From nobody Tue Dec 19 16:34:55 2023 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 4Svj335RDsz54WnF for ; Tue, 19 Dec 2023 16:34:55 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: from mxrelay.nyi.freebsd.org (mxrelay.nyi.freebsd.org [IPv6:2610:1c1:1:606c::19:3]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits) key-exchange X25519 server-signature RSA-PSS (4096 bits) server-digest SHA256 client-signature RSA-PSS (4096 bits) client-digest SHA256) (Client CN "mxrelay.nyi.freebsd.org", Issuer "R3" (verified OK)) by mx1.freebsd.org (Postfix) with ESMTPS id 4Svj331Qn7z3bss for ; Tue, 19 Dec 2023 16:34:55 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) ARC-Seal: i=1; s=dkim; d=freebsd.org; t=1703003695; a=rsa-sha256; cv=none; b=qNoaqOcrsqLxpP3famdnohp/uRlzJVw+TWJuo6dFB6kj10/CGvI7dqFnSBGbwuT434VK+0 IT139lFcxAlLjt6Z0NtO1w53IswSVXF5uoTfJ3i+4IsbLKzLQejmJ20xgOmKcLe0ckCQNQ EU2Zxxoaij4tseDyeQZm7vl/lXd2wjrSGb8Yuj9wM4pxRF65BMwclaSViJAvw1DdTPe34/ HPlrseu6tuM0R5G5UfU9pQAT8MBKbsYKPENAMyaWsIyVQcOdExt/4fz+iHpVZZB9JjY1wa uGm3ifNQz79ndL+ndH7ufxTNmQ0hIxYMXZdCmfSTe5sO2cA47N2M17ZF/X00mA== ARC-Authentication-Results: i=1; mx1.freebsd.org; none ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=freebsd.org; s=dkim; t=1703003695; h=from:from:reply-to:subject:subject:date:date:message-id:message-id: to:to:cc; bh=5nFBEluw+Ves5Bgu7WeYOABc3hQv2gA2lzayFgE8kUQ=; b=RMOKRNrXBhKZ+dNcis0ngojZJPwoPG8AsXP4+hN1nUl3KD9D0KUaTFC5jcyqHVAF4fNuRl 1lk448sLg6niUCFymthKenNvbbqQB+ay2zViAblcWHqh20GTJLMhK5ECSVUTi9PpuKzIbs 0X0UzkxiZoVVGM4gwJnrELbqu3WgsZWquYor43OKY17QQ6h/ZTVRaLppoIKuPD/C/WZyzr wi9xiacsA1k9eHBJQQ1c5uBAO7RRfcYTZROLSlTkzyBQumseGa4srtXdvPogE26s/xNQuu d0A27C/f8hXvusr1u6W6wznRAEcsnuRRTNdMv7AjX26/JFbgIC6uztUM2ng1oQ== Received: from ampere3.nyi.freebsd.org (ampere3.nyi.freebsd.org [IPv6:2610:1c1:1:6080::16:26]) by mxrelay.nyi.freebsd.org (Postfix) with ESMTP id 4Svj330MJkz1BZX for ; Tue, 19 Dec 2023 16:34:55 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: from root (uid 0) (envelope-from pkg-fallout@FreeBSD.org) id 2c8 by ampere3.nyi.freebsd.org (DragonFly Mail Agent v0.13+ on ampere3.nyi.freebsd.org); Tue, 19 Dec 2023 16:34:55 +0000 To: pkg-fallout@FreeBSD.org Subject: [package - 132releng-armv7-default][biology/btllib] Failed for btllib-1.7.0 in build Date: Tue, 19 Dec 2023 16:34:55 +0000 Message-Id: <6581c62f.2c8.31f9227f@ampere3.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: yuri@FreeBSD.org Log URL: https://pkg-status.freebsd.org/ampere3/data/132releng-armv7-default/1dd4264fe4a8/logs/btllib-1.7.0.log Build URL: https://pkg-status.freebsd.org/ampere3/build.html?mastername=132releng-armv7-default&build=1dd4264fe4a8 Log: =>> Building biology/btllib build started at Tue Dec 19 16:34:05 UTC 2023 port directory: /usr/ports/biology/btllib package name: btllib-1.7.0 building for: FreeBSD 132releng-armv7-default-job-11 13.2-RELEASE-p5 FreeBSD 13.2-RELEASE-p5 1302001 arm maintained by: yuri@FreeBSD.org Makefile datestamp: -rw-r--r-- 1 root wheel 854 Dec 14 01:07 /usr/ports/biology/btllib/Makefile Ports top last git commit: 1dd4264fe4 Ports top unclean checkout: no Port dir last git commit: e8a2beffcf Port dir unclean checkout: no Poudriere version: poudriere-git-3.4.0 Host OSVERSION: 1500006 Jail OSVERSION: 1302001 Job Id: 11 ---Begin Environment--- SHELL=/bin/csh OSVERSION=1302001 UNAME_v=FreeBSD 13.2-RELEASE-p5 1302001 UNAME_r=13.2-RELEASE-p5 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=3.4.0 MASTERMNT=/usr/local/poudriere/data/.m/132releng-armv7-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/132releng-armv7-default/11/.p OUTPUT_REDIRECTED_STDOUT=3 P_PORTS_FEATURES=FLAVORS SELECTED_OPTIONS MASTERNAME=132releng-armv7-default SCRIPTPREFIX=/usr/local/share/poudriere