From nobody Sat Feb 11 21:20:18 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 4PDk5v0sS4z3qQpW for ; Sat, 11 Feb 2023 21:20:19 +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 4PDk5t4z55z3Pcj for ; Sat, 11 Feb 2023 21:20:18 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=freebsd.org; s=dkim; t=1676150418; h=from:from:reply-to:subject:subject:date:date:message-id:message-id: to:to:cc; bh=h7mlwcGAFUylDWOI5nP/rE+vdgFJZilTALskNz/yOc8=; b=epJ0XijQJobM+lkgk38nfaM+uT9N9UVc65pQeet0GOKrhVAJ/UcqY2lpMrPMhMXKSTbwhi KdF8gLl0NSick08JKfoTVRgxNguKRZE+DVmhmyBJsQpdz7TM1ntmWNjXgwAU4T0xJVL3Pz 6eToQS+7nL9cBIk0dzIwnhXRt0xkq3NQkfM59wMdr9mxT1Xaw8vScB9IK+ewf2tV1AFyfG XQZZRLop6OrdvhzqldWy1RK68zrCtZ69+pu+kLZO2iJJ67XeMgckECek9klaMEdmQB/UtA mZGb2xp00d97eysGrn/OzxxxG9EDuCXk9oBD3t9tVe8E9+6qGEOVSJnSyDtlRA== ARC-Authentication-Results: i=1; mx1.freebsd.org; none ARC-Seal: i=1; s=dkim; d=freebsd.org; t=1676150418; a=rsa-sha256; cv=none; b=YcAdHgXTEfJ3qVzAhqx7GTUlCGmx1UYqc4rSc5Pl5DLwwQtJ/qrixnENrrPum2i/SVAZmh 9ORplzb/1bN79nBAvDPYf2keiv1aNHYg35tW234/nhCUDf0v0HOcU0WOsX9bI/utKG5Jgy UBC3CfiWO2RQBs9l9VjOmdK7lAICoyF5ZmoHJy9gN3f5fdp4K1rNuCy0xR8z2GLq67Tyym emWgcP3P9Si24JAhnDujDq6XJsJkK+UmOMVAc5eD2437N6LBXRPIHAxChvQL4KhA68ZaKA tBRgKDQUBGNbNIGPO4BpQTbCQYdR8haUFCTi8GxB8pVZtfDE4ooWu3AvsxCWMg== Received: from ampere3.nyi.freebsd.org (ampere3.nyi.freebsd.org [IPv6:2610:1c1:1:6080::16:26]) (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 did not present a certificate) by mxrelay.nyi.freebsd.org (Postfix) with ESMTPS id 4PDk5t42Zzz1CmX for ; Sat, 11 Feb 2023 21:20:18 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: from ampere3.nyi.freebsd.org (localhost [127.0.0.1]) by ampere3.nyi.freebsd.org (8.16.1/8.16.1) with ESMTP id 31BLKICS089493 for ; Sat, 11 Feb 2023 21:20:18 GMT (envelope-from pkg-fallout@FreeBSD.org) Received: (from root@localhost) by ampere3.nyi.freebsd.org (8.16.1/8.16.1/Submit) id 31BLKIxe089490; Sat, 11 Feb 2023 21:20:18 GMT (envelope-from pkg-fallout@FreeBSD.org) Date: Sat, 11 Feb 2023 21:20:18 GMT From: pkg-fallout@FreeBSD.org Message-Id: <202302112120.31BLKIxe089490@ampere3.nyi.freebsd.org> To: pkg-fallout@FreeBSD.org Subject: [package - 131releng-armv7-default][biology/hyphy] Failed for hyphy-2.5.47 in configure X-ThisMailContainsUnwantedMimeParts: N 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: jrm@FreeBSD.org Log URL: https://pkg-status.freebsd.org/ampere3/data/131releng-armv7-default/96a5483c708f/logs/hyphy-2.5.47.log Build URL: https://pkg-status.freebsd.org/ampere3/build.html?mastername=131releng-armv7-default&build=96a5483c708f Log: =>> Building biology/hyphy build started at Sat Feb 11 21:20:08 UTC 2023 port directory: /usr/ports/biology/hyphy package name: hyphy-2.5.47 building for: FreeBSD 131releng-armv7-default-job-11 13.1-RELEASE-p5 FreeBSD 13.1-RELEASE-p5 1301000 arm maintained by: jrm@FreeBSD.org Makefile ident: Poudriere version: 3.2.8-23-ga7f8d188 Host OSVERSION: 1400073 Jail OSVERSION: 1301000 Job Id: 11 ---Begin Environment--- SHELL=/bin/csh OSVERSION=1301000 UNAME_v=FreeBSD 13.1-RELEASE-p5 1301000 UNAME_r=13.1-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 LOCALBASE=/usr/local USER=root LIBEXECPREFIX=/usr/local/libexec/poudriere POUDRIERE_VERSION=3.2.8-23-ga7f8d188 MASTERMNT=/usr/local/poudriere/data/.m/131releng-armv7-default/ref POUDRIERE_BUILD_TYPE=bulk PACKAGE_BUILDING=yes SAVED_TERM= PWD=/usr/local/poudriere/data/.m/131releng-armv7-default/ref/.p/pool P_PORTS_FEATURES=FLAVORS SELECTED_OPTIONS MASTERNAME=131releng-armv7-default SCRIPTPREFIX=/usr/local/share/poudriere OLDPWD=/usr/local/poudriere/data/.m/131releng-armv7-default/ref/.p SCRIPTPATH=/usr/local/share/poudriere/bulk.sh POUDRIEREPATH=/usr/local/bin/poudriere ---End Environment--- ---Begin Poudriere Port Flags/Env--- PORT_FLAGS= PKGENV= FLAVOR= DEPENDS_ARGS= MAKE_ARGS= ---End Poudriere Port Flags/Env--- ---Begin OPTIONS List--- ===> The following configuration options are available for hyphy-2.5.47: AVX=off: Advanced