From nobody Thu Oct 31 13:07:01 2024 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 4XfPQs5j1Tz5bfFt for ; Thu, 31 Oct 2024 13:07:01 +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 "R10" (verified OK)) by mx1.freebsd.org (Postfix) with ESMTPS id 4XfPQs1f2Gz4kwf for ; Thu, 31 Oct 2024 13:07:01 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=freebsd.org; s=dkim; t=1730380021; h=from:from:reply-to:subject:subject:date:date:message-id:message-id: to:to:cc:cc; bh=M7K++09vV4OPoylISUlyrB/U7marXAMbderg6YicZa8=; b=KU59VJ6CThYDum64PCuXkzafR8Ty0+Im6mefa/PQx17dDgwrQH8xlQoSdBHJAyf3YQKOOV 5NeO0f5nd+fMnEVL+Ifasp70tD21aKyhdMeUVX6BcRl7pn8Rf53lU37Slx0N+p/dqj9Kd5 48TzErFvELIvENOXXOZK5oJUzWjsYCA4IzqR7gR2z1UR+0bIY6iMyYDZ+d9Vg/k+1xWn2n UCTpFFKnSFfcH0CY42K23JGnkWDIhL7uR3NuT0OlboelAuStGU4hwKJdvw+dmpH7ZPPCya qDV3TYAaB47B3HffjNNuI8uH4q9hetHMH7Ce9lUgjVIFPTy6XM35yU7stAkUcg== ARC-Authentication-Results: i=1; mx1.freebsd.org; none ARC-Seal: i=1; s=dkim; d=freebsd.org; t=1730380021; a=rsa-sha256; cv=none; b=BYtt5ALzVEKVKk0p/8wzWrVDeTy1dKK3EU8nQvkNDYyXyXTs0WFdbPgp/OTc1C/6fB4bQH HS5m2YNkybGYPEVxgY2IOBQQIyVW+330GgAYjDLADFAPc9BplvPlAPSr/zLf/KzK5PqTmp /MijrDiVM7Cooy1E8gJHzgz/vw2jeRAaO69A95WUbeje5WehsWiR0yvek6Hmvn+fbUHQfu IKDDfI1zX86d1ob8zzFpdxUYIZxip4EjLsjlmZVAldM3lQUbnGkHR+da83BIW3DaHMboFQ dHQlpGx+dUowHx6gYRfkTGN7+QlZhRaLOyeyB3X+mKqPkgydnEH29hFzep+JWQ== Received: from beefy18.nyi.freebsd.org (beefy18.nyi.freebsd.org [IPv6:2610:1c1:1:6080::16:21]) by mxrelay.nyi.freebsd.org (Postfix) with ESMTP id 4XfPQs0cXfzd76 for ; Thu, 31 Oct 2024 13:07:01 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: from root (uid 0) (envelope-from pkg-fallout@FreeBSD.org) id 5fca by beefy18.nyi.freebsd.org (DragonFly Mail Agent v0.13+ on beefy18.nyi.freebsd.org); Thu, 31 Oct 2024 13:07:01 +0000 To: jwb@FreeBSD.org Subject: [package - main-amd64-default][biology/ncbi-blast+] Failed for ncbi-blast+-2.14.1_6 in build Cc: pkg-fallout@FreeBSD.org Date: Thu, 31 Oct 2024 13:07:01 +0000 Message-Id: <672380f5.5fca.1becb8a1@beefy18.nyi.freebsd.org> From: 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: https://pkg-status.freebsd.org/beefy18/data/main-amd64-default/p35e33b5b9186_sd0f9b0bd19b/logs/ncbi-blast+-2.14.1_6.log Build URL: https://pkg-status.freebsd.org/beefy18/build.html?mastername=main-amd64-default&build=p35e33b5b9186_sd0f9b0bd19b Log: =>> Building biology/ncbi-blast+ build started at Thu Oct 31 13:05:43 UTC 2024 port directory: /usr/ports/biology/ncbi-blast+ package name: ncbi-blast+-2.14.1_6 building for: FreeBSD main-amd64-default-job-10 15.0-CURRENT FreeBSD 15.0-CURRENT 1500026 amd64 maintained by: jwb@FreeBSD.org Makefile datestamp: -rw-r--r-- 1 root wheel 2727 Oct 15 01:01 /usr/ports/biology/ncbi-blast+/Makefile Ports top last git commit: 35e33b5b918 Ports top unclean checkout: no Port dir last git commit: 1b7a343fb75 Port dir unclean checkout: no Poudriere version: poudriere-git-3.4.2 Host OSVERSION: 1500023 Jail OSVERSION: 1500026 Job Id: 10 !!! Jail is newer than host. (Jail: 1500026, Host: 1500023) !!! !!! This is not supported. !!! !!! Host kernel must be same or newer than jail. !!! !!! Expect build failures. !!! ---Begin Environment--- SHELL=/bin/sh OSVERSION=1500026 UNAME_v=FreeBSD 15.0-CURRENT 1500026 UNAME_r=15.0-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 MAKE_OBJDIR_CHECK_WRITABLE=0 LOCALBASE=/usr/local USER=root POUDRIERE_NAME=poudriere-git LIBEXECPREFIX=/usr/local/libexec/poudriere POUDRIERE_VERSION=3.4.2 MASTERMNT=/usr/local/poudriere/data/.m/main-amd64-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/main-amd64-default/10/.p OUTPUT_REDIRECTED_STDOUT=3 P_PORTS_FEATURES=FLAVORS SUBPACKAGES SELECTED_OPTIONS MASTERNAME=main-amd64-default SCRIPTPREFIX=/usr/local/share/poudriere SCRIPTNAME=bulk.sh OLDPWD=/usr/local/poudriere/data/.m/main-amd64-default/ref/.p/pool POUDRIERE_PKGNAME=poudriere-git-3.4.2 SCRIPTPATH=/usr/local/share/poudriere/bulk.sh POUDRIEREPATH=/usr/local/bin/poudriere ---End Environment--- ---Begin Poudriere Port Flags/Env--- PORT_FLAGS= PKGENV= FLAVOR= MAKE_ARGS= ---End Poudriere Port Flags/Env--- ---Begin OPTIONS List--- ---End OPTIONS List--- --MAINTAINER-- jwb@FreeBSD.org --End MAINTAINER-- --CONFIGURE_ARGS-- 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/python3.11" 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=" -fstack-protector-strong -L/usr/local/lib " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /us r/local/include " 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/python3.11 PYTHON_LIBDIR=lib/python3.11 PYTHON_PLATFORM=freebsd15 PYTHON_SITELIBDIR=lib/python3.11/site-packages PYTHON_SUFFIX=311 PYTHON_EXT_SUFFIX=.cpython-311 PYTHON_VER=3.11 PYTHON_VERSION=python3.11 PYTHON2="@comment " PYTHON3="" OSREL=15.0 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib PERL_VERSION=5.36.3 PERL_VER=5.36 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/5.36 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=freebsd15 PYTHON_SITELIBDIR=/usr/local/lib/python3.11/site-packages PYTHON_SUFFIX=311 