From nobody Tue Jul 05 17:36:03 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 515EF1D19BB2 for ; Tue, 5 Jul 2022 17:36:04 +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 4Lcqb76psyz4qWr for ; Tue, 5 Jul 2022 17:36:03 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: from beefy7.nyi.freebsd.org (beefy7.nyi.freebsd.org [IPv6:2610:1c1:1:6080::16:16]) (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 C914F196A for ; Tue, 5 Jul 2022 17:36:03 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: from beefy7.nyi.freebsd.org (localhost [127.0.0.1]) by beefy7.nyi.freebsd.org (8.16.1/8.16.1) with ESMTP id 265Ha3Xb021924 for ; Tue, 5 Jul 2022 17:36:03 GMT (envelope-from pkg-fallout@FreeBSD.org) Received: (from root@localhost) by beefy7.nyi.freebsd.org (8.16.1/8.16.1/Submit) id 265Ha3sV021923; Tue, 5 Jul 2022 17:36:03 GMT (envelope-from pkg-fallout@FreeBSD.org) Date: Tue, 5 Jul 2022 17:36:03 GMT From: pkg-fallout@FreeBSD.org Message-Id: <202207051736.265Ha3sV021923@beefy7.nyi.freebsd.org> To: pkg-fallout@FreeBSD.org Subject: [package - main-riscv64-default][biology/py-pysam] Failed for py39-pysam-0.19.1 in build ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=freebsd.org; s=dkim; t=1657042564; h=from:from:reply-to:subject:subject:date:date:message-id:message-id: to:to:cc; bh=vJiYlZ18GUNAPIxVSUQIzUl1KhUxdHePrrYcr68oFU0=; b=Nq6oSFlhCy+D+LP3sj/dljV591HqPL59/TFr0djcntmJgFY/i7juPfr0KJiCY4gxtc8t1Q 00UQ0k1eeO2ZDAcagIFt+JyOinvROy+Q5sgiB/OgSmx39CHAyVK+mViak0xzpCkPDHcgrX dUWg3/lNk+4+DFbrbKUAz1BpVh5E6C4aUMvuikjHUudvMvw0/CYTxyrLJ8JzYFwEnK4fT/ X4p5dTViN9nUrEzX7mtOwkxSergaswhK7Hxc5ZHtWXH+618dlx/qVuCIvc/weYjbkXCJLi Lw6YuwInkDYuOuKqrohZySL48QnTavX8zRFzVz+udl0AvIZ/q2Ns2JngToAHUw== ARC-Seal: i=1; s=dkim; d=freebsd.org; t=1657042564; a=rsa-sha256; cv=none; b=MUagejIHJ2IXbiRtkQQ6ZBjlj6Zf8qlsnL38SgYKgZE85YgidE0NVb33B78kVerUFS8ppg yoopKmxbathu9/MAP8H6lu8dRQPf1X/9CqEcNUv3aEXg2zxujxwaKo+cJQBIGp+HTkV8y7 ry5XdLyVA3MRGbdl90LeP0O/GgcPt2Eb7PVtqExzHqmkoAPbTP4F2UeGemsz+zrC4rHxNk btfuNrRst45bjdRdalDDaFf8tFSy5lT8+lkqs1bsBLbTxtaQBFMFMpv7ApwFc0ECMaUEeh tLfDWW6wAl8bc1RCITTXb9AgGpGVMU9nThL2u/Cq095oarXiY1Tth9O732QjZw== 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://beefy7.nyi.freebsd.org/data/main-riscv64-default/pd128a409234d_sec32fc2af5/logs/py39-pysam-0.19.1.log Build URL: http://beefy7.nyi.freebsd.org/build.html?mastername=main-riscv64-default&build=pd128a409234d_sec32fc2af5 Log: =>> Building biology/py-pysam build started at Tue Jul 5 17:29:20 UTC 2022 port directory: /usr/ports/biology/py-pysam package name: py39-pysam-0.19.1 building for: FreeBSD main-riscv64-default-job-08 14.0-CURRENT FreeBSD 14.0-CURRENT 1400063 riscv maintained by: yuri@FreeBSD.org Makefile ident: Poudriere version: 3.2.8-21-g883afb07 Host OSVERSION: 1400063 Jail OSVERSION: 1400063 Job Id: 08 ---Begin