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Maintainer: [email protected] Log URL: https://pkg-status.freebsd.org/beefy24/data/main-amd64-default/p138cf1688788_s64b053f879a/logs/dssp-4.5.8.log Build URL: https://pkg-status.freebsd.org/beefy24/build.html?mastername=main-amd64-default&build=p138cf1688788_s64b053f879a Log: =>> Building science/dssp build started at Thu Jun 11 01:44:56 UTC 2026 port directory: /usr/ports/science/dssp package name: dssp-4.5.8 building for: FreeBSD main-amd64-default-job-13 16.0-CURRENT FreeBSD 16.0-CURRENT 1600018 amd64 maintained by: [email protected] Makefile datestamp: -rw-r--r-- 1 root wheel 756 Mar 24 01:01 /usr/ports/science/dssp/Makefile Ports top last git commit: 138cf1688788ba93cbd00a35be679a88fe1fb9e4 Ports top unclean checkout: no Port dir last git commit: d63020f72bc68010d0df3a0dcc4449d08a008659 Port dir unclean checkout: no Poudriere version: poudriere-git-3.4.8 Host OSVERSION: 1600018 Jail OSVERSION: 1600018 Job Id: 13 ---Begin Environment--- SHELL=/bin/sh OSVERSION=1600018 UNAME_v=FreeBSD 16.0-CURRENT 1600018 UNAME_r=16.0-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=3.4.8 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/13/.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-3.4.8 SCRIPTPATH=/usr/local/share/poudriere/bulk.sh POUDRIEREPATH=/usr/local/bin/poudriere ---End Environment--- ---Begin Poudriere Port Flags/Env--- PORT_FLAGS= PKGENV= FLAVOR= MAKE_ARGS= ---End Poudriere Port Flags/Env--- ---Begin OPTIONS List--- ---End OPTIONS List--- --MAINTAINER-- [email protected] --End MAINTAINER-- --CONFIGURE_ARGS-- --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=" " 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="install -m 444" --End MAKE_ENV-- --PLIST_SUB-- CMAKE_BUILD_TYPE="release" OSREL=16.0 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 #### #### # XXX: We really need this but cannot use it while 'make checksum' does not # try the next mirror on checksum failure. It currently retries the same # failed mirror and then fails rather then trying another. It *does* # try the next if the size is mismatched though. #MASTER_SITE_FREEBSD=yes # Build ALLOW_MAKE_JOBS_PACKAGES with 3 jobs MAKE_JOBS_NUMBER=3 #### Misc Poudriere #### .include "/etc/make.conf.ports_env" GID=0 UID=0 ---End make.conf--- --Resource limits-- cpu time (seconds, -t) unlimited file size (512-blocks, -f) unlimited data seg size (kbytes, -d) 33554432 stack size (kbytes, -s) 524288 core file size (512-blocks, -c) unlimited max memory size (kbytes, -m) unlimited locked memory (kbytes, -l) unlimited max user processes (-u) 89999 open files (-n) 8192 virtual mem size (kbytes, -v) unlimited swap limit (kbytes, -w) unlimited socket buffer size (bytes, -b) unlimited pseudo-terminals (-p) unlimited kqueues (-k) unlimited umtx shared locks (-o) unlimited pipebuf (kbytes, -y) unlimited virtual machines (-V) unlimited --End resource limits-- =======================<phase: check-sanity >============================ ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License BSD2CLAUSE accepted by the user =========================================================================== =======================<phase: pkg-depends >============================ ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> dssp-4.5.8 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-2.7.5.pkg [main-amd64-default-job-13] Installing pkg-2.7.5... [main-amd64-default-job-13] Extracting pkg-2.7.5: .......... done ===> dssp-4.5.8 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of dssp-4.5.8 =========================================================================== =======================<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 BSD2CLAUSE accepted by the user ===> Fetching all distfiles required by dssp-4.5.8 for building =========================================================================== =======================<phase: checksum >============================ ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License BSD2CLAUSE accepted by the user ===> Fetching all distfiles required by dssp-4.5.8 for building => SHA256 Checksum OK for PDB-REDO-dssp-v4.5.8_GH0.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 BSD2CLAUSE accepted by the user ===> Fetching all distfiles required by dssp-4.5.8 for building ===> Extracting for dssp-4.5.8 => SHA256 Checksum OK for PDB-REDO-dssp-v4.5.8_GH0.