SCRIPTNAME=bulk.sh OLDPWD=/usr/local/poudriere/data/.m/132releng-armv7-default/ref/.p/pool POUDRIERE_PKGNAME=poudriere-git-3.4.0 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-- yuri@FreeBSD.org --End MAINTAINER-- --CONFIGURE_ARGS-- --prefix /usr/local --mandir man --infodir share/info --auto-features=enabled -Dpython.bytecompile=-1 -Db_colorout=never --buildtype release --optimization plain --strip _build --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- PKG_CONFIG=pkgconf PYTHON="/usr/local/bin/python3.9" XDG_DATA_HOME=/wrkdirs/usr/ports/biology/btllib/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/btllib/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/btllib/work/.cache HOME=/wrkdirs/usr/ports/biology/btllib/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/btllib/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/btllib/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh LANG=en_US.UTF-8 LC_ALL=en_US.UTF-8 --End CONFIGURE_ENV-- --MAKE_ENV-- NINJA_STATUS="[%p %s/%t] " XDG_DATA_HOME=/wrkdirs/usr/ports/biology/btllib/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/btllib/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/btllib/work/.cache HOME=/wrkdirs/usr/ports/biology/btllib/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/btllib/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/btllib/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 DESTDIR=/wrkdirs/usr/ports/biology/btllib/work/stage LANG=en_US.UTF-8 LC_ALL=en_US.UTF-8 PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" -fstack-protector-strong " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="i nstall -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/python3.9 PYTHON_LIBDIR=lib/python3.9 PYTHON_PLATFORM=freebsd13 PYTHON_SITELIBDIR=lib/python3.9/site-packages PYTHON_SUFFIX=39 PYTHON_EXT_SUFFIX=.cpython-39 PYTHON_VER=3.9 PYTHON_VERSION=python3.9 PYTHON2="@comment " PYTHON3="" OSREL=13.2 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/btllib" EXAMPLESDIR="share/examples/btllib" DATADIR="share/btllib" WWWDIR="www/btllib" ETCDIR="etc/btllib" --End PLIST_SUB-- --SUB_LIST-- PYTHON_INCLUDEDIR=/usr/local/include/python3.9 PYTHON_LIBDIR=/usr/local/lib/python3.9 PYTHON_PLATFORM=freebsd13 PYTHON_SITELIBDIR=/usr/local/lib/python3.9/site-packages PYTHON_SUFFIX=39 PYTHON_EXT_SUFFIX=.cpython-39 PYTHON_VER=3.9 PYTHON_VERSION=python3.9 PYTHON2="@comment " PYTHON3="" PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/btllib DOCSDIR=/usr/local/share/doc/btllib EXAMPLESDIR=/usr/local/share/examples/btllib WWWDIR=/usr/local/www/btllib ETCDIR=/usr/local/etc/btllib --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) 524288 stack size (kbytes, -s) 65536 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 GPLv3 accepted by the user =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> btllib-1.7.0 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.20.9.pkg [132releng-armv7-default-job-11] Installing pkg-1.20.9... [132releng-armv7-default-job-11] Extracting pkg-1.20.9: .......... done ===> btllib-1.7.0 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of btllib-1.7.0 =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License GPLv3 accepted by the user ===> Fetching all distfiles required by btllib-1.7.0 for building =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License GPLv3 accepted by the user ===> Fetching all distfiles required by btllib-1.7.0 for building => SHA256 Checksum OK for bcgsc-btllib-v1.7.0_GH0.tar.gz. => SHA256 Checksum OK for p-ranav-argparse-15d745f_GH0.tar.gz. => SHA256 Checksum OK for skystrife-cpptoml-fededad_GH0.