From nobody Tue Feb 04 04:47:33 2025 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 4Yn9pF6NBbz5nKB4 for ; Tue, 04 Feb 2025 04:47:33 +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 "R11" (verified OK)) by mx1.freebsd.org (Postfix) with ESMTPS id 4Yn9pF2Nnpz3Fv4 for ; Tue, 04 Feb 2025 04:47:33 +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=1738644453; h=from:from:reply-to:subject:subject:date:date:message-id:message-id: to:to:cc; bh=74VlY9N0uMgyhlTQsKiqaaFlhl7DXtcpoVUbf+Tdt8k=; b=ISf+OlGft63Z1rAlpk9k7bdgWiSWy37t0uS/923GW2LurEUSdLoi06uMq+D3zOEE7AdXv6 2UYQVX4ww+ZVXBshLb1fD/JLu+cUH/b/4uVSnBqki5It3RruiUt5AC7S+P1Q8zRmK1vF8Q TSl75c9LAQ5TjaJPisyUpS3vkXyWYNxcn2FwFpYW15lh6K8hi1oN8TXpG0uvO+ybjcmvo5 gbQOnh/i7rjJbhob+kg5ZzBcFE8QFgRF5QpX8RFubPrEk1EKidkBKsRIXmejT8NkliPRYp GeEy3YyMHBTaP+cmBHZpct+laq3qtq4RNGclzqZzcw94EgEhl8HoyMnNy2dCpg== ARC-Seal: i=1; s=dkim; d=freebsd.org; t=1738644453; a=rsa-sha256; cv=none; b=aV9c/IxUNbH/v/K47mAc8TY6Bl7SP0uxTtT9RTaezjeJJtF+czrLACXLKF1788DHP1rwIq cMOaDDEpxSLJcl4Vu75RiUYeLKhX5wxTsIXv8HuCWgJtxBSYDUqzI7ohm0C3xhtmxG5rgV 61Mcrn86bO7r/782ReFFsX5YhoYi8IS+jVpuFAko36ri7raSWZVZi4Bid8lIPs4TQPtgjz oPjZS9uUK18gRKK+GHJJShtjtaV1yOJrnTHc7DAlihvQNXvMCBETfZ+Rp6fQrCIgM5bcC1 hqBTrRlCCipnJsVcUfODB7fp12Dbhvh1tizvVuztHzQXRfNv3wMzwpEYdu76fA== ARC-Authentication-Results: i=1; mx1.freebsd.org; none Received: from ampere2.nyi.freebsd.org (ampere2.nyi.freebsd.org [IPv6:2610:1c1:1:6080::16:24]) by mxrelay.nyi.freebsd.org (Postfix) with ESMTP id 4Yn9pF1pdTz16gd for ; Tue, 04 Feb 2025 04:47:33 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: from root (uid 0) (envelope-from pkg-fallout@FreeBSD.org) id 5c15 by ampere2.nyi.freebsd.org (DragonFly Mail Agent v0.13+ on ampere2.nyi.freebsd.org); Tue, 04 Feb 2025 04:47:33 +0000 To: pkg-fallout@FreeBSD.org Subject: [package - main-armv7-default][biology/htslib] Failed for htslib-1.21 in build Date: Tue, 04 Feb 2025 04:47:33 +0000 Message-Id: <67a19be5.5c15.7f1b7259@ampere2.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/ampere2/data/main-armv7-default/p7b2be625f599_s95ea57c856/logs/htslib-1.21.log Build URL: https://pkg-status.freebsd.org/ampere2/build.html?mastername=main-armv7-default&build=p7b2be625f599_s95ea57c856 Log: =>> Building biology/htslib build started at Tue Feb 4 04:46:44 UTC 2025 port directory: /usr/ports/biology/htslib package name: htslib-1.21 building for: FreeBSD main-armv7-default-job-13 15.0-CURRENT FreeBSD 15.0-CURRENT 1500030 arm maintained by: jwb@FreeBSD.org Makefile datestamp: -rw-r--r-- 1 root wheel 1098 Oct 15 01:04 /usr/ports/biology/htslib/Makefile Ports top last git commit: 7b2be625f59 Ports top unclean checkout: no Port dir last git commit: aafe5d31c5f Port dir unclean checkout: no Poudriere version: poudriere-git-3.4.2 Host OSVERSION: 1500028 Jail OSVERSION: 1500030 Job Id: 13 !!! Jail is newer than host. (Jail: 1500030, Host: 1500028) !!! !!! This is not supported. !!! !!! Host kernel must be same or newer than jail. !!! !!! Expect build failures. !!! ---Begin Environment--- SHELL=/bin/sh OSVERSION=1500030 UNAME_v=FreeBSD 15.0-CURRENT 1500030 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=3.4.2 MASTERMNT=/usr/local/poudriere/data/.m/main-armv7-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-armv7-default/13/.p OUTPUT_REDIRECTED_STDOUT=3 P_PORTS_FEATURES=FLAVORS SUBPACKAGES SELECTED_OPTIONS MASTERNAME=main-armv7-default SCRIPTPREFIX=/usr/local/share/poudriere SCRIPTNAME=bulk.sh OLDPWD=/usr/local/poudriere/data/.m/main-armv7-default/ref/.p/pool POUDRIERE_PKGNAME=poudriere-git-3.4.2 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--- ===> The following configuration options are available for htslib-1.21: CURL=on: Use libcurl for network file access (HTTPS and S3 support). ===> Use 'make config' to modify these settings ---End