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 dssp-4.5.8 ===> Applying FreeBSD patches for dssp-4.5.8 from /usr/ports/science/dssp/files =========================================================================== =======================<phase: build-depends >============================ ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> dssp-4.5.8 depends on package: libmcfp>0 - not found ===> Installing existing package /packages/All/libmcfp-2.0.2.pkg [main-amd64-default-job-13] Installing libmcfp-2.0.2... [main-amd64-default-job-13] Extracting libmcfp-2.0.2: .......... done ===> dssp-4.5.8 depends on package: libmcfp>0 - found ===> Returning to build of dssp-4.5.8 ===> dssp-4.5.8 depends on executable: mrc - not found ===> Installing existing package /packages/All/mrc-1.3.17.pkg [main-amd64-default-job-13] Installing mrc-1.3.17... [main-amd64-default-job-13] Extracting mrc-1.3.17: ...... done ===> dssp-4.5.8 depends on executable: mrc - found ===> Returning to build of dssp-4.5.8 ===> dssp-4.5.8 depends on file: /usr/local/bin/cmake - not found ===> Installing existing package /packages/All/cmake-core-3.31.12_1.pkg [main-amd64-default-job-13] Installing cmake-core-3.31.12_1... [main-amd64-default-job-13] `-- Installing expat-2.8.1... [main-amd64-default-job-13] `-- Extracting expat-2.8.1: .......... done [main-amd64-default-job-13] `-- Installing jsoncpp-1.9.6_1... [main-amd64-default-job-13] `-- Extracting jsoncpp-1.9.6_1: .......... done [main-amd64-default-job-13] `-- Installing libidn2-2.3.8... [main-amd64-default-job-13] | `-- Installing indexinfo-0.3.1_1... [main-amd64-default-job-13] | `-- Extracting indexinfo-0.3.1_1: .... done [main-amd64-default-job-13] | `-- Installing libunistring-1.4.2... [main-amd64-default-job-13] | `-- Extracting libunistring-1.4.2: .......... done [main-amd64-default-job-13] `-- Extracting libidn2-2.3.8: .......... done [main-amd64-default-job-13] `-- Installing libuv-1.52.1... [main-amd64-default-job-13] `-- Extracting libuv-1.52.1: .......... done [main-amd64-default-job-13] `-- Installing rhash-1.4.6... [main-amd64-default-job-13] | `-- Installing gettext-runtime-1.0_1... [main-amd64-default-job-13] | `-- Extracting gettext-runtime-1.0_1: .......... done [main-amd64-default-job-13] `-- Extracting rhash-1.4.6: .......... done [main-amd64-default-job-13] Extracting cmake-core-3.31.12_1: .......... done ===> dssp-4.5.8 depends on file: /usr/local/bin/cmake - found ===> Returning to build of dssp-4.5.8 =========================================================================== =======================<phase: lib-depends >============================ ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> dssp-4.5.8 depends on shared library: libboost_iostreams.so - not found ===> Installing existing package /packages/All/boost-libs-1.89.0_2.pkg [main-amd64-default-job-13] Installing boost-libs-1.89.0_2... [main-amd64-default-job-13] `-- Installing icu-76.1,1... [main-amd64-default-job-13] `-- Extracting icu-76.1,1: .......... done [main-amd64-default-job-13] `-- Installing zstd-1.5.7_2... [main-amd64-default-job-13] | `-- Installing liblz4-1.10.0_2,1... [main-amd64-default-job-13] | `-- Extracting liblz4-1.10.0_2,1: .......... done [main-amd64-default-job-13] `-- Extracting zstd-1.5.7_2: .......... done [main-amd64-default-job-13] Extracting boost-libs-1.89.0_2: .......... done ===== Message from boost-libs-1.89.0_2: -- You have built the Boost library with thread support. Don't forget to add -pthread to your linker options when linking your code. ===> dssp-4.5.8 depends on shared library: libboost_iostreams.so - found (/usr/local/lib/libboost_iostreams.so) ===> Returning to build of dssp-4.5.8 ===> dssp-4.5.8 depends on shared library: libcifpp.so - not found ===> Installing existing package /packages/All/libcifpp-10.0.4.pkg [main-amd64-default-job-13] Installing libcifpp-10.0.4... [main-amd64-default-job-13] `-- Installing bash-5.3.15... [main-amd64-default-job-13] `-- Extracting bash-5.3.15: .......... done [main-amd64-default-job-13] `-- Installing pcre2-10.47_1... [main-amd64-default-job-13] `-- Extracting pcre2-10.47_1: .......... done [main-amd64-default-job-13] `-- Installing sqlite3-3.53.1,1... [main-amd64-default-job-13] | `-- Installing libedit-3.1.20260512,1... [main-amd64-default-job-13] | `-- Extracting libedit-3.1.20260512,1: .......... done [main-amd64-default-job-13] `-- Extracting sqlite3-3.53.1,1: .......... done [main-amd64-default-job-13] Extracting libcifpp-10.0.4: .......... done ===> dssp-4.5.8 depends on shared library: libcifpp.so - found (/usr/local/lib/libcifpp.so) ===> Returning to build of dssp-4.5.8 =========================================================================== =======================<phase: configure >============================ ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Configuring for dssp-4.5.8 ===> Performing out-of-source build /bin/mkdir -p /wrkdirs/usr/ports/science/dssp/work/.build -- The CXX compiler identification is Clang 21.1.8 -- 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 -- Git hash not found -- 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/mcfp/mcfp-config.cmake:32 (INCLUDE): INCLUDE could not find requested file: /usr/local/lib/cmake/mcfp/mcfp-module-targets.cmake Call Stack (most recent call first): cmake/CPM.cmake:253 (find_package) cmake/CPM.cmake:322 (cpm_find_package) CMakeLists.txt:114 (CPMFindPackage) -- CPM: Using local package [email protected] -- Git hash not found -- Configuring incomplete, errors occurred! *** Error code 1 Stop. make: stopped making "configure" in /usr/ports/science/dssp