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 GPLv3 accepted by the user ===> Fetching all distfiles required by btllib-1.7.0 for building ===> Extracting for btllib-1.7.0 => SHA256 Checksum OK for bcgsc-btllib-v1.7.0_GH0.tar.gz. => SHA256 Checksum OK for p-ranav-argparse-15d745f_GH0.tar.gz. => SHA256 Checksum OK for skystrife-cpptoml-fededad_GH0.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 btllib-1.7.0 ===> Applying FreeBSD patches for btllib-1.7.0 from /usr/ports/biology/btllib/files =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> btllib-1.7.0 depends on executable: bash - not found ===> Installing existing package /packages/All/bash-5.2.21.pkg [132releng-armv7-default-job-11] Installing bash-5.2.21... [132releng-armv7-default-job-11] `-- Installing gettext-runtime-0.22.3... [132releng-armv7-default-job-11] | `-- Installing indexinfo-0.3.1... [132releng-armv7-default-job-11] | `-- Extracting indexinfo-0.3.1: .... done [132releng-armv7-default-job-11] `-- Extracting gettext-runtime-0.22.3: .......... done [132releng-armv7-default-job-11] `-- Installing readline-8.2.1... [132releng-armv7-default-job-11] `-- Extracting readline-8.2.1: .......... done [132releng-armv7-default-job-11] Extracting bash-5.2.21: .......... done ===> btllib-1.7.0 depends on executable: bash - found ===> Returning to build of btllib-1.7.0 ===> btllib-1.7.0 depends on executable: samtools - not found ===> Installing existing package /packages/All/samtools-1.17.pkg [132releng-armv7-default-job-11] Installing samtools-1.17... [132releng-armv7-default-job-11] `-- Installing htslib-1.17... [132releng-armv7-default-job-11] | `-- Installing curl-8.4.0... [132releng-armv7-default-job-11] | | `-- Installing libnghttp2-1.58.0... [132releng-armv7-default-job-11] | | `-- Extracting libnghttp2-1.58.0: .......... done [132releng-armv7-default-job-11] | | `-- Installing libpsl-0.21.2_4... [132releng-armv7-default-job-11] | | `-- Installing libidn2-2.3.4... [132releng-armv7-default-job-11] | | | `-- Installing libunistring-1.1... Configuring config.hpp using configuration Run-time dependency threads found: YES WARNING: OpenMP found but omp.h missing. Run-time dependency OpenMP found: NO (tried system) Executing subproject cpptoml method cmake cpptoml| Found CMake: /usr/local/bin/cmake (3.27.9) | Configuring the build directory with CMake version 3.27.9 | Running CMake with: -G Ninja -DCMAKE_INSTALL_PREFIX=/usr/local | - build directory: /wrkdirs/usr/ports/biology/btllib/work/btllib-1.7.0/_build/subprojects/cpptoml/__CMake_build | - source directory: /wrkdirs/usr/ports/biology/btllib/work/btllib-1.7.0/subprojects/cpptoml | - toolchain file: /wrkdirs/usr/ports/biology/btllib/work/btllib-1.7.0/_build/subprojects/cpptoml/__CMake_build/CMakeMesonToolchainFile.cmake | - preload file: /usr/local/lib/python3.9/site-packages/mesonbuild/cmake/data/preload.cmake | - trace args: --trace-expand --trace-format=json-v1 --no-warn-unused-cli --trace-redirect=cmake_trace.txt | - disabled policy warnings: [CMP0025, CMP0047, CMP0056, CMP0060, CMP0065, CMP0066, CMP0067, CMP0082, CMP0089, CMP0102] | CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required): | Compatibility with CMake < 3.5 will be removed from a future version of | CMake. | Update the VERSION argument value or use a ... suffix to tell | CMake that the project does not need compatibility with older versions. | Put cmake in trace mode, but with variables expanded. | Put cmake in trace mode and sets the trace output format. | Not searching for unused variables given on the command line. | Put cmake in trace mode and redirect trace output to a file instead of stderr. | Trace will be written to cmake_trace.txt | -- The C compiler identification is Clang 14.0.5 | -- The CXX compiler identification is Clang 14.0.5 | CMake Warning (dev) at /usr/local/share/cmake/Modules/CMakeFindBinUtils.cmake:224 (find_program): | Policy CMP0126 is not set: set(CACHE) does not remove a normal variable of | the same name. Run "cmake --help-policy CMP0126" for policy details. Use | the cmake_policy command to set the policy and suppress this warning. | For compatibility with older versions of CMake, normal variable | "CMAKE_TAPI" will be removed from the current scope. | Call Stack (most recent call first): | /usr/local/share/cmake/Modules/CMakeDetermineCXXCompiler.cmake:202 (include) | CMakeLists.txt:2 (project) | This warning is for project developers. Use -Wno-dev to suppress it. | -- Detecting C compiler ABI info | -- Detecting C compiler ABI info - done | -- Check for working C compiler: /usr/bin/cc - skipped | -- Detecting C compile features | -- Detecting C compile features - done | -- Detecting CXX compiler ABI info | -- Detecting CXX compiler ABI info - done | -- Check for working CXX compiler: /usr/bin/c++ - skipped | -- Detecting CXX compile features | -- Detecting CXX compile features - done | -- Could NOT find Doxygen (missing: DOXYGEN_EXECUTABLE) | -- Configuring done (2.0s) | -- Generating done (0.0s) | -- Build files have been written to: /wrkdirs/usr/ports/biology/btllib/work/btllib-1.7.0/_build/subprojects/cpptoml/__CMake_build cpptoml| CMake configuration: SUCCEEDED cpptoml| CMake project cpptoml has 1 build targets. cpptoml| Generated Meson AST: /wrkdirs/usr/ports/biology/btllib/work/btllib-1.7.0/_build/subprojects/cpptoml/meson.build cpptoml| Project name: cpptoml cpptoml| Project version: undefined cpptoml| Build targets in project: 0 cpptoml| Subproject cpptoml finished. Found pkg-config: YES (/usr/local/bin/pkgconf) 2.0.3 Run-time dependency sdsl-lite found: YES 2.1.0 Executing subproject argparse method cmake | Configuring the build directory with CMake version 3.27.9 | Running CMake with: -G Ninja -DCMAKE_INSTALL_PREFIX=/usr/local | - build directory: /wrkdirs/usr/ports/biology/btllib/work/btllib-1.7.0/_build/subprojects/argparse/__CMake_build | - source directory: /wrkdirs/usr/ports/biology/btllib/work/btllib-1.7.0/subprojects/argparse | - toolchain file: /wrkdirs/usr/ports/biology/btllib/work/btllib-1.7.0/_build/subprojects/argparse/__CMake_build/CMakeMesonToolchainFile.cmake | - preload file: /usr/local/lib/python3.9/site-packages/mesonbuild/cmake/data/preload.cmake | - trace args: --trace-expand --trace-format=json-v1 --no-warn-unused-cli --trace-redirect=cmake_trace.txt | - disabled policy warnings: [CMP0025, CMP0047, CMP0056, CMP0060, CMP0065, CMP0066, CMP0067, CMP0082, CMP0089, CMP0102] | Put cmake in trace mode, but with variables expanded. | Put cmake in trace mode and sets the trace output format. | Not searching for unused variables given on the command line. | Put cmake in trace mode and redirect trace output to a file instead of stderr. | Trace will be written to cmake_trace.txt | -- The CXX compiler identification is Clang 14.0.5 | -- Detecting CXX compiler ABI info | -- Detecting CXX compiler ABI info - done | -- Check for working CXX compiler: /usr/bin/c++ - skipped | -- Detecting CXX compile features | -- Detecting CXX compile features - done | -- Configuring done (1.3s) | -- Generating done (0.0s) | -- Build files have been written to: /wrkdirs/usr/ports/biology/btllib/work/btllib-1.7.0/_build/subprojects/argparse/__CMake_build argparse| CMake configuration: SUCCEEDED argparse| CMake project argparse has 1 build targets. argparse| Generated Meson AST: /wrkdirs/usr/ports/biology/btllib/work/btllib-1.7.0/_build/subprojects/argparse/meson.build argparse| Project name: argparse argparse| Project version: undefined argparse| Build targets in project: 0 argparse| Subproject argparse finished. Program samtools found: YES (/usr/local/bin/samtools) Program gzip found: YES (/usr/bin/gzip) Program xz found: YES (/usr/bin/xz) Program bzip2 found: YES (/usr/bin/bzip2) Program tar found: YES (/usr/bin/tar) Program gcovr found: NO Program swig found: NO Program doxygen found: NO WARNING: You should add the boolean check kwarg to the run_command call. It currently defaults to false, but it will default to true in future releases of meson. See also: https://github.com/mesonbuild/meson/issues/9300 Program python3 found: YES (/wrkdirs/usr/ports/biology/btllib/work/.bin/python3) Program python3-config found: NO Message: python3-config not found, skipping Python wrappers. Build targets in project: 11 btllib 1.7.0 Subprojects argparse : YES cpptoml : YES User defined options auto_features : enabled buildtype : release infodir : share/info mandir : man optimization : plain prefix : /usr/local strip : true python.bytecompile: -1 b_colorout : never Found ninja-1.11.1 at /usr/local/bin/ninja WARNING: Need gcovr or lcov/genhtml to generate any coverage reports WARNING: Running the setup command as `meson [options]` instead of `meson setup [options]` is ambiguous and deprecated. =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Building for btllib-1.7.0 [ 4% 3/24] c++ -Ilibbtllib.so.p -I. -I.. -Iinclude -I../include -I../subprojects/cpptoml/include -Isubprojects/cpptoml/__CMake_build -I../subprojects/cpptoml/__CMake_build -Isubprojects/cpptoml -I../subprojects/cpptoml -I/usr/local/include -fdiagnostics-color=never --coverage -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wextra -Wpedantic -std=c++17 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -pthread -MD -MQ libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_seq_reader_fasta_module.cpp.o -MF libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_seq_reader_fasta_module.cpp.o.d -o libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_seq_reader_fasta_module.cpp.o -c /wrkdirs/usr/ports/biology/btllib/work/btllib-1.7.0/src/btllib/seq_reader_fasta_module.cpp [ 8% 4/24] c++ -Ilibbtllib.so.p -I. -I.. -Iinclude -I../include -I../subprojects/cpptoml/include -Isubprojects/cpptoml/__CMake_build -I../subprojects/cpptoml/__CMake_build -Isubprojects/cpptoml -I../subprojects/cpptoml -I/usr/local/include -fdiagnostics-color=never --coverage -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wextra -Wpedantic -std=c++17 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -pthread -MD -MQ libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_seq_reader_multiline_fasta_module.cpp.o -MF libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_seq_reader_multiline_fasta_module.cpp.o.d -o libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_seq_reader_multiline_fasta_module.cpp.o -c /wrkdirs/usr/ports/biology/btllib/work/btllib-1.7.0/src/btllib/seq_reader_multiline_fasta_module.cpp [ 12% 5/24] c++ -Ilibbtllib.so.p -I. -I.. -Iinclude -I../include -I../subprojects/cpptoml/include -Isubprojects/cpptoml/__CMake_build -I../subprojects/cpptoml/__CMake_build -Isubprojects/cpptoml -I../subprojects/cpptoml -I/usr/local/include -fdiagnostics-color=never --coverage -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wextra -Wpedantic -std=c++17 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -pthread -MD -MQ libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_seq.cpp.o -MF libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_seq.cpp.o.d -o libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_seq.cpp.o -c /wrkdirs/usr/ports/biology/btllib/work/btllib-1.7.0/src/btllib/seq.cpp [ 16% 6/24] c++ -Ilibbtllib.so.p -I. -I.. -Iinclude -I../include -I../subprojects/cpptoml/include -Isubprojects/cpptoml/__CMake_build -I../subprojects/cpptoml/__CMake_build -Isubprojects/cpptoml -I../subprojects/cpptoml -I/usr/local/include -fdiagnostics-color=never --coverage -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wextra -Wpedantic -std=c++17 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -pthread -MD -MQ libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_seq_reader_sam_module.cpp.o -MF libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_seq_reader_sam_module.cpp.o.d -o libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_seq_reader_sam_module.cpp.o -c /wrkdirs/usr/ports/biology/btllib/work/btllib-1.7.0/src/btllib/seq_reader_sam_module.cpp [ 20% 7/24] c++ -Ilibbtllib.so.p -I. -I.. -Iinclude -I../include -I../subprojects/cpptoml/include -Isubprojects/cpptoml/__CMake_build -I../subprojects/cpptoml/__CMake_build -Isubprojects/cpptoml -I../subprojects/cpptoml -I/usr/local/include -fdiagnostics-color=never --coverage -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wextra -Wpedantic -std=c++17 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -pthread -MD -MQ libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_aahash.cpp.o -MF libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_aahash.cpp.o.d -o libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_aahash.cpp.o -c /wrkdirs/usr/ports/biology/btllib/work/btllib-1.7.0/src/btllib/aahash.cpp [ 25% 8/24] c++ -Ilibbtllib.so.p -I. -I.. -Iinclude -I../include -I../subprojects/cpptoml/include -Isubprojects/cpptoml/__CMake_build -I../subprojects/cpptoml/__CMake_build -Isubprojects/cpptoml -I../subprojects/cpptoml -I/usr/local/include -fdiagnostics-color=never --coverage -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wextra -Wpedantic -std=c++17 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -pthread -MD -MQ libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_seq_writer.cpp.o -MF libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_seq_writer.cpp.o.d -o libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_seq_writer.cpp.o -c /wrkdirs/usr/ports/biology/btllib/work/btllib-1.7.0/src/btllib/seq_writer.cpp [ 29% 9/24] c++ -Ilibbtllib.so.p -I. -I.. -Iinclude -I../include -I../subprojects/cpptoml/include -Isubprojects/cpptoml/__CMake_build -I../subprojects/cpptoml/__CMake_build -Isubprojects/cpptoml -I../subprojects/cpptoml -I/usr/local/include -fdiagnostics-color=never --coverage -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wextra -Wpedantic -std=c++17 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -pthread -MD -MQ libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_randseq.cpp.o -MF libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_randseq.cpp.o.d -o libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_randseq.cpp.o -c /wrkdirs/usr/ports/biology/btllib/work/btllib-1.7.0/src/btllib/randseq.cpp [ 33% 10/24] c++ -Ilibbtllib.so.p -I. -I.. -Iinclude -I../include -I../subprojects/cpptoml/include -Isubprojects/cpptoml/__CMake_build -I../subprojects/cpptoml/__CMake_build -Isubprojects/cpptoml -I../subprojects/cpptoml -I/usr/local/include -fdiagnostics-color=never --coverage -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wextra -Wpedantic -std=c++17 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -pthread -MD -MQ libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_data_stream.cpp.o -MF libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_data_stream.cpp.o.d -o libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_data_stream.cpp.o -c /wrkdirs/usr/ports/biology/btllib/work/btllib-1.7.0/src/btllib/data_stream.cpp [ 37% 11/24] c++ -Ilibbtllib.so.p -I. -I.. -Iinclude -I../include -I../subprojects/cpptoml/include -Isubprojects/cpptoml/__CMake_build -I../subprojects/cpptoml/__CMake_build -Isubprojects/cpptoml -I../subprojects/cpptoml -I/usr/local/include -fdiagnostics-color=never --coverage -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wextra -Wpedantic -std=c++17 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -pthread -MD -MQ libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_seq_reader.cpp.o -MF libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_seq_reader.cpp.o.d -o libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_seq_reader.cpp.o -c /wrkdirs/usr/ports/biology/btllib/work/btllib-1.7.0/src/btllib/seq_reader.cpp [ 41% 12/24] c++ -Ilibbtllib.so.p -I. -I.. -Iinclude -I../include -I../subprojects/cpptoml/include -Isubprojects/cpptoml/__CMake_build -I../subprojects/cpptoml/__CMake_build -Isubprojects/cpptoml -I../subprojects/cpptoml -I/usr/local/include -fdiagnostics-color=never --coverage -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wextra -Wpedantic -std=c++17 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -pthread -MD -MQ libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_seq_reader_multiline_fastq_module.cpp.o -MF libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_seq_reader_multiline_fastq_module.cpp.o.d -o libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_seq_reader_multiline_fastq_module.cpp.o -c /wrkdirs/usr/ports/biology/btllib/work/btllib-1.7.0/src/btllib/seq_reader_multiline_fastq_module.cpp [ 45% 13/24] c++ -Ilibbtllib.so.p -I. -I.. -Iinclude -I../include -I../subprojects/cpptoml/include -Isubprojects/cpptoml/__CMake_build -I../subprojects/cpptoml/__CMake_build -Isubprojects/cpptoml -I../subprojects/cpptoml -I/usr/local/include -fdiagnostics-color=never --coverage -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wextra -Wpedantic -std=c++17 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -pthread -MD -MQ libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_util.cpp.o -MF libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_util.cpp.o.d -o libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_util.cpp.o -c /wrkdirs/usr/ports/biology/btllib/work/btllib-1.7.0/src/btllib/util.cpp [ 50% 14/24] c++ -Ilibbtllib.so.p -I. -I.. -Iinclude -I../include -I../subprojects/cpptoml/include -Isubprojects/cpptoml/__CMake_build -I../subprojects/cpptoml/__CMake_build -Isubprojects/cpptoml -I../subprojects/cpptoml -I/usr/local/include -fdiagnostics-color=never --coverage -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wextra -Wpedantic -std=c++17 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -pthread -MD -MQ libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_seq_reader_fastq_module.cpp.o -MF libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_seq_reader_fastq_module.cpp.o.d -o libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_seq_reader_fastq_module.cpp.o -c /wrkdirs/usr/ports/biology/btllib/work/btllib-1.7.0/src/btllib/seq_reader_fastq_module.cpp [ 54% 15/24] c++ -Ilibbtllib.so.p -I. -I.. -Iinclude -I../include -I../subprojects/cpptoml/include -Isubprojects/cpptoml/__CMake_build -I../subprojects/cpptoml/__CMake_build -Isubprojects/cpptoml -I../subprojects/cpptoml -I/usr/local/include -fdiagnostics-color=never --coverage -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wextra -Wpedantic -std=c++17 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -pthread -MD -MQ libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_bloom_filter.cpp.o -MF libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_bloom_filter.cpp.o.d -o libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_bloom_filter.cpp.o -c /wrkdirs/usr/ports/biology/btllib/work/btllib-1.7.0/src/btllib/bloom_filter.cpp FAILED: libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_bloom_filter.cpp.o