From nobody Thu Jul 14 15:53:44 2022 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 4LkJtx1bTNz2pS4W for ; Thu, 14 Jul 2022 15:53:45 +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 4LkJtw61Grz4HGx; Thu, 14 Jul 2022 15:53:44 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: from ampere2.nyi.freebsd.org (ampere2.nyi.freebsd.org [IPv6:2610:1c1:1:6080::16:24]) (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 4LkJtw52txz17tr; Thu, 14 Jul 2022 15:53:44 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: from ampere2.nyi.freebsd.org (localhost [127.0.0.1]) by ampere2.nyi.freebsd.org (8.16.1/8.16.1) with ESMTP id 26EFrin4050176; Thu, 14 Jul 2022 15:53:44 GMT (envelope-from pkg-fallout@FreeBSD.org) Received: (from root@localhost) by ampere2.nyi.freebsd.org (8.16.1/8.16.1/Submit) id 26EFriwd050175; Thu, 14 Jul 2022 15:53:44 GMT (envelope-from pkg-fallout@FreeBSD.org) Date: Thu, 14 Jul 2022 15:53:44 GMT From: pkg-fallout@FreeBSD.org Message-Id: <202207141553.26EFriwd050175@ampere2.nyi.freebsd.org> To: yuri@FreeBSD.org Subject: [package - main-arm64-default][biology/py-pysam] Failed for py39-pysam-0.19.1 in build Cc: pkg-fallout@FreeBSD.org ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=freebsd.org; s=dkim; t=1657814024; h=from:from:reply-to:subject:subject:date:date:message-id:message-id: to:to:cc:cc; bh=PMOCgnauc/5BNtwqwyPbqM50VoRnqmFrgky4gbnoHOM=; b=TaI/kNmioVm1PfuP+dZ/PX7TuCYrv8qt42F5NCqb9Pp8tDZCmQB68M757M0FJ9MCoKn7H5 WEQEqqp/NM1D1l6gjMBhxcuzvVe1AFb4ieFr7rH++UbLl1jqJ5+WTaGBrI0IT+bu5oJnhX /yCZNE02J9GJYJ3aF64L6jkZxAMnQE5qSpGDE7w+qmK//cUxZrjj0e6sUxnsQkGqutv41C 9IhhoxOt0OpIqFCT6tNkVxtvsg+/lp1e8t9OIj3GIFsa6p7YWpDfKUOw13kbSFh25z16be w3v/S2O6k+e2ICK2+G1Zsa1+9Sooo7P9I02c82Rwi7POFs2AuNF+sfGJvu0K2Q== ARC-Seal: i=1; s=dkim; d=freebsd.org; t=1657814024; a=rsa-sha256; cv=none; b=ZlCzoNEMqP/9PP9wQBVLFsCfVVZ0HeSehkQkMvut8mXyLaQFPzC86J8wXCwXEsGxrdTssl FDBe16sfNFqrdREcNEu9sN0PzuAuew+DIB4Cj6kGNOhc7QJ7SJ7v5TejmjCu7tNuZStGI1 H1tFy0es/FLmUamC/Wjvu673OkFqeCP+3LYkGivrhe4/gz75LSk1IrOb9wcp0vfUWaYHJx DbM8k3zhBx7YM4dEOOu7ovYU6ggSQBZG+L3Q8N61MLQ++oT6m1kh4SRTDnco29s6xxRjeF N3Z7XyTB96R2TeyIMcztqUKb5tgNn4A3PSPVzvMfSnWOb9iOfElpme5uzXYSww== ARC-Authentication-Results: i=1; mx1.freebsd.org; none 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: yuri@FreeBSD.org Log URL: http://ampere2.nyi.freebsd.org/data/main-arm64-default/pcfc0b7a81f2e_s7e45839aca/logs/py39-pysam-0.19.1.log Build URL: http://ampere2.nyi.freebsd.org/build.html?mastername=main-arm64-default&build=pcfc0b7a81f2e_s7e45839aca Log: =>> Building biology/py-pysam build started at Thu Jul 14 15:44:40 UTC 2022 port directory: /usr/ports/biology/py-pysam package name: py39-pysam-0.19.1 building for: FreeBSD main-arm64-default-job-07 14.0-CURRENT FreeBSD 14.0-CURRENT 1400063 arm64 maintained by: yuri@FreeBSD.org Makefile ident: Poudriere version: 3.2.8-21-g883afb07 Host OSVERSION: 1400063 Jail OSVERSION: 1400063 Job Id: 07 ---Begin Environment--- SHELL=/bin/sh OSVERSION=1400063 UNAME_v=FreeBSD 14.0-CURRENT 1400063 UNAME_r=14.0-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 LOCALBASE=/usr/local USER=root LIBEXECPREFIX=/usr/local/libexec/poudriere POUDRIERE_VERSION=3.2.8-21-g883afb07 MASTERMNT=/usr/local/poudriere/data/.m/main-arm64-default/ref POUDRIERE_BUILD_TYPE=bulk PACKAGE_BUILDING=yes SAVED_TERM= PWD=/usr/local/poudriere/data/.m/main-arm64-default/ref/.p/pool P_PORTS_FEATURES=FLAVORS SELECTED_OPTIONS MASTERNAME=main-arm64-default SCRIPTPREFIX=/usr/local/share/poudriere OLDPWD=/usr/local/poudriere/data/.m/main-arm64-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=py39 DEPENDS_ARGS= MAKE_ARGS= FLAVOR=py39 ---End Poudriere Port Flags/Env--- ---Begin OPTIONS List--- ---End OPTIONS List--- --MAINTAINER-- yuri@FreeBSD.org --End MAINTAINER-- --CONFIGURE_ARGS-- --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- MAKE=gmake PYTHON="/usr/local/bin/python3.9" XDG_DATA_HOME=/wrkdirs/usr/ports/biology/py-pysam/work-py39 XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/py-pysam/work-py39 XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/py-pysam/work-py39/.cache HOME=/wrkdirs/usr/ports/biology/py-pysam/work-py39 TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/py-pysam/work-py39/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/py-pysam/work-py39/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh --End CONFIGURE_ENV-- --MAKE_ENV-- XDG_DATA_HOME=/wrkdirs/usr/ports/biology/py-pysam/work-py39 XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/py-pysam/work-py39 XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/py-pysam/work-py39/.cache HOME=/wrkdirs/usr/ports/biology/py-pysam/work-py39 TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/py-pysam/work-py39/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/py-pysam/work-py39/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/libdata/pkgconfig NO_PIE=yes MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES LDSHARED="cc -shared" PYTHONDONTWRITEBYTECODE= PYTHONOPTIMIZE= PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" -fstack-protector-strong " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB= "install -s -m 0644" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" --End MAKE_ENV-- --PLIST_SUB-- PYTHON_INCLUDEDIR=include/python3.9 PYTHON_LIBDIR=lib/python3.9 PYTHON_PLATFORM=freebsd14 PYTHON_SITELIBDIR=lib/python3.9/site-packages PYTHON_SUFFIX=39 PYTHON_EXT_SUFFIX=.cpython-39 PYTHON_VER=3.9 PYTHON_VERSION=python3.9 PYTHON2="@comment " PYTHON3="" OSREL=14.0 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/pysam" EXAMPLESDIR="share/examples/pysam" DATADIR="share/pysam" WWWDIR="www/pysam" ETCDIR="etc/pysam" --End PLIST_SUB-- --SUB_LIST-- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/pysam DOCSDIR=/usr/local/share/doc/pysam EXAMPLESDIR=/usr/local/share/examples/pysam WWWDIR=/usr/local/www/pysam ETCDIR=/usr/local/etc/pysam --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 14.0.5 (https://github.com/llvm/llvm-project.git llvmorg-14.0.5-0-gc12386ae247c) Target: aarch64-unknown-freebsd14.0 Thread model: posix InstalledDir: /usr/bin _ALTCCVERSION_921dbbb2=none _CXXINTERNAL_acaad9ca=FreeBSD clang version 14.0.5 (https://github.com/llvm/llvm-project.git llvmorg-14.0.5-0-gc12386ae247c) Target: aarch64-unknown-freebsd14.0 Thread model: posix InstalledDir: /usr/bin "/usr/bin/ld" "--eh-frame-hdr" "-dynamic-linker" "/libexec/ld-elf.so.1" "--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_b2657cc3=yes CC_OUTPUT_921dbbb2_380987f7=yes CC_OUTPUT_921dbbb2_160933ec=yes CC_OUTPUT_921dbbb2_fb62803b=yes _OBJC_CCVERSION_921dbbb2=FreeBSD clang version 14.0.5 (https://github.com/llvm/llvm-project.git llvmorg-14.0.5-0-gc12386ae247c) Target: aarch64-unknown-freebsd14.0 Thread model: posix InstalledDir: /usr/bin _OBJC_ALTCCVERSION_921dbbb2=none ARCH=aarch64 OPSYS=FreeBSD _OSRELEASE=14.0-CURRENT OSREL=14.0 OSVERSION=1400063 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 MIT accepted by the user =========================================================================== =================================================== ===> py39-pysam-0.19.1 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.18.3.pkg [main-arm64-default-job-07] Installing pkg-1.18.3... [main-arm64-default-job-07] Extracting pkg-1.18.3: .......... done ===> py39-pysam-0.19.1 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of py39-pysam-0.19.1 =========================================================================== =================================================== =========================================================================== =================================================== ===> License MIT accepted by the user ===> Fetching all distfiles required by py39-pysam-0.19.1 for building =========================================================================== =================================================== ===> License MIT accepted by the user ===> Fetching all distfiles required by py39-pysam-0.19.1 for building => SHA256 Checksum OK for pysam-0.19.1.tar.gz. =========================================================================== =================================================== =========================================================================== =================================================== ===> License MIT accepted by the user ===> Fetching all distfiles required by py39-pysam-0.19.1 for building ===> Extracting for py39-pysam-0.19.1 => SHA256 Checksum OK for pysam-0.19.1.tar.gz. =========================================================================== =================================================== =========================================================================== =================================================== ===> Patching for py39-pysam-0.19.1 ===> Applying FreeBSD patches for py39-pysam-0.19.1 from /usr/ports/biology/py-pysam/files =========================================================================== =================================================== ===> py39-pysam-0.19.1 depends