yes WRKDIRPREFIX=/wrkdirs PORTSDIR=/usr/ports PACKAGES=/packages DISTDIR=/distfiles PACKAGE_BUILDING=yes PACKAGE_BUILDING_FLAVORS=yes MACHINE=riscv MACHINE_ARCH=riscv64 ARCH=${MACHINE_ARCH} #### /usr/local/etc/poudriere.d/make.conf #### # 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 2 jobs MAKE_JOBS_NUMBER=2 #### /usr/ports/Mk/Scripts/ports_env.sh #### _CCVERSION_9d218390=FreeBSD clang version 12.0.1 (git@github.com:llvm/llvm-project.git llvmorg-12.0.1-0-gfed41342a82f) Target: riscv64-unknown-freebsd14.0 Thread model: posix InstalledDir: /nxb-bin/usr/bin _ALTCCVERSION_9d218390=none _CXXINTERNAL_9c45a5b1=FreeBSD clang version 12.0.1 (git@github.com:llvm/llvm-project.git llvmorg-12.0.1-0-gfed41342a82f) Target: riscv64-unknown-freebsd14.0 Thread model: posix InstalledDir: /nxb-bin/usr/bin "/nxb-bin/usr/bin/ld" "--eh-frame-hdr" "-dynamic-linker" "/libexec/ld-elf.so.1" "--enable-new-dtags" "-m" "elf64lriscv" "-o" "a.out" "/usr/lib/crt1.o" "/usr/lib/crti.o" "/usr/lib/crtbegin.o" "-L/usr/lib" "/dev/null" "-lc++" "-lm" "-lgcc" "--as-needed" "-lgcc_s" "--no-as-needed" "-lc" "-lgcc" "--as-needed" "-lgcc_s" "--no-as-needed" "/usr/lib/crtend.o" "/usr/lib/crtn.o" CC_OUTPUT_9d218390_58173849=yes CC_OUTPUT_9d218390_9bdba57c=yes CC_OUTPUT_9d218390_6a4fe7f5=yes CC_OUTPUT_9d218390_6bcac02b=yes CC_OUTPUT_9d218390_67d20829=yes CC_OUTPUT_9d218390_bfa62e83=yes CC_OUTPUT_9d218390_f0b4d593=yes CC_OUTPUT_9d218390_308abb44=yes CC_OUTPUT_9d218390_f00456e5=yes CC_OUTPUT_9d218390_65ad290d=yes CC_OUTPUT_9d218390_f2776b26=yes CC_OUTPUT_9d218390_b2657cc3=yes CC_OUTPUT_9d218390_380987f7=yes CC_OUTPUT_9d218390_160933ec=yes CC_OUTPUT_9d218390_fb62803b=yes _OBJC_CCVERSION_9d218390=FreeBSD clang version 12.0.1 (git@github.com:llvm/llvm-project.git llvmorg-12.0.1-0-gfed41342a82f) Target: riscv64-unknown-freebsd14.0 Thread model: posix InstalledDir: /nxb-bin/usr/bin _OBJC_ALTCCVERSION_9d218390=none ARCH=riscv64 OPSYS=FreeBSD _OSRELEASE=14.0-CURRENT OSREL=14.0 OSVERSION=1400041 PYTHONBASE=/usr/local CONFIGURE_MAX_CMD_LEN=524288 HAVE_PORTS_ENV=1 #### Misc Poudriere #### GID=0 UID=0 DISABLE_MAKE_JOBS=poudriere ---End make.conf--- ---Begin make.nxb.conf--- CC=/nxb-bin/usr/bin/cc CPP=/nxb-bin/usr/bin/cpp CXX=/nxb-bin/usr/bin/c++ NM=/nxb-bin/usr/bin/nm LD=/nxb-bin/usr/bin/ld OBJCOPY=/nxb-bin/usr/bin/objcopy SIZE=/nxb-bin/usr/bin/size STRIPBIN=/nxb-bin/usr/bin/strip SED=/nxb-bin/usr/bin/sed RANLIB=/nxb-bin/usr/bin/ranlib YACC=/nxb-bin/usr/bin/yacc MAKE=/nxb-bin/usr/bin/make STRINGS=/nxb-bin/usr/bin/strings AWK=/nxb-bin/usr/bin/awk FLEX=/nxb-bin/usr/bin/flex ---End make.nxb.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) 1024 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-- =================================================== ===> License PD accepted by the user =========================================================================== =================================================== ===> ncbi-blast+-2.12.0_1 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.17.5.pkg [main-riscv64-default-job-02] Installing pkg-1.17.5... [main-riscv64-default-job-02] Extracting pkg-1.17.5: .......... done ===> ncbi-blast+-2.12.0_1 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of ncbi-blast+-2.12.0_1 =========================================================================== =================================================== =========================================================================== =================================================== ===> License PD accepted by the user ===> Fetching all distfiles required by ncbi-blast+-2.12.0_1 for building =========================================================================== =================================================== ===> License PD accepted by the user ===> Fetching all distfiles required by ncbi-blast+-2.12.0_1 for building elif test -s ""; then \ cd /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build && gmake -w all_p; \ else \ cd /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build && gmake -w all_r; \ fi gmake[2]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build' Build session ID: d4a43816-4883-11ec-a5a5-a5a5a5a5a5a5 /bin/mkdir -p `/usr/bin/dirname /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/ctools/Makefile.in` test -f /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/ctools/Makefile.in || /bin/cp -p /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/build-system/Makefile.in.skel /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/ctools/Makefile.in /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/scripts/common/impl/update_configurable.sh /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT ctools/Makefile config.status: creating /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build/ctools/Makefile /bin/mkdir -p `/usr/bin/dirname /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/sra/Makefile.in` test -f /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/sra/Makefile.in || /bin/cp -p /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/build-system/Makefile.in.skel /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/sra/Makefile.in /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/scripts/common/impl/update_configurable.sh /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT sra/Makefile config.status: creating /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build/sra/Makefile /bin/mkdir -p `/usr/bin/dirname /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/gui/Makefile.in` test -f /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/gui/Makefile.in || /bin/cp -p /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/build-system/Makefile.in.skel /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/gui/Makefile.in /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/scripts/common/impl/update_configurable.sh /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT gui/Makefile config.status: creating /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build/gui/Makefile /bin/mkdir -p `/usr/bin/dirname /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/sample/Makefile.in` test -f /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/sample/Makefile.in || /bin/cp -p /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/build-system/Makefile.in.skel /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/sample/Makefile.in /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/scripts/common/impl/update_configurable.sh /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT sample/Makefile config.status: creating /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build/sample/Makefile /bin/mkdir -p `/usr/bin/dirname /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/internal/Makefile.in` test -f /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/internal/Makefile.in || /bin/cp -p /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/build-system/Makefile.in.skel /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/internal/Makefile.in /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/scripts/common/impl/update_configurable.sh /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT internal/Makefile config.status: creating /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build/internal/Makefile /usr/local/bin/gmake -C corelib -w all_r || exit 5 gmake[3]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build/corelib' gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build/corelib' /bin/mkdir -p `/usr/bin/dirname /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/test/Makefile.in` test -f /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/test/Makefile.in || /bin/cp -p /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/build-system/Makefile.in.skel /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/test/Makefile.in /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/scripts/common/impl/update_configurable.sh /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT test/Makefile config.status: creating /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build/corelib/test/Makefile gmake[5]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build/corelib' /usr/local/bin/gmake[5] (Makefile.precompile): Nothing to be done for `all'. gmake[5]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build/corelib' /usr/local/bin/gmake -f /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build/Makefile.lib.tmpl srcdir=/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib TMPL=corelib -w export-headers gmake[5]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build/corelib' gmake[5]: Nothing to be done for 'export-headers'. gmake[5]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build/corelib' /usr/local/bin/gmake -f /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build/Makefile.lib.tmpl srcdir=/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib TMPL=test_mt -w export-headers gmake[5]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build/corelib' gmake[5]: Nothing to be done for 'export-headers'. gmake[5]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build/corelib' /usr/bin/awk: can't open file make_test_mt.log.new source line number 4 gmake[5]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build/corelib' gmake[5]: *** No rule to make target '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/status/Boost.Test.Included.enabled', needed by 'requirements'. Stop. gmake[5]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build/corelib' NOTE: skipping project "test_boost" due to unmet requirements gmake[5]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build/corelib' gmake[5]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build/corelib' /usr/local/bin/gmake -f /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build/Makefile.lib.tmpl srcdir=/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib TMPL=corelib -w all In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbi_os_unix.cpp:35: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/include/corelib/ncbifile.hpp:53: /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/include/corelib/ncbi_system.hpp:389:9: error: reference to 'bitset' is ambiguous bitset<32> f01_ECX_; ^ /usr/include/sys/_bitset.h:64:15: note: candidate found by name lookup is 'bitset' BITSET_DEFINE(bitset, 1); ^ /usr/include/c++/v1/bitset:667:28: note: candidate found by name lookup is 'std::bitset' class _LIBCPP_TEMPLATE_VIS bitset ^ In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbi_os_unix.cpp:35: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/include/corelib/ncbifile.hpp:53: /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/include/corelib/ncbi_system.hpp:390:9: error: reference to 'bitset' is ambiguous bitset<32> f01_EDX_; ^ /usr/include/sys/_bitset.h:64:15: note: candidate found by name lookup is 'bitset' BITSET_DEFINE(bitset, 1); ^ /usr/include/c++/v1/bitset:667:28: note: candidate found by name lookup is 'std::bitset' class _LIBCPP_TEMPLATE_VIS bitset ^ In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbi_os_unix.cpp:35: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/include/corelib/ncbifile.hpp:53: /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/include/corelib/ncbi_system.hpp:391:9: error: reference to 'bitset' is ambiguous bitset<32> f07_EBX_; ^ /usr/include/sys/_bitset.h:64:15: note: candidate found by name lookup is 'bitset' BITSET_DEFINE(bitset, 1); ^ /usr/include/c++/v1/bitset:667:28: note: candidate found by name lookup is 'std::bitset' class _LIBCPP_TEMPLATE_VIS bitset ^ In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbi_os_unix.cpp:35: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/include/corelib/ncbifile.hpp:53: /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/include/corelib/ncbi_system.hpp:392:9: error: reference to 'bitset' is ambiguous bitset<32> f07_ECX_; ^ /usr/include/sys/_bitset.h:64:15: note: candidate found by name lookup is 'bitset' BITSET_DEFINE(bitset, 1); ^ /usr/include/c++/v1/bitset:667:28: note: candidate found by name lookup is 'std::bitset' class _LIBCPP_TEMPLATE_VIS bitset ^ In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbi_os_unix.cpp:35: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/include/corelib/ncbifile.hpp:53: /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/include/corelib/ncbi_system.hpp:393:9: error: reference to 'bitset' is ambiguous bitset<32> f81_ECX_; ^ /usr/include/sys/_bitset.h:64:15: note: candidate found by name lookup is 'bitset' BITSET_DEFINE(bitset, 1); ^ /usr/include/c++/v1/bitset:667:28: note: candidate found by name lookup is 'std::bitset' class _LIBCPP_TEMPLATE_VIS bitset ^ In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbi_os_unix.cpp:35: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/include/corelib/ncbifile.hpp:53: /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/include/corelib/ncbi_system.hpp:394:9: error: reference to 'bitset' is ambiguous bitset<32> f81_EDX_; ^ /usr/include/sys/_bitset.h:64:15: note: candidate found by name lookup is 'bitset' BITSET_DEFINE(bitset, 1); ^ /usr/include/c++/v1/bitset:667:28: note: candidate found by name lookup is 'std::bitset' class _LIBCPP_TEMPLATE_VIS bitset ^ 6 errors generated. gmake[5]: *** [/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build/Makefile.rules:88: ncbi_os_unix.o] Error 1 gmake[5]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build/corelib' Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbi_pool_balancer.