From nobody Tue Apr 16 09:19:07 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 4VJdlH6f4yz5GDKD for ; Tue, 16 Apr 2024 09:19:07 +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 4VJdlH4rQQz4yg8 for ; Tue, 16 Apr 2024 09:19:07 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) ARC-Seal: i=1; s=dkim; d=freebsd.org; t=1713259147; a=rsa-sha256; cv=none; b=HnMWayNsAzm2fs2nvwW1gSqfKNSFaRSXcJY9CcRSgeQq/1dEELEOCB94JGQqfwsiJ8+gkv bBZejeHgqQ+T+INe6gsm3ZVVgDpVEOgQwZGjwnMMCHtCa3BlLxXsZJUVYhqgf8rU/Izbpy nUUhQcaNIfN9pIs5WDJY3GGBDcCVarmxO8aZHYyWQps3mcVBz9MjxHPMYKaVtM21+WxeEk g3BgfQaqwdM/GhLTj6zoJfHK611rUWFxZ9HIvS67m3P1cIal7IM7jrR9xfZxyIYT9R9uzZ QAHIRuwjEOmnNJ8tnV5AWhmetLF8/zDy0LZdN3RL5PWJB+KW56FdCO5Q/XQN4w== 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=1713259147; h=from:from:reply-to:subject:subject:date:date:message-id:message-id: to:to:cc:cc; bh=znkO7ZT1wIZVIIKWOUyv1uEVN+GKCXyCDP1sgpzJiqA=; b=kdtsUEp9Ox6lWr/3LHR6UNH6R6/1dMNEV122gBpRI8G3WLh3v6L2X5vnOUTn9u9fo9Liw/ lNs9c9W/t++Ry/Wua8TeF1V4PnMLrWJRXPaXfqT7c59lkd0y/c+XYZ7LFrPeBImVJTezm8 D9pYvexb9P3E2sfiqaX6z+X8MMjMTPf1Gd6KdU/L4wdseujXM4KTuemLLSayNZ1vsf+II/ 7TX7j8vdMUB1EaIWm62XBKo3mDnXNI+0QppCUv4qWa0lMHdnyeHIt6Ir2C2oLdqbl0bmc8 D8dyyHkBJcAN0XL7Jud5kfis5YVDVHzW5BFldEq5YzWjsy3zC+eancQwIiyarg== Received: from beefy17.nyi.freebsd.org (beefy17.nyi.freebsd.org [IPv6:2610:1c1:1:6080::16:20]) by mxrelay.nyi.freebsd.org (Postfix) with ESMTP id 4VJdlH4C4Hzckx for ; Tue, 16 Apr 2024 09:19:07 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: from root (uid 0) (envelope-from pkg-fallout@FreeBSD.org) id d9d0 by beefy17.nyi.freebsd.org (DragonFly Mail Agent v0.13+ on beefy17.nyi.freebsd.org); Tue, 16 Apr 2024 09:19:07 +0000 To: jwb@FreeBSD.org Subject: [package - main-i386-default][biology/minimap2] Failed for minimap2-2.28 in package Cc: pkg-fallout@FreeBSD.org Date: Tue, 16 Apr 2024 09:19:07 +0000 Message-Id: <661e428b.d9d0.5ca259c6@beefy17.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: jwb@FreeBSD.org Log URL: https://pkg-status.freebsd.org/beefy17/data/main-i386-default/pac25ee445c95_s605a00660ea/logs/minimap2-2.28.log Build URL: https://pkg-status.freebsd.org/beefy17/build.html?mastername=main-i386-default&build=pac25ee445c95_s605a00660ea Log: =>> Building biology/minimap2 build started at Tue Apr 16 09:19:01 UTC 2024 port directory: /usr/ports/biology/minimap2 package name: minimap2-2.28 building for: FreeBSD main-i386-default-job-05 15.0-CURRENT FreeBSD 15.0-CURRENT 1500018 i386 maintained by: jwb@FreeBSD.org Makefile datestamp: -rw-r--r-- 1 root wheel 461 Apr 13 01:01 /usr/ports/biology/minimap2/Makefile Ports top last git commit: ac25ee445c9 Ports top unclean checkout: no Port dir last git commit: 8efa6a22830 Port dir unclean checkout: no Poudriere version: poudriere-git-3.4.1-1-g1e9f97d6 Host OSVERSION: 1500006 Jail OSVERSION: 1500018 Job Id: 05 !!! 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 BLOCKSIZE=K MAIL=/var/mail/root MM_CHARSET=UTF-8 LANG=C.UTF-8 OSVERSION=1500018 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=15.0-CURRENT LOCALBASE=/usr/local UNAME_v=FreeBSD 15.0-CURRENT 1500018 USER=root POUDRIERE_NAME=poudriere-git LIBEXECPREFIX=/usr/local/libexec/poudriere POUDRIERE_VERSION=3.4.1-1-g1e9f97d6 MASTERMNT=/usr/local/poudriere/data/.m/main-i386-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-i386-default/05/.p OUTPUT_REDIRECTED_STDOUT=3 P_PORTS_FEATURES=FLAVORS SUBPACKAGES SELECTED_OPTIONS MASTERNAME=main-i386-default SCRIPTPREFIX=/usr/local/share/poudriere SCRIPTNAME=bulk.sh OLDPWD=/usr/local/poudriere/data/.m/main-i386-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-- 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 -isystem /usr/local/include -fno-strict-aliasing " CPP="cpp" CPPFLAGS="-isystem /usr/local/include" LDFLAGS=" " LIBS="-L/usr/local/lib" CXX="c++" CXXFLAGS="-O2 -pipe -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include " BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 0644" BSD_INSTALL_SCRIP T="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--- 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 MIT accepted by the user =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> minimap2-2.28 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.21.2.pkg [main-i386-default-job-05] Installing pkg-1.21.2... [main-i386-default-job-05] Extracting pkg-1.21.2: .......... done ===> minimap2-2.28 