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: [email protected] Log URL: https://pkg-status.freebsd.org/beefy16/data/135amd64-default/fc1a825d9035/logs/ncbi-blast+-2.16.0_5.log Build URL: https://pkg-status.freebsd.org/beefy16/build.html?mastername=135amd64-default&build=fc1a825d9035 Log: =>> Building biology/ncbi-blast+ build started at Mon Jul 21 08:57:54 UTC 2025 port directory: /usr/ports/biology/ncbi-blast+ package name: ncbi-blast+-2.16.0_5 building for: FreeBSD 135amd64-default-job-12 13.5-RELEASE-p2 FreeBSD 13.5-RELEASE-p2 amd64 maintained by: [email protected] Makefile datestamp: -rw-r--r-- 1 root wheel 3578 Jun 22 01:02 /usr/ports/biology/ncbi-blast+/Makefile Ports top last git commit: fc1a825d903 Ports top unclean checkout: no Port dir last git commit: 69bfe8f1431 Port dir unclean checkout: no Poudriere version: poudriere-git-3.4.2-12-g74a54a88 Host OSVERSION: 1500035 Jail OSVERSION: 1305000 Job Id: 12 ---Begin Environment--- SHELL=/bin/csh OSVERSION=1305000 UNAME_v=FreeBSD 13.5-RELEASE-p2 UNAME_r=13.5-RELEASE-p2 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=3.4.2-12-g74a54a88 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/12/.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-3.4.2-12-g74a54a88 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-- AR="ar cr" --without-boost --libdir=/usr/local/lib/ncbi-tools++ --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-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 PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/ncbi-blast+/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig 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 PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/ncbi-blast+/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 -isystem /usr/local/include -fno-strict-aliasing " CPP="cpp" CPPFLAGS="-isystem /usr/local/include" LDFLAGS=" -L/usr/local/lib " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include " BSD_INS TALL_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/python3.11 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=5.40.2 PERL_VER=5.40 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/5.40 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-- 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-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--- 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-blast+-2.16.0_5 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-2.2.1.pkg [135amd64-default-job-12] Installing pkg-2.2.1... [135amd64-default-job-12] Extracting pkg-2.2.1: .......... done ===> ncbi-blast+-2.16.0_5 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of ncbi-blast+-2.16.0_5 =========================================================================== =======================<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-blast+-2.16.0_5 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-blast+-2.16.0_5 for building => SHA256 Checksum OK for ncbi-blast-2.16.0+-src.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-blast+-2.16.0_5 for building ===> Extracting for ncbi-blast+-2.16.0_5 => SHA256 Checksum OK for ncbi-blast-2.16.0+-src.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-blast+-2.16.0_5 ===> Applying FreeBSD patches for ncbi-blast+-2.16.0_5 from /usr/ports/biology/ncbi-blast+/files =========================================================================== =======================<phase: build-depends >============================ ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> ncbi-blast+-2.16.0_5 depends on package: gmake>=4.4.1 - not found ===> Installing existing package /packages/All/gmake-4.4.1.pkg [135amd64-default-job-12] Installing gmake-4.4.1... [135amd64-default-job-12] `-- Installing gettext-runtime-0.23.1... [135amd64-default-job-12] | `-- Installing indexinfo-0.3.1_1... [135amd64-default-job-12] | `-- Extracting indexinfo-0.3.1_1: .... done [135amd64-default-job-12] `-- Extracting gettext-runtime-0.23.1: .......... done [135amd64-default-job-12] Extracting gmake-4.4.1: .......... done ===> ncbi-blast+-2.16.0_5 depends on package: gmake>=4.4.1 - found ===> Returning to build of ncbi-blast+-2.16.0_5 ===> ncbi-blast+-2.16.0_5 depends on file: /usr/local/bin/python3.11 - not found ===> Installing existing package /packages/All/python311-3.11.13.pkg [135amd64-default-job-12] Installing python311-3.11.13... [135amd64-default-job-12] `-- Installing libffi-3.5.1... [135amd64-default-job-12] `-- Extracting libffi-3.5.1: .......... done [135amd64-default-job-12] `-- Installing mpdecimal-4.0.1... [135amd64-default-job-12] `-- Extracting mpdecimal-4.0.1: .......... done [135amd64-default-job-12] `-- Installing readline-8.2.13_2... [135amd64-default-job-12] `-- Extracting readline-8.2.13_2: .......... done [135amd64-default-job-12] Extracting python311-3.11.13: .......... done ===== Message from python311-3.11.13: -- Note that