[package - main-amd64-default][biology/ncbi-blast+] Failed for ncbi-blast+-2.14.1_6 in build
- Go to: [ bottom of page ] [ top of archives ] [ this month ]
Date: Thu, 31 Oct 2024 13:07:01 UTC
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--
=======================<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+-2.14.1_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
===========================================================================
=======================<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+-2.14.1_6 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+-2.14.1_6 for building
=> SHA256 Checksum OK for ncbi-blast-2.14.1+-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+-2.14.1_6 for building
===> Extracting for ncbi-blast+-2.14.1_6
=> SHA256 Checksum OK for ncbi-blast-2.14.1+-src.tar.gz.
===========================================================================
=======================<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+-2.14.1_6
===> Applying FreeBSD patches for ncbi-blast+-2.14.1_6 from /usr/ports/biology/ncbi-blast+/files
===========================================================================
=======================<phase: build-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===> ncbi-blast+-2.14.1_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
<snip>
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/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<unsigned short>' 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<unsigned short>'
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<unsigned short>::__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<unsigned short>::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<unsigned short>' 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<unsigned short>'
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<unsigned short>::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<unsigned short>' 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<unsigned short>'
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<unsigned short>'
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<unsigned short>::__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<unsigned short>::__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<unsigned short>::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<unsigned short>' 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<unsigned short>'
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<unsigned short>'
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<unsigned short>::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<unsigned short>' 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+