PYTHON_EXT_SUFFIX=.cpython-311 PYTHON_VER=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--- # 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 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-- ulimit: can't get limit: Invalid argument 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-- =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License PD accepted by the user =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> ncbi-blast+-2.14.1_6 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.21.3.pkg [main-amd64-default-job-10] Installing pkg-1.21.3... [main-amd64-default-job-10] Extracting pkg-1.21.3: .......... done ===> ncbi-blast+-2.14.1_6 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of ncbi-blast+-2.14.1_6 =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License PD accepted by the user ===> Fetching all distfiles required by ncbi-blast+-2.14.1_6 for building =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License PD accepted by the user ===> Fetching all distfiles required by ncbi-blast+-2.14.1_6 for building => SHA256 Checksum OK for ncbi-blast-2.14.1+-src.tar.gz. =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License PD accepted by the user ===> Fetching all distfiles required by ncbi-blast+-2.14.1_6 for building ===> Extracting for ncbi-blast+-2.14.1_6 => SHA256 Checksum OK for ncbi-blast-2.14.1+-src.tar.gz. =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Patching for ncbi-blast+-2.14.1_6 ===> Applying FreeBSD patches for ncbi-blast+-2.14.1_6 from /usr/ports/biology/ncbi-blast+/files =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> ncbi-blast+-2.14.1_6 depends on package: gmake>=4.4.1 - not found ===> Installing existing package /packages/All/gmake-4.4.1.pkg [main-amd64-default-job-10] Installing gmake-4.4.1... [main-amd64-default-job-10] `-- Installing gettext-runtime-0.22.5... [main-amd64-default-job-10] | `-- Installing indexinfo-0.3.1... [main-amd64-default-job-10] | `-- Extracting indexinfo-0.3.1: .... done [main-amd64-default-job-10] `-- Extracting gettext-runtime-0.22.5: .......... done [main-amd64-default-job-10] Extracting gmake-4.4.1: .......... done | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/ncbistr.hpp:5690:24: note: while substituting deduced template arguments into function template 'append' [with _Tp = int, $1 = (no value)] 5690 | result.append(1, (TChar)hi); | ^ /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/impl/stringutf8_deprecated.inl:603:19: note: in instantiation of function template specialization 'ncbi::CUtf8::x_AsBasicString' requested here 603 | return CUtf8::x_AsBasicString(str,substitute_on_error, (CUtf8::EValidate)validate); | ^ /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-2.14.1+-src/c++/src/corelib/blob_storage.cpp:33: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/blob_storage.hpp:36: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/ncbistd.hpp:37: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/ncbistr.hpp:38: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/ncbi_limits.hpp:61: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/ncbistl.hpp:252: /usr/include/c++/v1/string:3396:3: error: implicit instantiation of undefined template 'std::char_traits' 3396 | traits_type::copy(std::__to_address(__new_data), std::__to_address(__p), size() + 1); | ^ /usr/include/c++/v1/string:3333:3: note: in instantiation of member function 'std::basic_string::__shrink_or_extend' requested here 3333 | __shrink_or_extend(__target_capacity); | ^ /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/ncbistr.hpp:5676:12: note: in instantiation of member function 'std::basic_string::reserve' requested here 5676 | result.reserve(CUtf8::GetSymbolCount(str) + 1); | ^ /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/impl/stringutf8_deprecated.inl:603:19: note: in instantiation of function template specialization 'ncbi::CUtf8::x_AsBasicString' requested here 603 | return CUtf8::x_AsBasicString(str,substitute_on_error, (CUtf8::EValidate)validate); | ^ /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-2.14.1+-src/c++/src/corelib/blob_storage.cpp:33: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/blob_storage.hpp:36: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/ncbistd.hpp:37: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/ncbistr.hpp:38: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/ncbi_limits.hpp:61: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/ncbistl.hpp:252: /usr/include/c++/v1/string:2861:5: error: implicit instantiation of undefined template 'std::char_traits' 2861 | traits_type::assign(std::__to_address(__p) + __sz, __n, __c); | ^ /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/ncbistr.hpp:5690:24: note: in instantiation of member function 'std::basic_string::append' requested here 5690 | result.append(1, (TChar)hi); | ^ /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/impl/stringutf8_deprecated.inl:603:19: note: in instantiation of function