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbi_dbsvcmapper.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbi_fast.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/request_status.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbi_message.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/guard.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbi_cookies.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbi_url.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbierror.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbi_toolkit.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/perf_log.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbi_autoinit.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/interprocess_lock.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/resource_info.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbi_strings.c. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/expr.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/request_control.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/request_ctx.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/version.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/syslog.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/stream_utils.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/rwstreambuf.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/plugin_manager_store.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/plugin_manager.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/obj_store.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbitime.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbithr.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbistre.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbistr.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbireg.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbiobj.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbimtx.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbimempool.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbifile.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbiexpt.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbiexec.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbienv.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbidll.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbidiag_p.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbidiag.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbidbg.cpp. Updating dependency information for ncbicfg.c. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbiatomic.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbiargs.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbiapp.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbi_system.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbi_stack.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbi_signal.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbi_safe_static.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbi_process.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbi_param.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbi_config.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/metareg.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/env_reg.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ddumpable.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/blob_storage.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbi_os_unix.cpp. /nxb-bin/usr/bin/c++ -stdlib=libc++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -O2 -pipe -march=rv64imafdc -mabi=lp64d -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -Wno-deprecated-register -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -isystem /usr/local/include -D_MT -D_REENTRANT -D_THREAD_SAFE -D__RUNETYPE_INTERNAL -I/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/inc -I/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/include -DNCBI_BUILD_SESSION_ID=d4a43816-4883-11ec-a5a5-a5a5a5a5a5a5 /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/corelib/ncbi_os_unix.cpp -o ncbi_os_unix.o gmake[5]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build/corelib' FAILED: src/corelib/Makefile.corelib.lib gmake[5]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build/corelib' /bin/rm -f libxncbi.a .xncbi.dep .libxncbi.a.stamp /bin/rm -f /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/lib/libxncbi.a /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/status/.xncbi.dep \ /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/lib/libxncbi-static.a /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/status/.xncbi-static.dep gmake[5]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build/corelib' gmake[4]: *** [/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/build-system/Makefile.meta_l:323: all.nonusr] Error 2 gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build/corelib' gmake[3]: *** [/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/build-system/Makefile.meta_l:281: all_l.real] Error 2 gmake[3]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build/corelib' gmake[2]: *** [/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/src/build-system/Makefile.meta_r:41: all_r.real] Error 5 gmake[2]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++/ReleaseMT/build' gmake[1]: *** [Makefile:24: all] Error 2 gmake[1]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.12.0+-src/c++' *** Error code 1 Stop. make: stopped in /usr/ports/biology/ncbi-blast+