From nobody Tue Aug 22 16:34:13 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 4RVZg93fr7z4r6sB for ; Tue, 22 Aug 2023 16:34:13 +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 4RVZg91kFPz4Z4T for ; Tue, 22 Aug 2023 16:34:13 +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=1692722053; h=from:from:reply-to:subject:subject:date:date:message-id:message-id: to:to:cc:cc; bh=Mw5laqJOdGT7Zwjn9ZfoDGBDElUev9eO9lYJMd2HfNQ=; b=VX28hXpkaiAfeRKDYE6Bzo2UDYknN7jKtKUlZxwHsNDc8xe04pi0oaMB7p8Xg4vBXyYMPv wFj5VOY3LjPglek/X9zksoHZlTgUUFHKGsA9Crviz+Dr1jubw5i4vGXYOAL3o7R2xQkNwJ NHJC7pbJyQ6JLiId9E6BplFvOydylhCcrq5utxJeP/En5Vdg/KkJXsPOQIK/8oC4DtsGGU maoha5gbHaRRGnipcl6f60ow9izC1IlYZZtxcEL3iN2s6AX+WzkmrCkOxyzH4lNc0lqqLs CdUtdtgk123vuf7KI6PkhDvmhyZVbXBrgDv6G1tp5ht74bpQJ/C9RFR7iP/r9g== ARC-Seal: i=1; s=dkim; d=freebsd.org; t=1692722053; a=rsa-sha256; cv=none; b=CWJhAQRn3j266TE0i5hRhurr2fMwyvOzFh8bRXHzeC77zFrjtRsJoWi4K9x7hulskCM+em /FQ5M6lS5Z8KAGh4kRPmcbDruuS1ey200tOtcSdfwy6iKMGccYwBU0CCtjWIk1mw15KjAG famY4DVSi0ueoYLULo/1rplQagQ0M8FhiPPjOQjZv3kNqpI1g7ANjiTVM17Lodqr6Ix68i kRa1soXYrSbKz5TYskW8S6u6yB6sN56OC/EQElk3RhyDFy4ICG0XZdKvNGZ5wImCCMeNcx UEF/8INDwX8yK2Bs21xitudLl2FP9IHojvpnmI+vgMTPfquPLZLLSngLP+9jpA== ARC-Authentication-Results: i=1; mx1.freebsd.org; none Received: from beefy4.nyi.freebsd.org (beefy4.nyi.freebsd.org [IPv6:2610:1c1:1:6080::16:13]) by mxrelay.nyi.freebsd.org (Postfix) with ESMTP id 4RVZg90nldz19BN for ; Tue, 22 Aug 2023 16:34:13 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: from root (uid 0) (envelope-from pkg-fallout@FreeBSD.org) id 8b97 by beefy4.nyi.freebsd.org (DragonFly Mail Agent v0.13+ on beefy4.nyi.freebsd.org); Tue, 22 Aug 2023 16:34:13 +0000 To: ssb22@cam.ac.uk Subject: [package - 124i386-quarterly][biology/pooler] Failed for pooler-1.86 in build Cc: pkg-fallout@FreeBSD.org Date: Tue, 22 Aug 2023 16:34:13 +0000 Message-Id: <64e4e385.8b97.22bd08c6@beefy4.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: ssb22@cam.ac.uk Log URL: https://pkg-status.freebsd.org/beefy4/data/124i386-quarterly/f3d8c4bf5c40/logs/pooler-1.86.log Build URL: https://pkg-status.freebsd.org/beefy4/build.html?mastername=124i386-quarterly&build=f3d8c4bf5c40 Log: =>> Building biology/pooler build started at Tue Aug 22 16:34:07 UTC 2023 port directory: /usr/ports/biology/pooler package name: pooler-1.86 building for: FreeBSD 124i386-quarterly-job-06 12.4-RELEASE-p4 FreeBSD 12.4-RELEASE-p4 i386 maintained by: ssb22@cam.ac.uk Makefile ident: Poudriere version: 3.2.8-23-ga7f8d188 Host OSVERSION: 1400089 Jail OSVERSION: 1204000 Job Id: 06 ---Begin Environment--- SHELL=/bin/csh UNAME_p=i386 UNAME_m=i386 OSVERSION=1204000 UNAME_v=FreeBSD 12.4-RELEASE-p4 UNAME_r=12.4-RELEASE-p4 BLOCKSIZE=K MAIL=/var/mail/root 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/124i386-quarterly/ref POUDRIERE_BUILD_TYPE=bulk PACKAGE_BUILDING=yes SAVED_TERM= PWD=/usr/local/poudriere/data/.m/124i386-quarterly/ref/.p/pool P_PORTS_FEATURES=FLAVORS SELECTED_OPTIONS MASTERNAME=124i386-quarterly SCRIPTPREFIX=/usr/local/share/poudriere OLDPWD=/usr/local/poudriere/data/.m/124i386-quarterly/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--- ---End OPTIONS List--- --MAINTAINER-- ssb22@cam.ac.uk --End MAINTAINER-- --CONFIGURE_ARGS-- --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- XDG_DATA_HOME=/wrkdirs/usr/ports/biology/pooler/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/pooler/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/pooler/work/.cache HOME=/wrkdirs/usr/ports/biology/pooler/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/pooler/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/pooler/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/biology/pooler/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/pooler/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/pooler/work/.cache