template specialization 'ncbi::CUtf8::x_AsBasicString' requested here 603 | return CUtf8::x_AsBasicString(str,substitute_on_error, (CUtf8::EValidate)validate); | ^ /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-2.14.1+-src/c++/src/corelib/blob_storage.cpp:33: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/blob_storage.hpp:36: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/ncbistd.hpp:37: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/ncbistr.hpp:38: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/ncbi_limits.hpp:61: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/ncbistl.hpp:252: /usr/include/c++/v1/string:2864:5: error: implicit instantiation of undefined template 'std::char_traits' 2864 | traits_type::assign(__p[__sz], value_type()); | ^ /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-2.14.1+-src/c++/src/corelib/blob_storage.cpp:33: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/blob_storage.hpp:36: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/ncbistd.hpp:37: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/ncbistr.hpp:38: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/ncbi_limits.hpp:61: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/ncbistl.hpp:252: /usr/include/c++/v1/string:2535:5: error: implicit instantiation of undefined template 'std::char_traits' 2535 | traits_type::copy(std::__to_address(__p), std::__to_address(__old_p), __n_copy); | ^ /usr/include/c++/v1/string:2556:3: note: in instantiation of member function 'std::basic_string::__grow_by' requested here 2556 | __grow_by(__old_cap, __delta_cap, __old_sz, __n_copy, __n_del, __n_add); | ^ /usr/include/c++/v1/string:2858:7: note: in instantiation of member function 'std::basic_string::__grow_by_without_replace' requested here 2858 | __grow_by_without_replace(__cap, __sz + __n - __cap, __sz, __sz, 0); | ^ /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/ncbistr.hpp:5690:24: note: in instantiation of member function 'std::basic_string::append' requested here 5690 | result.append(1, (TChar)hi); | ^ /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/impl/stringutf8_deprecated.inl:603:19: note: in instantiation of function template specialization 'ncbi::CUtf8::x_AsBasicString' requested here 603 | return CUtf8::x_AsBasicString(str,substitute_on_error, (CUtf8::EValidate)validate); | ^ /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-2.14.1+-src/c++/src/corelib/blob_storage.cpp:33: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/blob_storage.hpp:36: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/ncbistd.hpp:37: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/ncbistr.hpp:38: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/ncbi_limits.hpp:61: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/ncbistl.hpp:252: /usr/include/c++/v1/string:2538:5: error: implicit instantiation of undefined template 'std::char_traits' 2538 | traits_type::copy( | ^ /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-2.14.1+-src/c++/src/corelib/blob_storage.cpp:33: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/blob_storage.hpp:36: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/ncbistd.hpp:37: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/ncbistr.hpp:38: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/ncbi_limits.hpp:61: In file included from /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/ncbistl.hpp:252: /usr/include/c++/v1/string:2965:22: error: implicit instantiation of undefined template 'std::char_traits' 2965 | return append(__s, traits_type::length(__s)); | ^ /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/ncbistr.hpp:5695:24: note: in instantiation of member function 'std::basic_string::append' requested here 5695 | result.append(substitute_on_error); | ^ /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include/corelib/impl/stringutf8_deprecated.inl:603:19: note: in instantiation of function template specialization 'ncbi::CUtf8::x_AsBasicString' requested here 603 | return CUtf8::x_AsBasicString(str,substitute_on_error, (CUtf8::EValidate)validate); | ^ /usr/include/c++/v1/__fwd/string.h:23:29: note: template is declared here 23 | struct _LIBCPP_TEMPLATE_VIS char_traits; | ^ 16 errors generated. gmake[4]: *** [/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-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-2.14.1+-src/c++/ReleaseMT/build/corelib' Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbi_os_unix.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/blob_storage.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ddumpable.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/env_reg.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/metareg.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbi_config.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbi_param.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbi_process.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbi_safe_static.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbi_signal.