on package: gmake>=4.3 - not found ===> Installing existing package /packages/All/gmake-4.3_2.pkg [main-arm64-default-job-07] Installing gmake-4.3_2... [main-arm64-default-job-07] `-- Installing gettext-runtime-0.21... [main-arm64-default-job-07] | `-- Installing indexinfo-0.3.1... [main-arm64-default-job-07] | `-- Extracting indexinfo-0.3.1: .... done [main-arm64-default-job-07] `-- Extracting gettext-runtime-0.21: .......... done [main-arm64-default-job-07] Extracting gmake-4.3_2: .......... done ===> py39-pysam-0.19.1 depends on package: gmake>=4.3 - found ===> Returning to build of py39-pysam-0.19.1 ===> py39-pysam-0.19.1 depends on executable: cython-3.9 - not found ===> Installing existing package /packages/All/py39-cython-0.29.30_1.pkg [main-arm64-default-job-07] Installing py39-cython-0.29.30_1... [main-arm64-default-job-07] `-- Installing py39-setuptools-63.1.0... [main-arm64-default-job-07] | `-- Installing python39-3.9.13... [main-arm64-default-job-07] | | `-- Installing libffi-3.4.2... [main-arm64-default-job-07] | | `-- Extracting libffi-3.4.2: .......... done [main-arm64-default-job-07] | | `-- Installing mpdecimal-2.5.1... [main-arm64-default-job-07] | | `-- Extracting mpdecimal-2.5.1: .......... done pysam/libcalignmentfile.c:43776:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libcalignmentfile.c:351:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ pysam/libcalignmentfile.c:43787:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libcalignmentfile.c:351:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ pysam/libcalignmentfile.c:44267:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libcalignmentfile.c:351:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ pysam/libcalignmentfile.c:44278:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libcalignmentfile.c:351:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ 4 warnings generated. cc -shared -fstack-protector-strong -O2 -pipe -fstack-protector-strong -fno-strict-aliasing build/temp.freebsd-14.0-CURRENT-arm64-cpython-39/pysam/libcalignmentfile.o -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/pysam -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/pysam -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1 -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/build/lib.freebsd-14.0-CURRENT-arm64-3.9/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -L/usr/local/lib -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-39 -lcutils.cpython-39 -o build/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam/libcalignmentfile.cpython-39.so -Wl,-rpath,$ORIGIN building 'pysam.libcsamfile' extension cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/htslib -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/samtools -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/samtools/lz4 -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/bcftools -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/pysam -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1 -I/usr/local/include/python3.9 -c pysam/libcsamfile.c -o build/temp.freebsd-14.0-CURRENT-arm64-cpython-39/pysam/libcsamfile.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement cc -shared -fstack-protector-strong -O2 -pipe -fstack-protector-strong -fno-strict-aliasing build/temp.freebsd-14.0-CURRENT-arm64-cpython-39/pysam/libcsamfile.o -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/pysam -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/pysam -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1 -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/build/lib.freebsd-14.0-CURRENT-arm64-3.9/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -L/usr/local/lib -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-39 -lcutils.cpython-39 -o build/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam/libcsamfile.cpython-39.so -Wl,-rpath,$ORIGIN building 'pysam.libcalignedsegment' extension cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/htslib -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/samtools -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/samtools/lz4 -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/bcftools -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/pysam -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1 -I/usr/local/include/python3.9 -c pysam/libcalignedsegment.c -o build/temp.freebsd-14.0-CURRENT-arm64-cpython-39/pysam/libcalignedsegment.