HOME=/wrkdirs/usr/ports/biology/pooler/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/pooler/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/pooler/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 -fopenmp -fstack-protector-strong -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" -fstack-protector-strong " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -fopenmp -fstack-protector-strong -fno-strict-aliasing " MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 0644" BSD_INSTALL_SCRIPT="install -m 555" B SD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" --End MAKE_ENV-- --PLIST_SUB-- OSREL=12.4 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/pooler" EXAMPLESDIR="share/examples/pooler" DATADIR="share/pooler" WWWDIR="www/pooler" ETCDIR="etc/pooler" --End PLIST_SUB-- --SUB_LIST-- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/pooler DOCSDIR=/usr/local/share/doc/pooler EXAMPLESDIR=/usr/local/share/examples/pooler WWWDIR=/usr/local/www/pooler ETCDIR=/usr/local/etc/pooler --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} #### /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: i386-unknown-freebsd12.4 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: i386-unknown-freebsd12.4 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" "-m" "elf_i386_fbsd" "-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: i386-unknown-freebsd12.4 Thread model: posix InstalledDir: /usr/bin _OBJC_ALTCCVERSION_921dbbb2=none ARCH=i386 OPSYS=FreeBSD _OSRELEASE=12.4-RELEASE-p4 OSREL=12.4 OSVERSION=1204000 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) 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) 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 APACHE20 accepted by the user =========================================================================== =================================================== ===> pooler-1.86 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.19.2.pkg [124i386-quarterly-job-06] Installing pkg-1.19.2... [124i386-quarterly-job-06] Extracting pkg-1.19.2: .......... done ===> pooler-1.86 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of pooler-1.86 =========================================================================== =================================================== =========================================================================== =================================================== ===> License APACHE20 accepted by the user ===> Fetching all distfiles required by pooler-1.86 for building =========================================================================== =================================================== ===> License APACHE20 accepted by the user ===> Fetching all distfiles required by pooler-1.86 for building => SHA256 Checksum OK for ssb22-PrimerPooler-v1.86_GH0.tar.gz. =========================================================================== =================================================== =========================================================================== =================================================== ===> License APACHE20 accepted by the user ===> Fetching all distfiles required by pooler-1.86 for building ===> Extracting for pooler-1.86 => SHA256 Checksum OK for ssb22-PrimerPooler-v1.86_GH0.tar.gz. =========================================================================== =================================================== =========================================================================== =================================================== ===> Patching for pooler-1.86 =========================================================================== =================================================== ===> pooler-1.86 