some standard Python modules are provided as separate ports as they require additional dependencies. They are available as: <snip> aits; | ^ In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbi_os_unix.cpp:33: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/error_codes.hpp:38: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/ncbidiag.hpp:42: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/ncbi_stack.hpp:35: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/ncbistre.hpp:39: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/ncbictype.hpp:38: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/ncbistl.hpp:252: /usr/include/c++/v1/string:2535:5: error: implicit instantiation of undefined template 'std::char_traits<unsigned short>' 2535 | traits_type::In file included from cop/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/blob_storage.cppy(:33s: tIn file included from d/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/blob_storage.hpp:36::: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/ncbistd.hpp_:37_: tIn file included from o_a/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/ncbistr.hpp:38dd: reIn file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/ncbi_limits.hppss(:__61p: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/ncbistl.hpp):252,: s/usr/include/c++/v1/stringt:d2535::5:__t: oerror: _implicit instantiation of undefined template 'std::char_traits<unsigned short>' address(__ 2535 | o l d_pt),ra i_t_sn__tcyopepy::)copy; ( s| ^ td::__to_a/usr/include/c++/v1/stringd:d2556r:3ess:(_ _note: pin instantiation of member function 'std::basic_string<unsigned short>::__grow_by' requested here) , std::__to_a 2556 | _d_gdrroesws(__by(_old__p_)o,l d___n_ccoap,py __)de; lt | ^ a_cap, __/usr/include/c++/v1/stringo:l2556d:_3s:z, __note: nin instantiation of member function 'std::basic_string<unsigned short>::__grow_by' requested here _copy, _ _2556n | _ _d_eglro,w_ by(____onl_ad_dcadp),; _ _| de ^ lta/usr/include/c++/v1/string:2858_c:ap7,: _note: _in instantiation of member function 'std::basic_string<unsigned short>::__grow_by_without_replace' requested here ol 2858d_ | sz , __ n __c_ogproy, w___nby__dweilt,h _o_unt__raedpd)l;a c e| ( ^ __cap, __sz +/usr/include/c++/v1/string:2858 __n :7:- note: _in instantiation of member function 'std::basic_string<unsigned short>::__grow_by_without_replace' requested here_ cap, 2858 | _ _ sz, __sz, 0); | ^ __gr/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/ncbistr.hpp:ow5690_:b24y_: wnote: iin instantiation of member function 'std::basic_string<unsigned short>::append' requested hereth out_rep l5690a | c e ( _ _ c a p , _ _s z r+e s_u_lnt -. _a_ppceanpd,( __1sz,, (T _C_shzar,)h i0);) ;| ^ | ^ /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/ncbistr.hpp:/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/impl/stringutf8_deprecated.inl5690::603:19:24: note: note: in instantiation of function template specialization 'ncbi::CUtf8::x_AsBasicString<unsigned short>' requested here in instantiation of member function 'std::basic_string<unsigned short>::append' requested here 603 | 5690 | r e t u r n C U t f 8 :res:x_uAslBast.icapStrpinegn(ds(t1r,, s(uTbCshart)hiit)u;t | e ^ _on_error, (CUtf8::/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/impl/stringutf8_deprecated.inl:603EVa:li19: danote: in instantiation of function template specialization 'ncbi::CUtf8::x_AsBasicString<unsigned short>' requested here te)v a603l | i d ratee)t;u r n| CUt ^f 8::x_AsBasicSt/usr/include/c++/v1/__fwd/string.h:23r:29ing: (snote: trtemplate is declared here, subst 23it | utset_roun_cte _rLrIoBCr,PP _(TCEUMtPfL8A:TE:_EVaVIlidatSe) vcaharli_dattreait)s;; | | ^ ^ /usr/include/c++/v1/__fwd/string.h:23:29: note: template is declared here 23 | struct _LIBCPP_TEMPLATE_VIS char_traits; | ^ In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/blob_storage.cpp:33In file included from : In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbi_os_unix.cpp:33/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/blob_storage.hpp: In file included from :/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/error_codes.hpp:3638: : In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/ncbidiag.hpp:42In file included from : In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/ncbistd.hpp/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/ncbi_stack.hpp::3735: : In file included from In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/ncbistr.hpp:38/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/ncbistre.hpp:: In file included from 39/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/ncbi_limits.hpp:: 61In file included from : /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/ncbictype.hppIn file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/ncbistl.hpp::38: 252In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/ncbistl.hpp: :252/usr/include/c++/v1/string:: 2538/usr/include/c++/v1/string::52538:: 5:error: error: implicit instantiation of undefined template 'std::char_traits<unsigned short>' implicit instantiation of undefined template 'std::char_traits<unsigned short>' 2538 2538 | | t rtariats_titypse:_:tcopyy(p e | ^::cop y( | ^ /usr/include/c++/v1/__fwd/string.h:23:29: note: template is declared here/usr/include/c++/v1/__fwd/string.h :23:29: note: template is declared here 23 | struct _L I23 | struct _LIBCPPBC_PPT_ETEMMPLPALTATE_VEIS_ VISc chhaar_rtr_atrits;a i| t ^ s; | ^ In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbi_os_unix.cpp:33: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/error_codes.hpp:38: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/ncbidiag.hppIn file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/blob_storage.cpp:33: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/blob_storage.hpp:36: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/ncbistd.hpp:37: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/ncbistr.hpp:38: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/ncbi_limits.hpp:61:42: In file included from : In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/ncbistl.hpp/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/ncbi_stack.hpp::35252: : In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/ncbistre.hpp/usr/include/c++/v1/string::392965: :In file included from 22/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/ncbictype.hpp:38: : error: implicit instantiation of undefined template 'std::char_traits<unsigned short>'In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/ncbistl.hpp :252: /usr/include/c++/v1/string:2965:22: error: implicit instantiation of undefined template 'std::char_traits<unsigned short>' 2965 | 2965 retur | n r eapptuend(__sr, nt rappaietsnd(___st, ytprea:i:tlensgt_ht(y_p_se)):;: l| e ^ ngth(__s/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/ncbistr.hpp:5695:)24:) ;note: in instantiation of member function 'std::basic_string<unsigned short>::append' requested here | ^ 5695 | /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/ncbistr.hpp : 5695 :24 : note: in instantiation of member function 'std::basic_string<unsigned short>::append' requested here 5695 | re su l t . arepspuelntd.(aspupbesntdi(tsuutbes_toint_uetrer_oorn_);e | ^ rror); | ^ /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/impl/stringutf8_deprecated.inl:603:19: note: /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include/corelib/impl/stringutf8_deprecated.inlin instantiation of function template specialization 'ncbi::CUtf8::x_AsBasicString<unsigned short>' requested here: 603:19: note: in instantiation of function template specialization 'ncbi::CUtf8::x_AsBasicString<unsigned short>' requested here 603 | 603 | re turren tCUutrfn8 :C:Utx_fAsBa8sic::Sx_AstBarsinicgStri(ngstr(,ssturb,sstuibtsuttie_otun_tee_ornr_oerr,r o(rC,U t(fC8U:t:fE8V:a:lEiVdaaltied)avtael)ivdaaltied)a;t e )| ^ ; | ^ /usr/include/c++/v1/__fwd/string.h:23:29: note: template is declared here /usr/include/c++/v1/__fwd/string.h:23:29: note: template is declared here 23 | struct _L I23B | CsPtPru_cTtE MP_LLATEI_VBICSP Pc_hTaEMrPL_AtTrEa_itsVI;S c h| ^ar_ traits; | ^ 16 errors generated. gmake[4]: *** [/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/ReleaseMT/build/Makefile.rules:103: ncbi_os_unix.o] Error 1 16 errors generated. gmake[4]: *** [/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/ReleaseMT/build/Makefile.rules:103: blob_storage.o] Error 1 gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/ReleaseMT/build/corelib' Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbi_os_unix.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/blob_storage.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ddumpable.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/env_reg.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/metareg.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbi_config.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbi_param.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbi_process.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbi_safe_static.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbi_signal.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbi_stack.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbi_system.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbiapp.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbiargs.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbiatomic.cpp. Updating dependency information for ncbicfg.c. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbidbg.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbidiag.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbidiag_p.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbidll.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbienv.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbiexec.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbiexpt.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbifile.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbimempool.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbimtx.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbiobj.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbireg.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbistr.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbistre.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbithr.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbitime.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/obj_store.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/plugin_manager.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/plugin_manager_store.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/rwstreambuf.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/stream_utils.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/syslog.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/version.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/request_ctx.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/request_control.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/expr.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbi_strings.c. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/resource_info.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/interprocess_lock.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbi_autoinit.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/perf_log.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbi_toolkit.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbierror.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbi_url.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbi_cookies.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/guard.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbi_message.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/request_status.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbi_fast.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbi_dbsvcmapper.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbi_pool_balancer.cpp. /usr/bin/c++ -stdlib=libc++ -std=gnu++17 -c -Wall -Wno-format-y2k -pthread -fopenmp -O2 -pipe -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-2.16.0+-src/c++/ReleaseMT/inc -I/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include -DNCBI_BUILD_SESSION_ID=7dc783c9-6611-11f0-a946-0cc47ad937e2 /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ncbi_os_unix.cpp -o ncbi_os_unix.o /usr/bin/c++ -stdlib=libc++ -std=gnu++17 -c -Wall -Wno-format-y2k -pthread -fopenmp -O2 -pipe -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-2.16.0+-src/c++/ReleaseMT/inc -I/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include -DNCBI_BUILD_SESSION_ID=7dc783c9-6611-11f0-a946-0cc47ad937e2 /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/blob_storage.cpp -o blob_storage.o /usr/bin/c++ -stdlib=libc++ -std=gnu++17 -c -Wall -Wno-format-y2k -pthread -fopenmp -O2 -pipe -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-2.16.0+-src/c++/ReleaseMT/inc -I/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/include -DNCBI_BUILD_SESSION_ID=7dc783c9-6611-11f0-a946-0cc47ad937e2 /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/corelib/ddumpable.cpp -o ddumpable.o gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/ReleaseMT/build/corelib' FAILED: src/corelib/Makefile.corelib.lib gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/ReleaseMT/build/corelib' gmake[4]: warning: -j3 forced in submake: resetting jobserver mode. /bin/rm -f libxncbi.a .xncbi.dep .libxncbi.a.stamp /bin/rm -f /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/ReleaseMT/lib/libxncbi.a /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/ReleaseMT/status/.xncbi.dep \ /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/ReleaseMT/lib/libxncbi-static.a /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/ReleaseMT/status/.xncbi-static.dep gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/ReleaseMT/build/corelib' gmake[3]: *** [/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/build-system/Makefile.meta_l:336: all.nonusr] Error 2 gmake[3]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/ReleaseMT/build/corelib' gmake[2]: *** [/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/build-system/Makefile.meta_l:288: all_l.real] Error 2 gmake[2]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/ReleaseMT/build/corelib' gmake[1]: *** [/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/src/build-system/Makefile.meta_r:41: all_r.real] Error 5 gmake[1]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.16.0+-src/c++/ReleaseMT/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-blast+