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of minimap2-2.28 =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License MIT accepted by the user ===> Fetching all distfiles required by minimap2-2.28 for building =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License MIT accepted by the user ===> Fetching all distfiles required by minimap2-2.28 for building => SHA256 Checksum OK for lh3-minimap2-v2.28_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 MIT accepted by the user ===> Fetching all distfiles required by minimap2-2.28 for building ===> Extracting for minimap2-2.28 => SHA256 Checksum OK for lh3-minimap2-v2.28_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 minimap2-2.28 ===> Applying FreeBSD patches for minimap2-2.28 from /usr/ports/biology/minimap2/files =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> minimap2-2.28 depends on package: simde>0 - not found ===> Installing existing package /packages/All/simde-0.8.0.pkg [main-i386-default-job-05] Installing simde-0.8.0... [main-i386-default-job-05] Extracting simde-0.8.0: .......... done ===> minimap2-2.28 depends on package: simde>0 - found ===> Returning to build of minimap2-2.28 ===> minimap2-2.28 depends on package: gmake>=4.4.1 - not found ===> Installing existing package /packages/All/gmake-4.4.1.pkg [main-i386-default-job-05] Installing gmake-4.4.1... [main-i386-default-job-05] `-- Installing gettext-runtime-0.22.5... [main-i386-default-job-05] | `-- Installing indexinfo-0.3.1... [main-i386-default-job-05] | `-- Extracting indexinfo-0.3.1: .... done [main-i386-default-job-05] `-- Extracting gettext-runtime-0.22.5: .......... done [main-i386-default-job-05] Extracting gmake-4.4.1: .......... done ===> minimap2-2.28 depends on package: gmake>=4.4.1 - found ===> Returning to build of minimap2-2.28 =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Configuring for minimap2-2.28 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Building for minimap2-2.28 cc -c -O2 -pipe -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 -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 -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 kalloc.c:223:4: warning: format specifies type 'long' but the argument has type 'size_t' (aka 'unsigned int') [-Wformat] 222 | fprintf(stderr, "[km_stat] cap=%ld, avail=%ld, largest=%ld, n_core=%ld, n_block=%ld\n", | ~~~ | %zu 223 | st.capacity, st.available, st.largest, st.n_blocks, st.n_cores); | ^~~~~~~~~~~ kalloc.c:223:17: warning: format specifies type 'long' but the argument has type 'size_t' (aka 'unsigned int') [-Wformat] 222 | fprintf(stderr, "[km_stat] cap=%ld, avail=%ld, largest=%ld, n_core=%ld, n_block=%ld\n", | ~~~ | %zu 223 | st.capacity, st.available, st.largest, st.n_blocks, st.n_cores); | ^~~~~~~~~~~~ kalloc.c:223:31: warning: format specifies type 'long' but the argument has type 'size_t' (aka 'unsigned int') [-Wformat] 222 | fprintf(stderr, "[km_stat] cap=%ld, avail=%ld, largest=%ld, n_core=%ld, n_block=%ld\n", | ~~~ | %zu 223 | st.capacity, st.available, st.largest, st.n_blocks, st.n_cores); | ^~~~~~~~~~ kalloc.c:223:43: warning: format specifies type 'long' but the argument has type 'size_t' (aka 'unsigned int') [-Wformat] 222 | fprintf(stderr, "[km_stat] cap=%ld, avail=%ld, largest=%ld, n_core=%ld, n_block=%ld\n", | ~~~ | %zu 223 | st.capacity, st.available, st.largest, st.n_blocks, st.n_cores); | ^~~~~~~~~~~ kalloc.c:223:56: warning: format specifies type 'long' but the argument has type 'size_t' (aka 'unsigned int') [-Wformat] 222 | fprintf(stderr, "[km_stat] cap=%ld, avail=%ld, largest=%ld, n_core=%ld, n_block=%ld\n", | ~~~ | %zu 223 | st.capacity, st.available, st.largest, st.n_blocks, st.n_cores); | ^~~~~~~~~~ cc -c -O2 -pipe -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 5 warnings generated. cc -c -O2 -pipe -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 -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 -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 -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 -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 -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 -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 -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 -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 map.c:365:84: warning: format specifies type 'long' but