From nobody Fri Apr 07 20:48:49 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 4PtVpB5GX8z4493P for ; Fri, 7 Apr 2023 20:48:50 +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 4PtVp95S3kz4Lby for ; Fri, 7 Apr 2023 20:48:49 +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=1680900529; h=from:from:reply-to:subject:subject:date:date:message-id:message-id: to:to:cc; bh=u7y2MtC87/BpKhTnzS/vs4VopxK0ghnJ1FDkhEOL3wE=; b=F1BOcMRwnuATks5Rk6IDXUUd9rkCDAj9f91y575tlD/5iZC1BJ89PA/CF4SynKCJLdxiJD c90Rlm3esCeZn2NK3sbh/UXUghrF8nKrB2wAuYl9Po0Hkmq4V1xQKh1WMxSuAaXG69JZEX p+sXCO16XT3vmqOLnCmlhbNTkWn7ULHXBPgd9EI9yAi5Ho8x2cH3xy6kCAaVk0ztGoDzK7 1GwPridaQuKBqHEVeetQxTUHchJKXAETl0AN2Guu8z92kn+MjxgYNfDta7SD/BstJyW4Dn vPcR2A6YE5pyFDb7Xywt9uK+ZL+UweZFrx62fme76NoeDJwlrLYDDk2LXBETbg== ARC-Authentication-Results: i=1; mx1.freebsd.org; none ARC-Seal: i=1; s=dkim; d=freebsd.org; t=1680900529; a=rsa-sha256; cv=none; b=KBhfFHb7zmgtigz48IYLFI+/AHyTINhRVtzJgqi/Q1/sj+Ti5OPvAHjnkATqTTdfYDUTbg inShMgzDG17Nfn4bKVkj27HRvo+CmWlimAgnoN0/gk7yqp7GH97xsGtIlFB2z62aktpo15 eYxKmqjGHoJyfhGP10HwsW18StjqWmhy5DMFc5+EUK4JzyxVl3wMsxKxBzQzzxiOTZ6i+A Q5q+TZdOfZCJux5/y2lLT0R1s/iGHdSgNpAenR3PI31RB19R0LFlvHomDuR7K/vBy8wEHK AWMk9PmXsbeG9J9ugNYO70tF0awiJSfmT3VM04l5aTs+C93bvPfKI1bdazoOFQ== 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 4PtVp94JqCz10fS for ; Fri, 7 Apr 2023 20:48:49 +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 337Kmnkf015628 for ; Fri, 7 Apr 2023 20:48:49 GMT (envelope-from pkg-fallout@FreeBSD.org) Received: (from root@localhost) by ampere3.nyi.freebsd.org (8.16.1/8.16.1/Submit) id 337KmnUR015627; Fri, 7 Apr 2023 20:48:49 GMT (envelope-from pkg-fallout@FreeBSD.org) Date: Fri, 7 Apr 2023 20:48:49 GMT From: pkg-fallout@FreeBSD.org Message-Id: <202304072048.337KmnUR015627@ampere3.nyi.freebsd.org> To: pkg-fallout@FreeBSD.org Subject: [package - 131releng-armv7-default][biology/htslib] Failed for htslib-1.17 in build 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: jwb@FreeBSD.org Log URL: https://pkg-status.freebsd.org/ampere3/data/131releng-armv7-default/6eeeb3bd99c4/logs/htslib-1.17.log Build URL: https://pkg-status.freebsd.org/ampere3/build.html?mastername=131releng-armv7-default&build=6eeeb3bd99c4 Log: =>> Building biology/htslib build started at Fri Apr 7 20:47:57 UTC 2023 port directory: /usr/ports/biology/htslib package name: htslib-1.17 building for: FreeBSD 131releng-armv7-default-job-01 13.1-RELEASE-p7 FreeBSD 13.1-RELEASE-p7 1301000 arm maintained by: jwb@FreeBSD.org Makefile ident: Poudriere version: 3.2.8-23-ga7f8d188 Host OSVERSION: 1400073 Jail OSVERSION: 1301000 Job Id: 01 ---Begin Environment--- SHELL=/bin/csh OSVERSION=1301000 UNAME_v=FreeBSD 13.1-RELEASE-p7 1301000 UNAME_r=13.1-RELEASE-p7 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 htslib-1.17: 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=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=2.71 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=2.71 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-stron g -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-- PORTVERSION="1.17" OSREL=13.1 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib PERL_VERSION=5.32.1 PERL_VER=5.32 