c++ -Ilibbtllib.so.p -I. -I.. -Iinclude -I../include -I../subprojects/cpptoml/include -Isubprojects/cpptoml/__CMake_build -I../subprojects/cpptoml/__CMake_build -Isubprojects/cpptoml -I../subprojects/cpptoml -I/usr/local/include -fdiagnostics-color=never --coverage -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wextra -Wpedantic -std=c++17 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -pthread -MD -MQ libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_bloom_filter.cpp.o -MF libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_bloom_filter.cpp.o.d -o libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_bloom_filter.cpp.o -c /wrkdirs/usr/ports/biology/btllib/work/btllib-1.7.0/src/btllib/bloom_filter.cpp /wrkdirs/usr/ports/biology/btllib/work/btllib-1.7.0/src/btllib/bloom_filter.cpp:250:10: error: call to constructor of 'btllib::NtHash' is ambiguous NtHash nthash(seq, seq_len, get_hash_num(), get_k()); ^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../include/btllib/nthash_kmer.hpp:248:3: note: candidate constructor NtHash(const char* seq, ^ ../include/btllib/nthash_kmer.hpp:278:3: note: candidate constructor NtHash(const std::string& seq, ^ /wrkdirs/usr/ports/biology/btllib/work/btllib-1.7.0/src/btllib/bloom_filter.cpp:260:10: error: call to constructor of 'btllib::NtHash' is ambiguous NtHash nthash(seq, seq_len, get_hash_num(), get_k()); ^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../include/btllib/nthash_kmer.hpp:248:3: note: candidate constructor NtHash(const char* seq, ^ ../include/btllib/nthash_kmer.hpp:278:3: note: candidate constructor NtHash(const std::string& seq, ^ /wrkdirs/usr/ports/biology/btllib/work/btllib-1.7.0/src/btllib/bloom_filter.cpp:273:10: error: call to constructor of 'btllib::NtHash' is ambiguous NtHash nthash(seq, seq_len, get_hash_num(), get_k()); ^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../include/btllib/nthash_kmer.hpp:248:3: note: candidate constructor NtHash(const char* seq, ^ ../include/btllib/nthash_kmer.hpp:278:3: note: candidate constructor NtHash(const std::string& seq, ^ 3 errors generated. [ 58% 15/24] c++ -Ilibbtllib.so.p -I. -I.. -Iinclude -I../include -I../subprojects/cpptoml/include -Isubprojects/cpptoml/__CMake_build -I../subprojects/cpptoml/__CMake_build -Isubprojects/cpptoml -I../subprojects/cpptoml -I/usr/local/include -fdiagnostics-color=never --coverage -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wextra -Wpedantic -std=c++17 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -pthread -MD -MQ libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_status.cpp.o -MF libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_status.cpp.o.d -o libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_status.cpp.o -c /wrkdirs/usr/ports/biology/btllib/work/btllib-1.7.0/src/btllib/status.cpp [ 62% 15/24] c++ -Ilibbtllib.so.p -I. -I.. -Iinclude -I../include -I../subprojects/cpptoml/include -Isubprojects/cpptoml/__CMake_build -I../subprojects/cpptoml/__CMake_build -Isubprojects/cpptoml -I../subprojects/cpptoml -I/usr/local/include -fdiagnostics-color=never --coverage -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wextra -Wpedantic -std=c++17 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -pthread -MD -MQ libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_process_pipeline.cpp.o -MF libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_process_pipeline.cpp.o.d -o libbtllib.so.p/_wrkdirs_usr_ports_biology_btllib_work_btllib-1.7.0_src_btllib_process_pipeline.cpp.o -c /wrkdirs/usr/ports/biology/btllib/work/btllib-1.7.0/src/btllib/process_pipeline.cpp ninja: build stopped: subcommand failed. ===> 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/btllib