From nobody Sat Mar 23 23:11:40 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 4V2FM06vK8z5G5PR for ; Sat, 23 Mar 2024 23:11:40 +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 4V2FM032D3z4WjP for ; Sat, 23 Mar 2024 23:11:40 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) ARC-Seal: i=1; s=dkim; d=freebsd.org; t=1711235500; a=rsa-sha256; cv=none; b=B0g06dSHCGVQou4XofLzMTURgOsgqcC2Tw8sEBMJlovDtekca1KIkeU0cTkQKp1fKUzntv kinmX8ZW1TFkIcinSdDG08XZ257Vy+ZcgcB3QFjXtLbE1gINAJMZnKo/5JlBkRU6dFKoC0 M3FFOa4ILpkrVoJPaMI0kYlSxnlH2CNQxoHLyErX3elFWJydSNaaU7le/VZqnkqTbpiBhE taZ/XkuhNuZ3zsQ8fuC/Gx3eErxH5nuwLh9JiiS9KQZk2dvJlyCELz8EGm1MoiKi6BiEm+ sdHacJmfncfD/t78UGQkbrnM0wP5ApOhhsH8wKcp3rxle6XFs6OPw95zZG74BQ== 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=1711235500; h=from:from:reply-to:subject:subject:date:date:message-id:message-id: to:to:cc:cc; bh=F2GkEJ7pFY9WcOuLOISmpLHB4rvAb8T00BUrsLRRX2Q=; b=pW6IFuhovtqqnoDTUCFsAG2NXSXIMqgSv0yZjnAzCxVoS9bXUcRat8KNoKO/y9tT4n3Npi vUO6DntyUWAUzGJ7bLwYGziU0Q53u/1YstWDrcjqAjQTjDjjZ5S7M4jKFXDvX/lfH2fwFX nEpB5qAX1WY+65P2iSTc+lBijzNxq8oMm1DtkJcOSvDgPxrGqKI1YZLnC9DXOE1nbk7xPE eWVuWGwTbiQtoGAIEnpitRYuhuhTPr8wO0wd5oK37HHG8SCgm21jMJtrXG75NXwXuJjujN C7JCgGFCW7P7qHvVNQ55tbDY783n0dynMctdZM4N2ldXqiZ2Ag7+gA5Pl+fS3w== Received: from beefy15.nyi.freebsd.org (beefy15.nyi.freebsd.org [IPv6:2610:1c1:1:6080::16:1e]) by mxrelay.nyi.freebsd.org (Postfix) with ESMTP id 4V2FM01y9tz17Sr for ; Sat, 23 Mar 2024 23:11:40 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: from root (uid 0) (envelope-from pkg-fallout@FreeBSD.org) id 99d8 by beefy15.nyi.freebsd.org (DragonFly Mail Agent v0.13+ on beefy15.nyi.freebsd.org); Sat, 23 Mar 2024 23:11:40 +0000 To: yuri@FreeBSD.org Subject: [package - 132i386-default][science/dssp] Failed for dssp-4.4.2 in configure Cc: pkg-fallout@FreeBSD.org Date: Sat, 23 Mar 2024 23:11:40 +0000 Message-Id: <65ff61ac.99d8.fe0c61e@beefy15.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/beefy15/data/132i386-default/7b28c17f2124/logs/dssp-4.4.2.log Build URL: https://pkg-status.freebsd.org/beefy15/build.html?mastername=132i386-default&build=7b28c17f2124 Log: =>> Building science/dssp build started at Sat Mar 23 23:11:10 UTC 2024 port directory: /usr/ports/science/dssp package name: dssp-4.4.2 building for: FreeBSD 132i386-default-job-06 13.2-RELEASE-p10 FreeBSD 13.2-RELEASE-p10 i386 maintained by: yuri@FreeBSD.org Makefile datestamp: -rw-r--r-- 1 root wheel 630 Jul 25 2023 /usr/ports/science/dssp/Makefile Ports top last git commit: 7b28c17f212 Ports top unclean checkout: no Port dir last git commit: 07ce13e9966 Port dir unclean checkout: no Poudriere version: poudriere-git-3.4.1-1-g1e9f97d6 Host OSVERSION: 1500006 Jail OSVERSION: 1302001 Job Id: 06 ---Begin Environment--- SHELL=/bin/csh BLOCKSIZE=K MAIL=/var/mail/root MM_CHARSET=UTF-8 LANG=C.UTF-8 OSVERSION=1302001 STATUS=1 HOME=/root PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin MAKE_OBJDIR_CHECK_WRITABLE=0 UNAME_m=i386 UNAME_p=i386 UNAME_r=13.2-RELEASE-p10 LOCALBASE=/usr/local UNAME_v=FreeBSD 13.2-RELEASE-p10 USER=root POUDRIERE_NAME=poudriere-git LIBEXECPREFIX=/usr/local/libexec/poudriere POUDRIERE_VERSION=3.4.1-1-g1e9f97d6 MASTERMNT=/usr/local/poudriere/data/.m/132i386-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/132i386-default/06/.p OUTPUT_REDIRECTED_STDOUT=3 P_PORTS_FEATURES=FLAVORS SUBPACKAGES SELECTED_OPTIONS MASTERNAME=132i386-default SCRIPTPREFIX=/usr/local/share/poudriere SCRIPTNAME=bulk.sh OLDPWD=/usr/local/poudriere/data/.m/132i386-default/ref/.p/pool POUDRIERE_PKGNAME=poudriere-git-3.4.1-1-g1e9f97d6 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-- --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- XDG_DATA_HOME=/wrkdirs/usr/ports/science/dssp/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/dssp/work