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/5.32 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--- 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-p7 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 BSD3CLAUSE MIT accepted by the user =========================================================================== =================================================== ===> htslib-1.17 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.19.1_1.pkg [131releng-armv7-default-job-01] Installing pkg-1.19.1_1... [131releng-armv7-default-job-01] Extracting pkg-1.19.1_1: .......... done ===> htslib-1.17 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of htslib-1.17 =========================================================================== =================================================== =========================================================================== =================================================== ===> License BSD3CLAUSE MIT accepted by the user ===> Fetching all distfiles required by htslib-1.17 for building =========================================================================== =================================================== ===> License BSD3CLAUSE MIT accepted by the user ===> Fetching all distfiles required by htslib-1.17 for building => SHA256 Checksum OK for htslib-1.17.tar.bz2. =========================================================================== =================================================== =========================================================================== =================================================== ===> License BSD3CLAUSE MIT accepted by the user ===> Fetching all distfiles required by htslib-1.17 for building ===> Extracting for htslib-1.17 => SHA256 Checksum OK for htslib-1.17.tar.bz2. =========================================================================== =================================================== =========================================================================== =================================================== ===> Patching for htslib-1.17 ===> Applying FreeBSD patches for htslib-1.17 from /usr/ports/biology/htslib/files =========================================================================== =================================================== ===> htslib-1.17 depends on package: gmake>=4.3 - not found ===> Installing existing package /packages/All/gmake-4.3_2.pkg [131releng-armv7-default-job-01] Installing gmake-4.3_2... [131releng-armv7-default-job-01] `-- Installing gettext-runtime-0.21.1... [131releng-armv7-default-job-01] | `-- Installing indexinfo-0.3.1... [131releng-armv7-default-job-01] | `-- Extracting indexinfo-0.3.1: .... done [131releng-armv7-default-job-01] `-- Extracting gettext-runtime-0.21.1: .......... done [131releng-armv7-default-job-01] Extracting gmake-4.3_2: .......... done ===> htslib-1.17 depends on package: gmake>=4.3 - found ===> Returning to build of htslib-1.17 ===> htslib-1.17 depends on package: autoconf>=2.71 - not found ===> Installing existing package /packages/All/autoconf-2.71.pkg checking for CCHmac... no checking for library containing HMAC... -lcrypto checking for library containing regcomp... none required checking whether PTHREAD_MUTEX_RECURSIVE is declared... yes 