OPTIONS List--- --MAINTAINER-- jwb@FreeBSD.org --End MAINTAINER-- --CONFIGURE_ARGS-- --enable-libcurl --prefix=/usr/local ${_LATE_CONFIGURE_ARGS} --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- MAKE=/usr/local/bin/gmake ac_cv_path_PERL=/usr/local/bin/perl ac_cv_path_PERL_PATH=/usr/local/bin/perl PERL_USE_UNSAFE_INC=1 XDG_DATA_HOME=/wrkdirs/usr/ports/biology/htslib/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/htslib/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/htslib/work/.cache HOME=/wrkdirs/usr/ports/biology/htslib/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/htslib/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/htslib/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh DEFAULT_AUTOCONF=2.72 CMAKE_PREFIX_PATH="/usr/local" CONFIG_SITE=/usr/ports/Templates/config.site lt_cv_sys_max_cmd_len=524288 --End CONFIGURE_ENV-- --MAKE_ENV-- PERL_USE_UNSAFE_INC=1 OPENSSLBASE=/usr OPENSSLDIR=/etc/ssl OPENSSLINC=/usr/include OPENSSLLIB=/usr/lib XDG_DATA_HOME=/wrkdirs/usr/ports/biology/htslib/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/htslib/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/htslib/work/.cache HOME=/wrkdirs/usr/ports/biology/htslib/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/htslib/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/htslib/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 DEFAULT_AUTOCONF=2.72 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-protec tor-strong -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_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" --End MAKE_ENV-- --PLIST_SUB-- PORTVERSION="1.21" OSREL=15.0 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib PERL_VERSION=5.36.3 PERL_VER=5.36 PERL5_MAN1=lib/perl5/site_perl/man/man1 PERL5_MAN3=lib/perl5/site_perl/man/man3 SITE_PERL=lib/perl5/site_perl SITE_ARCH=lib/perl5/site_perl/mach/5.36 DOCSDIR="share/doc/htslib" EXAMPLESDIR="share/examples/htslib" DATADIR="share/htslib" WWWDIR="www/htslib" ETCDIR="etc/htslib" --End PLIST_SUB-- --SUB_LIST-- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/htslib DOCSDIR=/usr/local/share/doc/htslib EXAMPLESDIR=/usr/local/share/examples/htslib WWWDIR=/usr/local/www/htslib ETCDIR=/usr/local/etc/htslib --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) 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 pipebuf (-y) unlimited --End resource limits-- =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License BSD3CLAUSE MIT accepted by the user =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> htslib-1.21 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-2.0.5.pkg [main-armv7-default-job-13] Installing pkg-2.0.5... [main-armv7-default-job-13] Extracting pkg-2.0.5: .......... done ===> htslib-1.21 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of htslib-1.21 =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License BSD3CLAUSE MIT accepted by the user ===> Fetching all distfiles required by htslib-1.21 for building =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License BSD3CLAUSE MIT accepted by the user ===> Fetching all distfiles required by htslib-1.21 for building => SHA256 Checksum OK for htslib-1.21.tar.bz2. =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License BSD3CLAUSE MIT accepted by the user ===> Fetching all distfiles required by htslib-1.21 for building ===> Extracting for htslib-1.21 => SHA256 Checksum OK for htslib-1.21.tar.bz2. =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Patching for htslib-1.21 ===> Applying FreeBSD patches for htslib-1.21 from /usr/ports/biology/htslib/files =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> htslib-1.21 depends on package: gmake>=4.4.1 - not found ===> Installing existing package /packages/All/gmake-4.4.1.pkg [main-armv7-default-job-13] Installing gmake-4.4.1... [main-armv7-default-job-13] `-- Installing gettext-runtime-0.23.1... [main-armv7-default-job-13] | `-- Installing indexinfo-0.3.1... [main-armv7-default-job-13] Extracting autoconf-2.72: .......... done ===> htslib-1.21 depends on package: autoconf>=2.72 - found ===> Returning to build of htslib-1.21 ===> htslib-1.21 depends on package: automake>=1.17 - not found ===> Installing existing package /packages/All/automake-1.17.pkg [main-armv7-default-job-13] Installing automake-1.17... [main-armv7-default-job-13] Extracting automake-1.17: .......... done ===> htslib-1.21 depends on package: automake>=1.17 - found ===> Returning to build of htslib-1.21 =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> htslib-1.21 depends on shared library: libdeflate.so - not found ===> Installing existing package /packages/All/libdeflate-1.22.pkg [main-armv7-default-job-13] Installing libdeflate-1.22... [main-armv7-default-job-13] Extracting libdeflate-1.22: .......... done ===> htslib-1.21 depends on shared library: libdeflate.so - found (/usr/local/lib/libdeflate.so) ===> Returning to build of htslib-1.21 ===> htslib-1.21 depends on shared library: libcurl.so - not found ===> Installing existing package /packages/All/curl-8.11.1_1.pkg [main-armv7-default-job-13] Installing curl-8.11.1_1... [main-armv7-default-job-13] `-- Installing brotli-1.1.0,1... [main-armv7-default-job-13] `-- Extracting brotli-1.1.0,1: .......... done [main-armv7-default-job-13] `-- Installing libidn2-2.3.7... [main-armv7-default-job-13] | `-- Installing libunistring-1.3... [main-armv7-default-job-13] | `-- Extracting libunistring-1.3: .......... done [main-armv7-default-job-13] `-- Extracting libidn2-2.3.7: .......... done [main-armv7-default-job-13] `-- Installing libnghttp2-1.64.0... [main-armv7-default-job-13] `-- Extracting libnghttp2-1.64.0: .......... done [main-armv7-default-job-13] `-- Installing libpsl-0.21.5_1... [main-armv7-default-job-13] `-- Extracting libpsl-0.21.5_1: .......... done [main-armv7-default-job-13] `-- Installing libssh2-1.11.1,3... [main-armv7-default-job-13] `-- Extracting libssh2-1.11.1,3: .......... done [main-armv7-default-job-13] `-- Installing zstd-1.5.6... [main-armv7-default-job-13] | `-- Installing liblz4-1.10.0,1... [main-armv7-default-job-13] | `-- Extracting liblz4-1.10.0,1: .......... done [main-armv7-default-job-13] `-- Extracting zstd-1.5.6: .......... done [main-armv7-default-job-13] Extracting curl-8.11.1_1: .......... done ===> htslib-1.21 depends on shared library: libcurl.so - found (/usr/local/lib/libcurl.so) ===> Returning to build of htslib-1.21 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Configuring for htslib-1.21 configure: loading site script /usr/ports/Templates/config.site checking for gcc... cc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C... yes checking whether cc accepts -g... yes checking for cc option to enable C11 features... none needed checking for ranlib... ranlib checking for grep that handles long lines and -e... (cached) /usr/bin/grep checking for C compiler warning flags... -Wall checking for cc options needed to detect all undeclared functions... -fno-builtin checking for stdio.h... (cached) yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for inttypes.h... (cached) yes checking for stdint.h... (cached) yes checking for strings.h... (cached) yes checking for sys/stat.h... (cached) yes checking for sys/types.h... (cached) yes checking for unistd.h... (cached) yes checking for sys/param.h... (cached) yes checking whether _XOPEN_SOURCE is declared... no checking whether __get_cpuid_max is declared... no checking whether __cpuid_count is declared... no checking for pkg-config... no checking for cc option to enable large file support... none needed checking