depends on executable: update-desktop-database - not found ===> Installing existing package /packages/All/desktop-file-utils-0.26_1.pkg [124i386-quarterly-job-06] Installing desktop-file-utils-0.26_1... [124i386-quarterly-job-06] `-- Installing gettext-runtime-0.21.1... [124i386-quarterly-job-06] | `-- Installing indexinfo-0.3.1... [124i386-quarterly-job-06] | `-- Extracting indexinfo-0.3.1: .... done [124i386-quarterly-job-06] `-- Extracting gettext-runtime-0.21.1: .......... done [124i386-quarterly-job-06] `-- Installing glib-2.76.4_1,2... [124i386-quarterly-job-06] | `-- Installing libffi-3.4.4... [124i386-quarterly-job-06] | `-- Extracting libffi-3.4.4: .......... done [124i386-quarterly-job-06] | `-- Installing libiconv-1.17... [124i386-quarterly-job-06] | `-- Extracting libiconv-1.17: .......... done [124i386-quarterly-job-06] | `-- Installing libxml2-2.10.4... [124i386-quarterly-job-06] | | `-- Installing readline-8.2.1... [124i386-quarterly-job-06] | | `-- Extracting readline-8.2.1: .......... done [124i386-quarterly-job-06] | `-- Extracting libxml2-2.10.4: .......... done [124i386-quarterly-job-06] | `-- Installing pcre2-10.42... [124i386-quarterly-job-06] | `-- Extracting pcre2-10.42: .......... done [124i386-quarterly-job-06] | `-- Installing python39-3.9.17... [124i386-quarterly-job-06] | | `-- Installing mpdecimal-2.5.1... [124i386-quarterly-job-06] | | `-- Extracting mpdecimal-2.5.1: .......... done [124i386-quarterly-job-06] | `-- Extracting python39-3.9.17: .......... done [124i386-quarterly-job-06] `-- Extracting glib-2.76.4_1,2: .......... done [124i386-quarterly-job-06] Extracting desktop-file-utils-0.26_1: .......... done Building cache database of MIME types Building cache database of MIME types Generating GIO modules cache Compiling glib schemas No schema files found: doing nothing. ===== Message from python39-3.9.17: -- 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 ===> pooler-1.86 depends on executable: update-desktop-database - found ===> Returning to build of pooler-1.86 =========================================================================== =================================================== =========================================================================== =================================================== ===> Configuring for pooler-1.86 =========================================================================== =================================================== ===> Building for pooler-1.86 --- 32.h --- --- 128.h --- --- 32.h --- chmod +w 32.h 2>/dev/null || true --- 128.h --- chmod +w 128.h 2>/dev/null || true --- 32.h --- sed -e s/64/32/g < 64.h > 32.h --- 128.h --- sed -e s/64/128/g < 64.h > 128.h --- 32.h --- chmod -w 32.h --- 32-64.h --- chmod +w 32-64.h 2>/dev/null || true --- 128.h --- chmod -w 128.h --- 32-64.h --- sed -e s/64/32/g -e s/128/64/g < 64-128.h > 32-64.h chmod -w 32-64.h --- pooler --- $(sh -c 'case "$OSTYPE" in darwin*) [ "cc" = cc ] && gcc --version 2>/dev/null >/dev/null ;; *) false ;; esac' && echo gcc || echo "cc") -O2 -pipe -fopenmp -fstack-protector-strong -fno-strict-aliasing $(echo 'int main(){}' > _test.c; if $(sh -c 'case "$OSTYPE" in darwin*) [ "cc" = cc ] && gcc --version 2>/dev/null >/dev/null ;; *) false ;; esac' && echo gcc || echo "cc") -fopenmp _test.c -o /dev/null 2>/dev/null; then echo -fopenmp; fi; rm _test.c) *.c -o pooler -lm Bus error (core dumped) Bus error (core dumped) *** [pooler] Error code 138 make[1]: stopped in /wrkdirs/usr/ports/biology/pooler/work/PrimerPooler-1.86/pooler 1 error make[1]: stopped in /wrkdirs/usr/ports/biology/pooler/work/PrimerPooler-1.86/pooler ===> 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/pooler