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement pysam/libcalignedsegment.c:62974:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libcalignedsegment.c:351:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ pysam/libcalignedsegment.c:62985:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libcalignedsegment.c:351:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ pysam/libcalignedsegment.c:64480:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libcalignedsegment.c:351:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ pysam/libcalignedsegment.c:64491:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libcalignedsegment.c:351:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ pysam/libcalignedsegment.c:64846:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libcalignedsegment.c:351:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ pysam/libcalignedsegment.c:64857:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libcalignedsegment.c:351:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ 6 warnings generated. cc -shared -fstack-protector-strong -O2 -pipe -fstack-protector-strong -fno-strict-aliasing build/temp.freebsd-14.0-CURRENT-arm64-cpython-39/pysam/libcalignedsegment.o -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/pysam -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/pysam -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1 -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/build/lib.freebsd-14.0-CURRENT-arm64-3.9/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -L/usr/local/lib -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-39 -lcutils.cpython-39 -o build/lib.freebsd-14.0-CURRENT-arm64-cpython-39/p ysam/libcalignedsegment.cpython-39.so -Wl,-rpath,$ORIGIN building 'pysam.libctabix' extension cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/htslib -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/samtools -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/samtools/lz4 -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/bcftools -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/pysam -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1 -I/usr/local/include/python3.9 -c pysam/libctabix.c -o build/temp.freebsd-14.0-CURRENT-arm64-cpython-39/pysam/libctabix.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement pysam/libctabix.c:24482:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libctabix.c:351:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ pysam/libctabix.c:24493:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libctabix.c:351:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ 2 warnings generated. cc -shared -fstack-protector-strong -O2 -pipe -fstack-protector-strong -fno-strict-aliasing build/temp.freebsd-14.0-CURRENT-arm64-cpython-39/pysam/libctabix.o -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/pysam -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/pysam -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1 -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/build/lib.freebsd-14.0-CURRENT-arm64-3.9/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -L/usr/local/lib -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-39 -lcutils.cpython-39 -o bu ild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam/libctabix.cpython-39.so -Wl,-rpath,$ORIGIN building 'pysam.libcfaidx' extension cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/htslib -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/samtools -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/samtools/lz4 -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/bcftools -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/pysam -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1 -I/usr/local/include/python3.9 -c pysam/libcfaidx.c -o build/temp.freebsd-14.0-CURRENT-arm64-cpython-39/pysam/libcfaidx.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement cc -shared -fstack-protector-strong -O2 -pipe -fstack-protector-strong -fno-strict-aliasing build/temp.freebsd-14.0-CURRENT-arm64-cpython-39/pysam/libcfaidx.o -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/pysam -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/pysam -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1 -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/build/lib.freebsd-14.0-CURRENT-arm64-3.9/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -L/usr/local/lib -lz -llzma -lbz 2 -lz -lm -lchtslib.cpython-39 -lcutils.cpython-39 -o build/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam/libcfaidx.cpython-39.so -Wl,-rpath,$ORIGIN building 'pysam.libcbcf' extension cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/htslib -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/samtools -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/samtools/lz4 -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/bcftools -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/pysam -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1 -I/usr/local/include/python3.9 -c pysam/libcbcf.c -o build/temp.freebsd-14.0-CURRENT-arm64-cpython-39/pysam/libcbcf.