shared library type for unknown-FreeBSD... plain .so checking whether the linker supports versioned symbols... no checking whether the compiler accepts -fvisibility=hidden... yes checking build system type... armv7-portbld-freebsd15.0 checking host system type... armv7-portbld-freebsd15.0 checking for getpagesize... (cached) yes checking for working mmap... (cached) yes checking for gmtime_r... yes checking for fsync... (cached) yes checking for drand48... yes checking for srand48_deterministic... no checking whether fdatasync is declared... yes checking for fdatasync... yes checking for __attribute__((constructor))... yes checking for clock_gettime with CLOCK_PROCESS_CPUTIME_ID... yes checking for library containing log... -lm checking for zlib.h... (cached) yes checking for inflate in -lz... yes checking for library containing recv... none required checking for bzlib.h... yes checking for BZ2_bzBuffToBuffCompress in -lbz2... yes checking for lzma.h... yes checking for lzma_easy_buffer_encode in -llzma... yes checking whether htscodecs files are present... yes checking for libdeflate.h... yes checking for libdeflate_deflate_compress in -ldeflate... yes checking for curl/curl.h... yes checking for curl_easy_pause in -lcurl... yes checking for CCHmac... no checking for library containing HMAC... -lcrypto checking for library containing regcomp... none required configure: creating ./config.status config.status: creating config.mk config.status: creating htslib.pc.tmp config.status: creating config.h config.status: linking htscodecs_bundled.mk to htscodecs.mk =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Building for htslib-1.21 cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o kfunc.o kfunc.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o kstring.o kstring.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o bcf_sr_sort.o bcf_sr_sort.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o bgzf.o bgzf.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o errmod.o errmod.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o faidx.o faidx.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o header.o header.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o hfile.o hfile.c echo '#define HTS_VERSION_TEXT "1.21"' > version.h printf '#define HTS_CC "%s"\n#define HTS_CPPFLAGS "%s"\n#define HTS_CFLAGS "%s"\n#define HTS_LDFLAGS "%s"\n#define HTS_LIBS "%s"\n' \ 'cc' \ '-isystem /usr/local/include' \ '-Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden' \ '-fstack-protector-strong -fvisibility=hidden ' \ '-ldeflate -llzma -lbz2 -lz -lm -L/usr/local/lib -lcurl -lcrypto' > config_vars.h cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o hts_expr.o hts_expr.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o hts_os.o hts_os.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o md5.o md5.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o multipart.o multipart.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o probaln.o probaln.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o realn.o realn.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o regidx.o regidx.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o region.o region.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o sam.o sam.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o sam_mods.o sam_mods.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o simd.o simd.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o synced_bcf_reader.o synced_bcf_reader.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o vcf_sweep.o vcf_sweep.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o tbx.o tbx.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o textutils.o textutils.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o thread_pool.o thread_pool.