[package - main-arm64-default][biology/minimap2] Failed for minimap2-2.28_1 in build
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Date: Mon, 22 Apr 2024 18:17:52 UTC
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: jwb@FreeBSD.org Log URL: https://pkg-status.freebsd.org/ampere2/data/main-arm64-default/p1c7a816cd0ad_s1bd4f769caf/logs/minimap2-2.28_1.log Build URL: https://pkg-status.freebsd.org/ampere2/build.html?mastername=main-arm64-default&build=p1c7a816cd0ad_s1bd4f769caf Log: =>> Building biology/minimap2 build started at Mon Apr 22 18:17:44 UTC 2024 port directory: /usr/ports/biology/minimap2 package name: minimap2-2.28_1 building for: FreeBSD main-arm64-default-job-02 15.0-CURRENT FreeBSD 15.0-CURRENT 1500018 arm64 maintained by: jwb@FreeBSD.org Makefile datestamp: -rw-r--r-- 1 root wheel 522 Apr 20 01:07 /usr/ports/biology/minimap2/Makefile Ports top last git commit: 1c7a816cd0a Ports top unclean checkout: no Port dir last git commit: 507fa8ab370 Port dir unclean checkout: no Poudriere version: poudriere-git-3.4.1-30-g79e3edcd Host OSVERSION: 1500006 Jail OSVERSION: 1500018 Job Id: 02 !!! Jail is newer than host. (Jail: 1500018, Host: 1500006) !!! !!! This is not supported. !!! !!! Host kernel must be same or newer than jail. !!! !!! Expect build failures. !!! ---Begin Environment--- SHELL=/bin/sh OSVERSION=1500018 UNAME_v=FreeBSD 15.0-CURRENT 1500018 UNAME_r=15.0-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=3.4.1-30-g79e3edcd MASTERMNT=/usr/local/poudriere/data/.m/main-arm64-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-arm64-default/02/.p OUTPUT_REDIRECTED_STDOUT=3 P_PORTS_FEATURES=FLAVORS SUBPACKAGES SELECTED_OPTIONS MASTERNAME=main-arm64-default SCRIPTPREFIX=/usr/local/share/poudriere SCRIPTNAME=bulk.sh OLDPWD=/usr/local/poudriere/data/.m/main-arm64-default/ref/.p/pool POUDRIERE_PKGNAME=poudriere-git-3.4.1-30-g79e3edcd 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-- jwb@FreeBSD.org --End MAINTAINER-- --CONFIGURE_ARGS-- --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- MAKE=gmake XDG_DATA_HOME=/wrkdirs/usr/ports/biology/minimap2/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/minimap2/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/minimap2/work/.cache HOME=/wrkdirs/usr/ports/biology/minimap2/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/minimap2/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/minimap2/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-- XDG_DATA_HOME=/wrkdirs/usr/ports/biology/minimap2/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/minimap2/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/minimap2/work/.cache HOME=/wrkdirs/usr/ports/biology/minimap2/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/minimap2/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/minimap2/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 -isystem /usr/local/include -fno-strict-aliasing " CPP="cpp" CPPFLAGS="-isystem /usr/local/include" LDFLAGS=" -fstack-protector-strong " LIBS="-L/usr/local/lib" CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include " BSD_INSTALL_PROGRAM="in stall -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-- OSREL=15.0 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/minimap2" EXAMPLESDIR="share/examples/minimap2" DATADIR="share/minimap2" WWWDIR="www/minimap2" ETCDIR="etc/minimap2" --End PLIST_SUB-- --SUB_LIST-- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/minimap2 DOCSDIR=/usr/local/share/doc/minimap2 EXAMPLESDIR=/usr/local/share/examples/minimap2 WWWDIR=/usr/local/www/minimap2 ETCDIR=/usr/local/etc/minimap2 --End SUB_LIST-- ---Begin 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 3 jobs MAKE_JOBS_NUMBER=3 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) 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) 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-- =======================<phase: check-sanity >============================ ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License MIT accepted by the user =========================================================================== =======================<phase: pkg-depends >============================ ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> minimap2-2.28_1 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.21.2.pkg [main-arm64-default-job-02] Installing pkg-1.21.2... [main-arm64-default-job-02] Extracting pkg-1.21.2: .......... done ===> minimap2-2.28_1 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of minimap2-2.28_1 =========================================================================== =======================<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 MIT accepted by the user => lh3-minimap2-v2.28_GH0.tar.gz doesn't seem to exist in /portdistfiles/. => Attempting to fetch https://codeload.github.com/lh3/minimap2/tar.gz/v2.28?dummy=/lh3-minimap2-v2.28_GH0.tar.gz fetch: https://codeload.github.com/lh3/minimap2/tar.gz/v2.28?dummy=/lh3-minimap2-v2.28_GH0.tar.gz: size unknown fetch: https://codeload.github.com/lh3/minimap2/tar.gz/v2.28?dummy=/lh3-minimap2-v2.28_GH0.tar.gz: size of remote file is not known lh3-minimap2-v2.28_GH0.tar.gz 254 kB 3948 kBps 00s ===> Fetching all distfiles required by minimap2-2.28_1 for building =========================================================================== =======================<phase: checksum >============================ ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License MIT accepted by the user ===> Fetching all distfiles required by minimap2-2.28_1 for building => SHA256 Checksum OK for lh3-minimap2-v2.28_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 MIT accepted by the user ===> Fetching all distfiles required by minimap2-2.28_1 for building ===> Extracting for minimap2-2.28_1 => SHA256 Checksum OK for lh3-minimap2-v2.28_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 minimap2-2.28_1 ===> Applying FreeBSD patches for minimap2-2.28_1 from /usr/ports/biology/minimap2/files =========================================================================== =======================<phase: build-depends >============================ ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> minimap2-2.28_1 depends on package: simde>0 - not found ===> Installing existing package /packages/All/simde-0.8.0.pkg [main-arm64-default-job-02] Installing simde-0.8.0... [main-arm64-default-job-02] Extracting simde-0.8.0: .......... done ===> minimap2-2.28_1 depends on package: simde>0 - found ===> Returning to build of minimap2-2.28_1 ===> minimap2-2.28_1 depends on package: gmake>=4.4.1 - not found ===> Installing existing package /packages/All/gmake-4.4.1.pkg [main-arm64-default-job-02] Installing gmake-4.4.1... [main-arm64-default-job-02] `-- Installing gettext-runtime-0.22.5... [main-arm64-default-job-02] | `-- Installing indexinfo-0.3.1... [main-arm64-default-job-02] | `-- Extracting indexinfo-0.3.1: .... done [main-arm64-default-job-02] `-- Extracting gettext-runtime-0.22.5: .......... done [main-arm64-default-job-02] Extracting gmake-4.4.1: .......... done ===> minimap2-2.28_1 depends on package: gmake>=4.4.1 - found ===> Returning to build of minimap2-2.28_1 =========================================================================== =======================<phase: lib-depends >============================ ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =======================<phase: configure >============================ ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Configuring for minimap2-2.28_1 =========================================================================== =======================<phase: build >============================ ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Building for minimap2-2.28_1 cc -c -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include main.c -o main.o cc -c -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include kthread.c -o kthread.o cc -c -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include kalloc.c -o kalloc.o cc -c -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include misc.c -o misc.o cc -c -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include bseq.c -o bseq.o cc -c -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include sketch.c -o sketch.o cc -c -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include sdust.c -o sdust.o cc -c -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include options.c -o options.o cc -c -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include index.c -o index.o cc -c -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include lchain.c -o lchain.o cc -c -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include align.c -o align.o cc -c -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include hit.c -o hit.o cc -c -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include map.c -o map.o cc -c -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include format.c -o format.o cc -c -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include pe.c -o pe.o cc -c -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include seed.c -o seed.o cc -c -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include esterr.c -o esterr.o cc -c -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include splitidx.c -o splitidx.o cc -c -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -msse4.1 -isystem /usr/local/include ksw2_extz2_sse.c -o ksw2_extz2_simde.o cc -c -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -msse4.1 -isystem /usr/local/include ksw2_extd2_sse.c -o ksw2_extd2_simde.o cc: error: unsupported option '-msse4.1' for target 'aarch64-unknown-freebsd15.0' gmake: *** [Makefile.simde:68: ksw2_extz2_simde.o] Error 1 gmake: *** Waiting for unfinished jobs.... cc: error: unsupported option '-msse4.1' for target 'aarch64-unknown-freebsd15.0' gmake: *** [Makefile.simde:71: ksw2_extd2_simde.o] Error 1 ===> 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/minimap2