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement pysam/libcbcf.c:90948:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libcbcf.c:350:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ pysam/libcbcf.c:90959:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libcbcf.c:350:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ pysam/libcbcf.c:92795:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libcbcf.c:350:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ pysam/libcbcf.c:92806:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libcbcf.c:350:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ 4 warnings generated. cc -shared -fstack-protector-strong -O2 -pipe -fstack-protector-strong -fno-strict-aliasing build/temp.freebsd-14.0-CURRENT-arm64-cpython-39/pysam/libcbcf.o -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/pysam -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/pysam -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1 -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/build/lib.freebsd-14.0-CURRENT-arm64-3.9/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-a rm64-cpython-39/pysam -L/usr/local/lib -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-39 -lcutils.cpython-39 -o build/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam/libcbcf.cpython-39.so -Wl,-rpath,$ORIGIN building 'pysam.libcbgzf' extension cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/htslib -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/samtools -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/samtools/lz4 -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/bcftools -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/pysam -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1 -I/usr/local/include/python3.9 -c pysam/libcbgzf.c -o build/temp.freebsd-14.0-CURRENT-arm64-cpython-39/pysam/libcbgzf.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement cc -shared -fstack-protector-strong -O2 -pipe -fstack-protector-strong -fno-strict-aliasing build/temp.freebsd-14.0-CURRENT-arm64-cpython-39/pysam/libcbgzf.o -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/pysam -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/pysam -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1 -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/build/lib.freebsd-14.0-CURRENT-arm64-3.9/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT- arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -L/usr/local/lib -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-39 -lcutils.cpython-39 -o build/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam/libcbgzf.cpython-39.so -Wl,-rpath,$ORIGIN building 'pysam.libctabixproxies' extension cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/htslib -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/samtools -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/samtools/lz4 -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/bcftools -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/pysam -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1 -I/usr/local/include/python3.9 -c pysam/libctabixproxies.c -o build/temp.freebsd-14.0-CURRENT-arm64-cpython-39/pysam/libctabixproxies.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement pysam/libctabixproxies.c:22477:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libctabixproxies.c:336:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ pysam/libctabixproxies.c:22488:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libctabixproxies.c:336:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ 2 warnings generated. cc -shared -fstack-protector-strong -O2 -pipe -fstack-protector-strong -fno-strict-aliasing build/temp.freebsd-14.0-CURRENT-arm64-cpython-39/pysam/libctabixproxies.o -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/pysam -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/pysam -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1 -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/build/lib.freebsd-14.0-CURRENT-arm64-3.9/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0- CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -L/usr/local/lib -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-39 -lcutils.cpython-39 -o build/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam/libctabixproxies.cpython-39.so -Wl,-rpath,$ORIGIN building 'pysam.libcvcf' extension cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/htslib -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/samtools -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/samtools/lz4 -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/bcftools -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/pysam -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1 -I/usr/local/include/python3.9 -c pysam/libcvcf.c -o build/temp.freebsd-14.0-CURRENT-arm64-cpython-39/pysam/libcvcf.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement pysam/libcvcf.c:35701:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libcvcf.c:351:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ pysam/libcvcf.c:35712:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libcvcf.c:351:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ pysam/libcvcf.c:36710:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libcvcf.c:351:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ pysam/libcvcf.c:36721:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libcvcf.c:351:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ pysam/libcvcf.c:37042:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libcvcf.c:351:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ pysam/libcvcf.c:37053:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libcvcf.c:351:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ pysam/libcvcf.c:37177:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libcvcf.c:351:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ pysam/libcvcf.c:37188:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libcvcf.c:351:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ 8 warnings generated. cc -shared -fstack-protector-strong -O2 -pipe -fstack-protector-strong -fno-strict-aliasing build/temp.freebsd-14.0-CURRENT-arm64-cpython-39/pysam/libcvcf.o -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/pysam -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/pysam -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1 -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/build/lib.freebsd-14.0-CURRENT-arm64-3.9/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-a rm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam -L/usr/local/lib -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-39 -lcutils.cpython-39 -o build/lib.freebsd-14.0-CURRENT-arm64-cpython-39/pysam/libcvcf.cpython-39.so -Wl,-rpath,$ORIGIN conflicting symbol (libchtslib libcsamtools libcbcftools libcutils libcalignmentfile libcsamfile libcalignedsegment libctabix libcfaidx libcbcf libcbgzf libctabixproxies libcvcf): $d.5 conflicting symbol (libchtslib libcsamtools libcbcftools libcutils libcalignmentfile libcsamfile libcalignedsegment libctabix libcfaidx libcbcf libcbgzf libctabixproxies libcvcf): $d.4 conflicting symbol (libchtslib libcsamtools libcbcftools libcutils libcalignmentfile libcsamfile libcalignedsegment libctabix libcfaidx libcbcf libcbgzf libctabixproxies libcvcf): $d.8 conflicting symbol (libchtslib libcsamtools libcbcftools libcutils libcalignmentfile libcsamfile libcalignedsegment libctabix libcfaidx libcbcf libcbgzf libctabixproxies libcvcf): $d.2 conflicting symbol (libchtslib libcsamtools libcbcftools libcutils libcalignmentfile libcsamfile libcalignedsegment libctabix libcfaidx libcbcf libcbgzf libctabixproxies libcvcf): $d.6 conflicting symbol (libchtslib libcsamtools libcbcftools libcutils libcalignmentfile libcsamfile libcalignedsegment libctabix libcfaidx libcbcf libcbgzf libctabixproxies libcvcf): $d.3 conflicting symbol (libchtslib libcsamtools libcbcftools libcutils libcalignmentfile libcsamfile libcalignedsegment libctabix libcfaidx libcbcf libcbgzf libctabixproxies libcvcf): $d.9 conflicting symbol (libchtslib libcsamtools libcbcftools libcutils libcalignmentfile libcsamfile libcalignedsegment libctabix libcfaidx libcbcf libcbgzf libctabixproxies libcvcf): $d.1 error: symbols defined in multiple extensions *** Error code 1 Stop. make: stopped in /usr/ports/biology/py-pysam