the argument has type 'size_t' (aka 'unsigned int') [-Wformat] 365 | fprintf(stderr, "QM\t%s\t%d\tcap=%ld,nCore=%ld,largest=%ld\n", qname, qlen_sum, kmst.capacity, kmst.n_cores, kmst.largest); | ~~~ ^~~~~~~~~~~~~ | %zu map.c:365:99: warning: format specifies type 'long' but the argument has type 'size_t' (aka 'unsigned int') [-Wformat] 365 | fprintf(stderr, "QM\t%s\t%d\tcap=%ld,nCore=%ld,largest=%ld\n", qname, qlen_sum, kmst.capacity, kmst.n_cores, kmst.largest); | ~~~ ^~~~~~~~~~~~ | %zu map.c:365:113: warning: format specifies type 'long' but the argument has type 'size_t' (aka 'unsigned int') [-Wformat] 365 | fprintf(stderr, "QM\t%s\t%d\tcap=%ld,nCore=%ld,largest=%ld\n", qname, qlen_sum, kmst.capacity, kmst.n_cores, kmst.largest); | ~~~ ^~~~~~~~~~~~ | %zu cc -c -O2 -pipe -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 -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 3 warnings generated. cc -c -O2 -pipe -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 -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 -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 -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 -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 -c -O2 -pipe -isystem /usr/local/include -fno-strict-aliasing -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -msse4.1 -isystem /usr/local/include ksw2_exts2_sse.c -o ksw2_exts2_simde.o cc -c -O2 -pipe -isystem /usr/local/include -fno-strict-aliasing -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -msse2 -isystem /usr/local/include ksw2_ll_sse.c -o ksw2_ll_simde.o cc -D_SDUST_MAIN -O2 -pipe -isystem /usr/local/include -fno-strict-aliasing -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ sdust.c kalloc.o -o sdust -lz cc -c -O2 -pipe -isystem /usr/local/include -fno-strict-aliasing -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ -isystem /usr/local/include example.c -o example.o ar -csru libminimap2.a kthread.o kalloc.o misc.o bseq.o sketch.o sdust.o options.o index.o lchain.o align.o hit.o map.o format.o pe.o seed.o esterr.o splitidx.o ksw2_extz2_simde.o ksw2_extd2_simde.o ksw2_exts2_simde.o ksw2_ll_simde.o cc -O2 -pipe -isystem /usr/local/include -fno-strict-aliasing -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ main.o -o minimap2 -L. -lminimap2 -lm -lz -lpthread cc -O2 -pipe -isystem /usr/local/include -fno-strict-aliasing -Wc++-compat -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -D__SSE2__ example.o -o minimap2-lite -L. -lminimap2 -lm -lz -lpthread =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Staging for minimap2-2.28 ===> Generating temporary packing list mkdir -p /wrkdirs/usr/ports/biology/minimap2/work/stage/usr/local/bin mkdir -p /wrkdirs/usr/ports/biology/minimap2/work/stage/usr/local/man/man1 mkdir -p /wrkdirs/usr/ports/biology/minimap2/work/stage/usr/local/share/minimap2 install -c minimap2 /wrkdirs/usr/ports/biology/minimap2/work/stage/usr/local/bin install -c minimap2-lite /wrkdirs/usr/ports/biology/minimap2/work/stage/usr/local/bin install -c sdust /wrkdirs/usr/ports/biology/minimap2/work/stage/usr/local/bin install -c minimap2.1 /wrkdirs/usr/ports/biology/minimap2/work/stage/usr/local/man/man1 cp -R test /wrkdirs/usr/ports/biology/minimap2/work/stage/usr/local/share/minimap2 strip /wrkdirs/usr/ports/biology/minimap2/work/stage/usr/local/bin/minimap2 strip /wrkdirs/usr/ports/biology/minimap2/work/stage/usr/local/bin/minimap2-lite strip /wrkdirs/usr/ports/biology/minimap2/work/stage/usr/local/bin/sdust ====> Compressing man pages (compress-man) =========================================================================== =================================================== ===== env: 'PKG_NOTES=build_timestamp ports_top_git_hash ports_top_checkout_unclean port_git_hash port_checkout_unclean built_by' 'PKG_NOTE_build_timestamp=2024-04-16T09:19:01+0000' 'PKG_NOTE_ports_top_git_hash=ac25ee445c9' 'PKG_NOTE_ports_top_checkout_unclean=no' 'PKG_NOTE_port_git_hash=8efa6a22830' 'PKG_NOTE_port_checkout_unclean=no' 'PKG_NOTE_built_by=poudriere-git-3.4.1-1-g1e9f97d6' NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Building packages for minimap2-2.28 ===> Building minimap2-2.28 pkg-static: Unable to access file /wrkdirs/usr/ports/biology/minimap2/work/stage/usr/local/man/man1/minimap2.1.gz:No such file or directory *** Error code 1 Stop. make: stopped in /usr/ports/biology/minimap2