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o vcf.o vcf.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o vcfutils.o vcfutils.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o cram/cram_codecs.o cram/cram_codecs.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o cram/cram_decode.o cram/cram_decode.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o cram/cram_encode.o cram/cram_encode.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o cram/cram_external.o cram/cram_external.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o cram/cram_index.o cram/cram_index.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o cram/cram_io.o cram/cram_io.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o cram/cram_stats.o cram/cram_stats.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o cram/mFILE.o cram/mFILE.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o cram/open_trace_file.o cram/open_trace_file.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o cram/pooled_alloc.o cram/pooled_alloc.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o cram/string_alloc.o cram/string_alloc.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o htscodecs/htscodecs/arith_dynamic.o htscodecs/htscodecs/arith_dynamic.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o htscodecs/htscodecs/fqzcomp_qual.o htscodecs/htscodecs/fqzcomp_qual.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o htscodecs/htscodecs/htscodecs.o htscodecs/htscodecs/htscodecs.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o htscodecs/htscodecs/pack.o htscodecs/htscodecs/pack.c cc -Wall -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -fvisibility=hidden -I. -isystem /usr/local/include -c -o htscodecs/htscodecs/rANS_static4x16pr.o htscodecs/htscodecs/rANS_static4x16pr.c htscodecs/htscodecs/rANS_static4x16pr.c:1073:19: error: use of undeclared identifier 'rans_compress_O1_32x16_neon'; did you mean 'rans_compress_O1_32x16'? 1073 | ? rans_compress_O1_32x16_neon | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ | rans_compress_O1_32x16 htscodecs/htscodecs/rANS_static32x16pr.h:70:16: note: 'rans_compress_O1_32x16' declared here 70 | unsigned char *rans_compress_O1_32x16(unsigned char *in, | ^ htscodecs/htscodecs/rANS_static4x16pr.c:1074:19: error: use of undeclared identifier 'rans_compress_O0_32x16_neon'; did you mean 'rans_compress_O0_32x16'? 1074 | : rans_compress_O0_32x16_neon; | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ | rans_compress_O0_32x16 htscodecs/htscodecs/rANS_static32x16pr.h:60:16: note: 'rans_compress_O0_32x16' declared here 60 | unsigned char *rans_compress_O0_32x16(unsigned char *in, | ^ htscodecs/htscodecs/rANS_static4x16pr.c:1096:19: error: use of undeclared identifier 'rans_uncompress_O1_32x16_neon'; did you mean 'rans_uncompress_O1_32x16'? 1096 | ? rans_uncompress_O1_32x16_neon | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | rans_uncompress_O1_32x16 htscodecs/htscodecs/rANS_static32x16pr.h:75:16: note: 'rans_uncompress_O1_32x16' declared here 75 | unsigned char *rans_uncompress_O1_32x16(unsigned char *in, | ^ htscodecs/htscodecs/rANS_static4x16pr.c:1097:19: error: use of undeclared identifier 'rans_uncompress_O0_32x16_neon'; did you mean 'rans_uncompress_O0_32x16'? 1097 | : rans_uncompress_O0_32x16_neon; | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | rans_uncompress_O0_32x16 htscodecs/htscodecs/rANS_static32x16pr.h:65:16: note: 'rans_uncompress_O0_32x16' declared here 65 | unsigned char *rans_uncompress_O0_32x16(unsigned char *in, | ^ 4 errors generated. gmake: *** [Makefile:194: htscodecs/htscodecs/rANS_static4x16pr.o] Error 1 gmake: *** Waiting for unfinished jobs.... ===> 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 making "build" in /usr/ports/biology/htslib