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbi_stack.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbi_system.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbiapp.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbiargs.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-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-2.14.1+-src/c++/src/corelib/ncbidbg.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbidiag.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbidiag_p.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbidll.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbienv.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbiexec.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbiexpt.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbifile.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbimempool.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbimtx.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbiobj.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbireg.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbistr.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbistre.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbithr.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbitime.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/obj_store.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/plugin_manager.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/plugin_manager_store.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/rwstreambuf.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/stream_utils.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/syslog.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/version.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/request_ctx.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/request_control.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/expr.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbi_strings.c. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/resource_info.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/interprocess_lock.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbi_autoinit.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/perf_log.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbi_toolkit.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbierror.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbi_url.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbi_cookies.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/guard.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbi_message.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/request_status.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbi_fast.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ncbi_dbsvcmapper.cpp. Updating dependency information for /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-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-2.14.1+-src/c++/ReleaseMT/inc -I/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include -DNCBI_BUILD_SESSION_ID=fdcfcaa9-9788-11ef-9f80-ac1f6bc2542e /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-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-2.14.1+-src/c++/ReleaseMT/inc -I/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include -DNCBI_BUILD_SESSION_ID=fdcfcaa9-9788-11ef-9f80-ac1f6bc2542e /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-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-2.14.1+-src/c++/ReleaseMT/inc -I/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/include -DNCBI_BUILD_SESSION_ID=fdcfcaa9-9788-11ef-9f80-ac1f6bc2542e /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/src/corelib/ddumpable.cpp -o ddumpable.o gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/ReleaseMT/build/corelib' FAILED: src/corelib/Makefile.corelib.lib gmake[4]: Entering directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-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-2.14.1+-src/c++/ReleaseMT/lib/libxncbi.a /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/ReleaseMT/status/.xncbi.dep \ /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/ReleaseMT/lib/libxncbi-static.a /wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/ReleaseMT/status/.xncbi-static.dep gmake[4]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-src/c++/ReleaseMT/build/corelib' gmake[3]: *** [/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-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-2.14.1+-src/c++/ReleaseMT/build/corelib' gmake[2]: *** [/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-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-2.14.1+-src/c++/ReleaseMT/build/corelib' gmake[1]: *** [/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.14.1+-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-2.14.1+-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 making "build" in /usr/ports/biology/ncbi-blast+