vector extensions support ===> Use 'make config' to modify these settings ---End OPTIONS List--- --MAINTAINER-- jrm@FreeBSD.org --End MAINTAINER-- --CONFIGURE_ARGS-- --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- XDG_DATA_HOME=/wrkdirs/usr/ports/biology/hyphy/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/hyphy/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/hyphy/work/.cache HOME=/wrkdirs/usr/ports/biology/hyphy/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/hyphy/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/hyphy/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" --End CONFIGURE_ENV-- --MAKE_ENV-- NINJA_STATUS="[%p %s/%t] " XDG_DATA_HOME=/wrkdirs/usr/ports/biology/hyphy/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/hyphy/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/hyphy/work/.cache HOME=/wrkdirs/usr/ports/biology/hyphy/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/hyphy/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/hyphy/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/hyphy/work/stage 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 /usr/local/include " MANPREFIX="/usr/local" 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=13.1 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/hyphy" EXAMPLESDIR="share/examples/hyphy" DATADIR="share/hyphy" WWWDIR="www/hyphy" ETCDIR="etc/hyphy" --End PLIST_SUB-- --SUB_LIST-- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/hyphy DOCSDIR=/usr/local/share/doc/hyphy EXAMPLESDIR=/usr/local/share/examples/hyphy WWWDIR=/usr/local/www/hyphy ETCDIR=/usr/local/etc/hyphy --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 #### /usr/local/etc/poudriere.d/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 2 jobs MAKE_JOBS_NUMBER=2 #### /usr/ports/Mk/Scripts/ports_env.sh #### _CCVERSION_921dbbb2=FreeBSD clang version 13.0.0 (git@github.com:llvm/llvm-project.git llvmorg-13.0.0-0-gd7b669b3a303) Target: armv7-unknown-freebsd13.1-gnueabihf Thread model: posix InstalledDir: /usr/bin _ALTCCVERSION_921dbbb2=none _CXXINTERNAL_acaad9ca=FreeBSD clang version 13.0.0 (git@github.com:llvm/llvm-project.git llvmorg-13.0.0-0-gd7b669b3a303) Target: armv7-unknown-freebsd13.1-gnueabihf Thread model: posix InstalledDir: /usr/bin "/usr/bin/ld" "--eh-frame-hdr" "-dynamic-linker" "/libexec/ld-elf.so.1" "--hash-style=both" "--enable-new-dtags" "-o" "a.out" "/usr/lib/crt1.o" "/usr/lib/crti.o" "/usr/lib/crtbegin.o" "-L/usr/lib" "/dev/null" "-lc++" "-lm" "-lgcc" "--as-needed" "-lgcc_s" "--no-as-needed" "-lc" "-lgcc" "--as-needed" "-lgcc_s" "--no-as-needed" "/usr/lib/crtend.o" "/usr/lib/crtn.o" CC_OUTPUT_921dbbb2_58173849=yes CC_OUTPUT_921dbbb2_9bdba57c=yes CC_OUTPUT_921dbbb2_6a4fe7f5=yes CC_OUTPUT_921dbbb2_6bcac02b=yes CC_OUTPUT_921dbbb2_67d20829=yes CC_OUTPUT_921dbbb2_bfa62e83=yes CC_OUTPUT_921dbbb2_f0b4d593=yes CC_OUTPUT_921dbbb2_308abb44=yes CC_OUTPUT_921dbbb2_f00456e5=yes CC_OUTPUT_921dbbb2_65ad290d=yes CC_OUTPUT_921dbbb2_f2776b26=yes CC_OUTPUT_921dbbb2_53255a77=yes CC_OUTPUT_921dbbb2_911cfe02=yes CC_OUTPUT_921dbbb2_b2657cc3=yes CC_OUTPUT_921dbbb2_380987f7=yes CC_OUTPUT_921dbbb2_160933ec=yes CC_OUTPUT_921dbbb2_fb62803b=yes CC_OUTPUT_921dbbb2_af59ad06=yes CC_OUTPUT_921dbbb2_a15f3fcf=yes _OBJC_CCVERSION_921dbbb2=FreeBSD clang version 13.0.0 (git@github.com:llvm/llvm-project.git llvmorg-13.0.0-0-gd7b669b3a303) Target: armv7-unknown-freebsd13.1-gnueabihf Thread model: posix InstalledDir: /usr/bin _OBJC_ALTCCVERSION_921dbbb2=none ARCH=armv7 OPSYS=FreeBSD _OSRELEASE=13.1-RELEASE-p5 OSREL=13.1 OSVERSION=1301000 PYTHONBASE=/usr/local CONFIGURE_MAX_CMD_LEN=524288 HAVE_PORTS_ENV=1 #### Misc Poudriere #### 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) 1048576 stack size (kbytes, -s) 1048576 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) 1024 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-- =================================================== ===> License MIT accepted by the user =========================================================================== =================================================== ===> hyphy-2.5.47 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.19.1.pkg [131releng-armv7-default-job-11] Installing pkg-1.19.1... [131releng-armv7-default-job-11] Extracting pkg-1.19.1: .......... done ===> hyphy-2.5.47 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of hyphy-2.5.47 =========================================================================== =================================================== =========================================================================== =================================================== ===> License MIT accepted by the user ===> Fetching all distfiles required by hyphy-2.5.47 for building =========================================================================== =================================================== ===> License MIT accepted by the user ===> Fetching all distfiles required by hyphy-2.5.47 for building => SHA256 Checksum OK for veg-hyphy-2.5.47_GH0.tar.gz. =========================================================================== =================================================== =========================================================================== =================================================== ===> License MIT accepted by the user ===> Fetching all distfiles required by hyphy-2.5.47 for building ===> Extracting for hyphy-2.5.47 => SHA256 Checksum OK for veg-hyphy-2.5.47_GH0.tar.gz. =========================================================================== =================================================== =========================================================================== =================================================== ===> Patching for hyphy-2.5.47 =========================================================================== =================================================== ===> hyphy-2.5.47 depends on file: /usr/local/bin/cmake - not found ===> Installing existing package /packages/All/cmake-core-3.25.1.pkg [131releng-armv7-default-job-11] Installing cmake-core-3.25.1... [131releng-armv7-default-job-11] `-- Installing expat-2.5.0... [131releng-armv7-default-job-11] `-- Extracting expat-2.5.0: .......... done [131releng-armv7-default-job-11] `-- Installing jsoncpp-1.9.5... [131releng-armv7-default-job-11] `-- Extracting jsoncpp-1.9.5: .......... done [131releng-armv7-default-job-11] `-- Installing libuv-1.44.2... [131releng-armv7-default-job-11] `-- Extracting libuv-1.44.2: .......... done [131releng-armv7-default-job-11] `-- Installing rhash-1.4.3... [131releng-armv7-default-job-11] | `-- Installing gettext-runtime-0.21.1... [131releng-armv7-default-job-11] | | `-- Installing indexinfo-0.3.1... [131releng-armv7-default-job-11] | | `-- Extracting indexinfo-0.3.1: .... done [131releng-armv7-default-job-11] | `-- Extracting gettext-runtime-0.21.1: .......... done [131releng-armv7-default-job-11] `-- Extracting rhash-1.4.3: .......... done [131releng-armv7-default-job-11] Extracting cmake-core-3.25.1: .......... done ===> hyphy-2.5.47 depends on file: /usr/local/bin/cmake - found ===> Returning to build of hyphy-2.5.47 ===> hyphy-2.5.47 depends on executable: ninja - not found ===> Installing existing package /packages/All/ninja-1.11.1,2.pkg [131releng-armv7-default-job-11] Installing ninja-1.11.1,2... [131releng-armv7-default-job-11] `-- Installing python39-3.9.16... [131releng-armv7-default-job-11] | `-- Installing libffi-3.4.4... [131releng-armv7-default-job-11] | `-- Extracting libffi-3.4.4: .......... done [131releng-armv7-default-job-11] | `-- Installing mpdecimal-2.5.1... [131releng-armv7-default-job-11] | `-- Extracting mpdecimal-2.5.1: .......... done [131releng-armv7-default-job-11] | `-- Installing readline-8.2.0... [131releng-armv7-default-job-11] | `-- Extracting readline-8.2.0: .......... done [131releng-armv7-default-job-11] `-- Extracting python39-3.9.16: .......... done [131releng-armv7-default-job-11] Extracting ninja-1.11.1,2: ........ done ===== Message from python39-3.9.16: -- Note that some standard Python modules are provided as separate ports as they require additional dependencies. They are available as: py39-gdbm databases/py-gdbm@py39 py39-sqlite3 databases/py-sqlite3@py39 py39-tkinter x11-toolkits/py-tkinter@py39 ===> hyphy-2.5.47 depends on executable: ninja - found ===> Returning to build of hyphy-2.5.47 =========================================================================== =================================================== ===> hyphy-2.5.47 depends on shared library: libcurl.so - not found ===> Installing existing package /packages/All/curl-7.87.0_1.pkg [131releng-armv7-default-job-11] Installing curl-7.87.0_1... [131releng-armv7-default-job-11] `-- Installing ca_root_nss-3.87... [131releng-armv7-default-job-11] `-- Extracting ca_root_nss-3.87: .......... done [131releng-armv7-default-job-11] `-- Installing libnghttp2-1.51.0_1... [131releng-armv7-default-job-11] `-- Extracting libnghttp2-1.51.0_1: .......... done [131releng-armv7-default-job-11] `-- Installing libpsl-0.21.2_1... [131releng-armv7-default-job-11] | `-- Installing libidn2-2.3.4... [131releng-armv7-default-job-11] | | `-- Installing libunistring-1.1... [131releng-armv7-default-job-11] | | `-- Extracting libunistring-1.1: .......... done [131releng-armv7-default-job-11] | `-- Extracting libidn2-2.3.4: .......... done [131releng-armv7-default-job-11] `-- Extracting libpsl-0.21.2_1: .......... done [131releng-armv7-default-job-11] `-- Installing libssh2-1.10.0_1,3... [131releng-armv7-default-job-11] `-- Extracting libssh2-1.10.0_1,3: .......... done [131releng-armv7-default-job-11] Extracting curl-7.87.0_1: .......... done ===== Message from ca_root_nss-3.87: -- FreeBSD does not, and can not warrant that the certification authorities whose certificates are included in this package have in any way been audited for trustworthiness or RFC 3647 compliance. Assessment and verification of trust is the complete responsibility of the system administrator. This package installs symlinks to support root certificates discovery by default for software that uses OpenSSL. This enables SSL Certificate Verification by client software without manual intervention. If you prefer to do this manually, replace the following symlinks with either an empty file or your site-local certificate bundle. * /etc/ssl/cert.pem * /usr/local/etc/ssl/cert.pem * /usr/local/openssl/cert.pem ===> hyphy-2.5.47 depends on shared library: libcurl.so - found (/usr/local/lib/libcurl.so) ===> Returning to build of hyphy-2.5.47 =========================================================================== =================================================== ===> Configuring for hyphy-2.5.47 ===> Performing in-source build /bin/mkdir -p /wrkdirs/usr/ports/biology/hyphy/work/hyphy-2.5.47 -- The C compiler identification is Clang 13.0.0 -- The CXX compiler identification is Clang 13.0.0 -- 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 -- Performing Test HAVE_SSE4_EXTENSIONS -- Performing Test HAVE_SSE4_EXTENSIONS - Failed -- Performing Test HAVE_NEON_EXTENSIONS -- Performing Test HAVE_NEON_EXTENSIONS - Failed Set default compiler flags to -fsigned-char -O3 CMake Error at /wrkdirs/usr/ports/biology/hyphy/work/hyphy-2.5.47/CMakeFiles/CMakeTmp/CMakeLists.txt:15 (add_executable): No SOURCES given to target: cmTC_63864 CMake Error at /usr/local/share/cmake/Modules/FindOpenMP.cmake:261 (try_compile): Failed to generate test project build system. Call Stack (most recent call first): /usr/local/share/cmake/Modules/FindOpenMP.cmake:537 (_OPENMP_GET_FLAGS) CMakeLists.txt:290 (find_package) -- Configuring incomplete, errors occurred! See also "/wrkdirs/usr/ports/biology/hyphy/work/hyphy-2.5.47/CMakeFiles/CMakeOutput.log". See also "/wrkdirs/usr/ports/biology/hyphy/work/hyphy-2.5.47/CMakeFiles/CMakeError.log". *** Error code 1 Stop. make: stopped in /usr/ports/biology/hyphy