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 =========================================================================== =================================================== ===> Building for htslib-1.17 gmake[1]: Entering directory '/wrkdirs/usr/ports/biology/htslib/work/htslib-1.17' 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 "1.17"' > 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 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 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_static32x16pr_neon.o htscodecs/htscodecs/rANS_static32x16pr_neon.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_static32x16pr.o htscodecs/htscodecs/rANS_static32x16pr.c htscodecs/htscodecs/rANS_static32x16pr_neon.c:200:31: warning: implicit declaration of function 'vtrn1q_u32' is invalid in C99 [-Wimplicit-function-declaration] uint32x4_t A1_1 = vtrn1q_u32(A_1, B_1); ^ htscodecs/htscodecs/rANS_static32x16pr_neon.c:200:24: error: initializing 'uint32x4_t' (vector of 4 'uint32_t' values) with an expression of incompatible type 'int' uint32x4_t A1_1 = vtrn1q_u32(A_1, B_1); ^ ~~~~~~~~~~~~~~~~~~~~ htscodecs/htscodecs/rANS_static32x16pr_neon.c:201:24: error: initializing 'uint32x4_t' (vector of 4 'uint32_t' values) with an expression of incompatible type 'int' uint32x4_t C1_1 = vtrn1q_u32(C_1, D_1); ^ ~~~~~~~~~~~~~~~~~~~~ htscodecs/htscodecs/rANS_static32x16pr_neon.c:202:31: warning: implicit declaration of function 'vtrn2q_u32' is invalid in C99 [-Wimplicit-function-declaration] uint32x4_t A2_1 = vtrn2q_u32(A_1, B_1); ^ htscodecs/htscodecs/rANS_static32x16pr_neon.c:202:24: error: initializing 'uint32x4_t' (vector of 4 'uint32_t' values) with an expression of incompatible type 'int' uint32x4_t A2_1 = vtrn2q_u32(A_1, B_1); ^ ~~~~~~~~~~~~~~~~~~~~ htscodecs/htscodecs/rANS_static32x16pr_neon.c:203:24: error: initializing 'uint32x4_t' (vector of 4 'uint32_t' values) with an expression of incompatible type 'int' uint32x4_t C2_1 = vtrn2q_u32(C_1, D_1); ^ ~~~~~~~~~~~~~~~~~~~~ htscodecs/htscodecs/rANS_static32x16pr_neon.c:207:39: warning: implicit declaration of function 'vtrn1q_u64' is invalid in C99 [-Wimplicit-function-declaration] uint32x4_t Xmaxv1=u32_u64(vtrn1q_u64(u64_u32(A1_1),u64_u32(C1_1))); ^ htscodecs/htscodecs/rANS_static32x16pr_neon.c:207:31: error: passing 'int' to parameter of incompatible type 'uint64x2_t' (vector of 2 'uint64_t' values) uint32x4_t Xmaxv1=u32_u64(vtrn1q_u64(u64_u32(A1_1),u64_u32(C1_1))); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ htscodecs/htscodecs/rANS_static32x16pr_neon.c:205:42: note: expanded from macro 'u32_u64' #define u32_u64(x) vreinterpretq_u32_u64((x)) ^~~ /usr/lib/clang/13.0.0/include/arm_neon.h:32841:50: note: passing argument to parameter '__p0' here __ai uint32x4_t vreinterpretq_u32_u64(uint64x2_t __p0) { ^ htscodecs/htscodecs/rANS_static32x16pr_neon.c:208:39: warning: implicit declaration of function 'vtrn2q_u64' is invalid in C99 [-Wimplicit-function-declaration] uint32x4_t Biasv1=u32_u64(vtrn2q_u64(u64_u32(A1_1),u64_u32(C1_1))); ^ htscodecs/htscodecs/rANS_static32x16pr_neon.c:208:31: error: passing 'int' to parameter of incompatible type 'uint64x2_t' (vector of 2 'uint64_t' values) uint32x4_t