XDG_CACHE_HOME=/wrkdirs/usr/ports/science/dssp/work/.cache HOME=/wrkdirs/usr/ports/science/dssp/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/science/dssp/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/science/dssp/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh --End CONFIGURE_ENV-- --MAKE_ENV-- XDG_DATA_HOME=/wrkdirs/usr/ports/science/dssp/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/dssp/work XDG_CACHE_HOME=/wrkdirs/usr/ports/science/dssp/work/.cache HOME=/wrkdirs/usr/ports/science/dssp/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/science/dssp/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/science/dssp/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 -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" -fstack-protector-strong " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " 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="i nstall -m 444" --End MAKE_ENV-- --PLIST_SUB-- CMAKE_BUILD_TYPE="release" OSREL=13.2 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/dssp" EXAMPLESDIR="share/examples/dssp" DATADIR="share/dssp" WWWDIR="www/dssp" ETCDIR="etc/dssp" --End PLIST_SUB-- --SUB_LIST-- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/dssp DOCSDIR=/usr/local/share/doc/dssp EXAMPLESDIR=/usr/local/share/examples/dssp WWWDIR=/usr/local/www/dssp ETCDIR=/usr/local/etc/dssp --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 MACHINE=i386 MACHINE_ARCH=i386 ARCH=${MACHINE_ARCH} #### #### # 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 BSD2CLAUSE accepted by the user =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> dssp-4.4.2 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.20.9_1.pkg [132i386-default-job-06] Installing pkg-1.20.9_1... [132i386-default-job-06] Extracting pkg-1.20.9_1: .......... done ===> dssp-4.4.2 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of dssp-4.4.2 =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License BSD2CLAUSE accepted by the user ===> Fetching all distfiles required by dssp-4.4.2 for building =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License BSD2CLAUSE accepted by the user ===> Fetching all distfiles required by dssp-4.4.2 for building => SHA256 Checksum OK for PDB-REDO-dssp-v4.4.2_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 BSD2CLAUSE accepted by the user ===> Fetching all distfiles required by dssp-4.4.2 for building ===> Extracting for dssp-4.4.2 => SHA256 Checksum OK for PDB-REDO-dssp-v4.4.2_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 dssp-4.4.2 =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> dssp-4.4.2 depends on package: libmcfp>0 - not found ===> Installing existing package /packages/All/libmcfp-1.3.1.pkg [132i386-default-job-06] Installing libmcfp-1.3.1... [132i386-default-job-06] Extracting libmcfp-1.3.1: .......... done ===> dssp-4.4.2 depends on package: libmcfp>0 - found ===> Returning to build of dssp-4.4.2 ===> dssp-4.4.2 depends on executable: mrc - not found ===> Installing existing package /packages/All/mrc-1.3.11.pkg [132i386-default-job-06] Installing mrc-1.3.11... [132i386-default-job-06] Extracting mrc-1.3.11: ...... done ===> dssp-4.4.2 depends on executable: mrc - found ===> Returning to build of dssp-4.4.2 ===> dssp-4.4.2 depends on file: /usr/local/bin/cmake - not found ===> Installing existing package /packages/All/cmake-core-3.28.3.pkg [132i386-default-job-06] Installing cmake-core-3.28.3... [132i386-default-job-06] `-- Installing expat-2.6.1... [132i386-default-job-06] `-- Extracting expat-2.6.1: .......... done [132i386-default-job-06] `-- Installing jsoncpp-1.9.5... [132i386-default-job-06] `-- Extracting jsoncpp-1.9.5: .......... done [132i386-default-job-06] `-- Installing libuv-1.48.0... [132i386-default-job-06] `-- Extracting libuv-1.48.0: .......... done [132i386-default-job-06] `-- Installing rhash-1.4.4_1... [132i386-default-job-06] | `-- Installing gettext-runtime-0.22.3_1... [132i386-default-job-06] | | `-- Installing indexinfo-0.3.1... [132i386-default-job-06] | | `-- Extracting indexinfo-0.3.1: .... done [132i386-default-job-06] | `-- Extracting gettext-runtime-0.22.3_1: .......... done [132i386-default-job-06] `-- Extracting rhash-1.4.4_1: .......... done [132i386-default-job-06] Extracting cmake-core-3.28.3: .......... done ===> dssp-4.4.2 depends on file: /usr/local/bin/cmake - found ===> Returning to build of dssp-4.4.2 =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> dssp-4.4.2 depends on shared library: libboost_iostreams.so - not found ===> Installing existing package /packages/All/boost-libs-1.84.0.pkg [132i386-default-job-06] Installing boost-libs-1.84.0... [132i386-default-job-06] `-- Installing icu-74.2,1... [132i386-default-job-06] `-- Extracting icu-74.2,1: .......... done [132i386-default-job-06] Extracting boost-libs-1.84.0: .......... done ===== Message from boost-libs-1.84.0: -- You have built the Boost library with thread support. Don't forget to add -pthread to your linker options when linking your code. ===> dssp-4.4.2 depends on shared library: libboost_iostreams.so - found (/usr/local/lib/libboost_iostreams.so) ===> Returning to build of dssp-4.4.2 ===> dssp-4.4.2 depends on shared library: libcifpp.so - not found ===> Installing existing package /packages/All/libcifpp-5.1.0.1_1.pkg [132i386-default-job-06] Installing libcifpp-5.1.0.1_1... [132i386-default-job-06] `-- Installing bash-5.2.26_1... [132i386-default-job-06] | `-- Installing readline-8.2.10... [132i386-default-job-06] | `-- Extracting readline-8.2.10: .......... done [132i386-default-job-06] `-- Extracting bash-5.2.26_1: .......... done [132i386-default-job-06] Extracting libcifpp-5.1.0.1_1: .......... done ===> dssp-4.4.2 depends on shared library: libcifpp.so - found (/usr/local/lib/libcifpp.so) ===> Returning to build of dssp-4.4.2 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Configuring for dssp-4.4.2 ===> Performing out-of-source build /bin/mkdir -p /wrkdirs/usr/ports/science/dssp/work/.build -- 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 CMake Warning (dev) at CMakeLists.txt:37 (include): Policy CMP0145 is not set: The Dart and FindDart modules are removed. Run "cmake --help-policy CMP0145" for policy details. Use the cmake_policy command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at /usr/local/share/cmake/Modules/Dart.cmake:47 (message): Policy CMP0145 is not set: The Dart and FindDart modules are removed. Run "cmake --help-policy CMP0145" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Call Stack (most recent call first): CMakeLists.txt:37 (include) This warning is for project developers. Use -Wno-dev to suppress it. -- Looking for C++ include filesystem -- Looking for C++ include filesystem - found -- Performing Test CXX_FILESYSTEM_NO_LINK_NEEDED -- Performing Test CXX_FILESYSTEM_NO_LINK_NEEDED - Success -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Failed -- Looking for pthread_create in pthreads -- Looking for pthread_create in pthreads - not found -- Looking for pthread_create in pthread -- Looking for pthread_create in pthread - found -- Found Threads: TRUE CMake Error at /usr/local/lib/cmake/libmcfp/libmcfpConfig.cmake:5 (check_required_components): Unknown CMake command "check_required_components". Call Stack (most recent call first): CMakeLists.txt:107 (find_package) -- Configuring incomplete, errors occurred! *** Error code 1 Stop. make: stopped in /usr/ports/science/dssp