Biasv1=u32_u64(vtrn2q_u64(u64_u32(A1_1),u64_u32(C1_1))); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ htscodecs/htscodecs/rANS_static32x16pr_neon.c:205:42: note: expanded from macro 'u32_u64' #define u32_u64(x) vreinterpretq_u32_u64((x)) ^~~ /usr/lib/clang/13.0.0/include/arm_neon.h:32841:50: note: passing argument to parameter '__p0' here __ai uint32x4_t vreinterpretq_u32_u64(uint64x2_t __p0) { ^ htscodecs/htscodecs/rANS_static32x16pr_neon.c:209:31: error: passing 'int' to parameter of incompatible type 'uint64x2_t' (vector of 2 'uint64_t' values) uint32x4_t RFv1 =u32_u64(vtrn1q_u64(u64_u32(A2_1),u64_u32(C2_1))); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ htscodecs/htscodecs/rANS_static32x16pr_neon.c:205:42: note: expanded from macro 'u32_u64' #define u32_u64(x) vreinterpretq_u32_u64((x)) ^~~ /usr/lib/clang/13.0.0/include/arm_neon.h:32841:50: note: passing argument to parameter '__p0' here __ai uint32x4_t vreinterpretq_u32_u64(uint64x2_t __p0) { ^ htscodecs/htscodecs/rANS_static32x16pr_neon.c:210:31: error: passing 'int' to parameter of incompatible type 'uint64x2_t' (vector of 2 'uint64_t' values) uint32x4_t FSv1 =u32_u64(vtrn2q_u64(u64_u32(A2_1),u64_u32(C2_1))); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ htscodecs/htscodecs/rANS_static32x16pr_neon.c:205:42: note: expanded from macro 'u32_u64' #define u32_u64(x) vreinterpretq_u32_u64((x)) ^~~ /usr/lib/clang/13.0.0/include/arm_neon.h:32841:50: note: passing argument to parameter '__p0' here __ai uint32x4_t vreinterpretq_u32_u64(uint64x2_t __p0) { ^ htscodecs/htscodecs/rANS_static32x16pr_neon.c:217:24: error: initializing 'uint32x4_t' (vector of 4 'uint32_t' values) with an expression of incompatible type 'int' uint32x4_t A1_2 = vtrn1q_u32(A_2, B_2); ^ ~~~~~~~~~~~~~~~~~~~~ htscodecs/htscodecs/rANS_static32x16pr_neon.c:218:24: error: initializing 'uint32x4_t' (vector of 4 'uint32_t' values) with an expression of incompatible type 'int' uint32x4_t C1_2 = vtrn1q_u32(C_2, D_2); ^ ~~~~~~~~~~~~~~~~~~~~ htscodecs/htscodecs/rANS_static32x16pr_neon.c:219:24: error: initializing 'uint32x4_t' (vector of 4 'uint32_t' values) with an expression of incompatible type 'int' uint32x4_t A2_2 = vtrn2q_u32(A_2, B_2); ^ ~~~~~~~~~~~~~~~~~~~~ htscodecs/htscodecs/rANS_static32x16pr_neon.c:220:24: error: initializing 'uint32x4_t' (vector of 4 'uint32_t' values) with an expression of incompatible type 'int' uint32x4_t C2_2 = vtrn2q_u32(C_2, D_2); ^ ~~~~~~~~~~~~~~~~~~~~ htscodecs/htscodecs/rANS_static32x16pr_neon.c:222:31: error: passing 'int' to parameter of incompatible type 'uint64x2_t' (vector of 2 'uint64_t' values) uint32x4_t Xmaxv2=u32_u64(vtrn1q_u64(u64_u32(A1_2),u64_u32(C1_2))); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ htscodecs/htscodecs/rANS_static32x16pr_neon.c:205:42: note: expanded from macro 'u32_u64' #define u32_u64(x) vreinterpretq_u32_u64((x)) ^~~ /usr/lib/clang/13.0.0/include/arm_neon.h:32841:50: note: passing argument to parameter '__p0' here __ai uint32x4_t vreinterpretq_u32_u64(uint64x2_t __p0) { ^ htscodecs/htscodecs/rANS_static32x16pr_neon.c:223:31: error: passing 'int' to parameter of incompatible type 'uint64x2_t' (vector of 2 'uint64_t' values) uint32x4_t Biasv2=u32_u64(vtrn2q_u64(u64_u32(A1_2),u64_u32(C1_2))); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ htscodecs/htscodecs/rANS_static32x16pr_neon.c:205:42: note: expanded from macro 'u32_u64' #define u32_u64(x) vreinterpretq_u32_u64((x)) ^~~ /usr/lib/clang/13.0.0/include/arm_neon.h:32841:50: note: passing argument to parameter '__p0' here __ai uint32x4_t vreinterpretq_u32_u64(uint64x2_t __p0) { ^ htscodecs/htscodecs/rANS_static32x16pr_neon.c:224:31: error: passing 'int' to parameter of incompatible type 'uint64x2_t' (vector of 2 'uint64_t' values) uint32x4_t RFv2 =u32_u64(vtrn1q_u64(u64_u32(A2_2),u64_u32(C2_2))); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ htscodecs/htscodecs/rANS_static32x16pr_neon.c:205:42: note: expanded from macro 'u32_u64' #define u32_u64(x) vreinterpretq_u32_u64((x)) ^~~ /usr/lib/clang/13.0.0/include/arm_neon.h:32841:50: note: passing argument to parameter '__p0' here __ai uint32x4_t vreinterpretq_u32_u64(uint64x2_t __p0) { ^ htscodecs/htscodecs/rANS_static32x16pr_neon.c:225:31: error: passing 'int' to parameter of incompatible type 'uint64x2_t' (vector of 2 'uint64_t' values) uint32x4_t FSv2 =u32_u64(vtrn2q_u64(u64_u32(A2_2),u64_u32(C2_2))); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ htscodecs/htscodecs/rANS_static32x16pr_neon.c:205:42: note: expanded from macro 'u32_u64' #define u32_u64(x) vreinterpretq_u32_u64((x)) ^~~ /usr/lib/clang/13.0.0/include/arm_neon.h:32841:50: note: passing argument to parameter '__p0' here __ai uint32x4_t vreinterpretq_u32_u64(uint64x2_t __p0) { ^ htscodecs/htscodecs/rANS_static32x16pr_neon.c:232:31: warning: implicit declaration of function 'vaddvq_u32' is invalid in C99 [-Wimplicit-function-declaration] uint32_t imask1 = vaddvq_u32(vandq_u32(Cv1, bit)); ^ htscodecs/htscodecs/rANS_static32x16pr_neon.c:237:21: warning: implicit declaration of function 'vqtbl1_u8' is invalid in C99 [-Wimplicit-function-declaration] norm1 = vqtbl1_u8(vreinterpretq_u8_u32(Rv1),vtab[imask1]); ^ htscodecs/htscodecs/rANS_static32x16pr_neon.c:237:19: error: assigning to 'uint8x8_t' (vector of 8 'uint8_t' values) from incompatible type 'int' norm1 = vqtbl1_u8(vreinterpretq_u8_u32(Rv1),vtab[imask1]); ^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ htscodecs/htscodecs/rANS_static32x16pr_neon.c:238:19: error: assigning to 'uint8x8_t' (vector of 8 'uint8_t' values) from incompatible type 'int' norm2 = vqtbl1_u8(vreinterpretq_u8_u32(Rv2),vtab[imask2]); ^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ htscodecs/htscodecs/rANS_static32x16pr_neon.c:264:31: warning: implicit declaration of function 'vmull_high_u32' is invalid in C99 [-Wimplicit-function-declaration] uint64x2_t qvh1 = vmull_high_u32(Rv1, RFv1); ^ htscodecs/htscodecs/rANS_static32x16pr_neon.c:264:24: error: initializing 'uint64x2_t' (vector of 2 'uint64_t' values) with an expression of incompatible type 'int' uint64x2_t qvh1 = vmull_high_u32(Rv1, RFv1); ^ ~~~~~~~~~~~~~~~~~~~~~~~~~ fatal error: too many errors emitted, stopping now [-ferror-limit=] 7 warnings and 20 errors generated. gmake[1]: *** [Makefile:184: htscodecs/htscodecs/rANS_static32x16pr_neon.o] Error 1 gmake[1]: *** Waiting for unfinished jobs.... gmake[1]: Leaving directory '/wrkdirs/usr/ports/biology/htslib/work/htslib-1.17' ===> 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/htslib