Environment--- SHELL=/bin/sh UNAME_p=riscv64 UNAME_m=riscv ABI_FILE=/usr/lib/crt1.o 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 QEMU_EMULATING=1 USER=root LIBEXECPREFIX=/usr/local/libexec/poudriere POUDRIERE_VERSION=3.2.8-21-g883afb07 MASTERMNT=/usr/local/poudriere/data/.m/main-riscv64-default/ref POUDRIERE_BUILD_TYPE=bulk PACKAGE_BUILDING=yes SAVED_TERM= PWD=/usr/local/poudriere/data/.m/main-riscv64-default/ref/.p/pool P_PORTS_FEATURES=FLAVORS SELECTED_OPTIONS MASTERNAME=main-riscv64-default SCRIPTPREFIX=/usr/local/share/poudriere OLDPWD=/usr/local/poudriere/data/.m/main-riscv64-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="/nxb-bin/usr/bin/cc -shared" PYTHONDONTWRITEBYTECODE= PYTHONOPTIMIZE= PREFIX=/usr/local LOCALBASE=/usr/local CC="/nxb-bin/usr/bin/cc" CFLAGS="-O2 -pipe -march=rv64imafdc -mabi=lp64d -fstack-protector-strong -fno-strict-aliasing " CPP="/nxb-bin/usr/bin/cpp" CPPFLAGS="" LDFLAGS=" -fstack-protector-strong " LIBS="" CXX="/nxb-bin/usr/bin/c++" CXXFLAGS="-O2 -pipe -march=rv64imafdc -mabi=lp64d -fs tack-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--- .sinclude "/etc/make.nxb.conf" USE_PACKAGE_DEPENDS=yes BATCH=yes WRKDIRPREFIX=/wrkdirs PORTSDIR=/usr/ports PACKAGES=/packages DISTDIR=/distfiles PACKAGE_BUILDING=yes PACKAGE_BUILDING_FLAVORS=yes MACHINE=riscv MACHINE_ARCH=riscv64 ARCH=${MACHINE_ARCH} #### /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_9d218390=FreeBSD clang version 14.0.5 (https://github.com/llvm/llvm-project.git llvmorg-14.0.5-0-gc12386ae247c) Target: riscv64-unknown-freebsd14.0 Thread model: posix InstalledDir: /nxb-bin/usr/bin _ALTCCVERSION_9d218390=none _CXXINTERNAL_9c45a5b1=FreeBSD clang version 14.0.5 (https://github.com/llvm/llvm-project.git llvmorg-14.0.5-0-gc12386ae247c) Target: riscv64-unknown-freebsd14.0 Thread model: posix InstalledDir: /nxb-bin/usr/bin "/nxb-bin/usr/bin/ld" "--eh-frame-hdr" "-dynamic-linker" "/libexec/ld-elf.so.1" "--enable-new-dtags" "-m" "elf64lriscv" "-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_9d218390_58173849=yes CC_OUTPUT_9d218390_9bdba57c=yes CC_OUTPUT_9d218390_6a4fe7f5=yes CC_OUTPUT_9d218390_6bcac02b=yes CC_OUTPUT_9d218390_67d20829=yes CC_OUTPUT_9d218390_bfa62e83=yes CC_OUTPUT_9d218390_f0b4d593=yes CC_OUTPUT_9d218390_308abb44=yes CC_OUTPUT_9d218390_f00456e5=yes CC_OUTPUT_9d218390_65ad290d=yes CC_OUTPUT_9d218390_f2776b26=yes CC_OUTPUT_9d218390_b2657cc3=yes CC_OUTPUT_9d218390_380987f7=yes CC_OUTPUT_9d218390_160933ec=yes CC_OUTPUT_9d218390_fb62803b=yes _OBJC_CCVERSION_9d218390=FreeBSD clang version 14.0.5 (https://github.com/llvm/llvm-project.git llvmorg-14.0.5-0-gc12386ae247c) Target: riscv64-unknown-freebsd14.0 Thread model: posix InstalledDir: /nxb-bin/usr/bin _OBJC_ALTCCVERSION_9d218390=none ARCH=riscv64 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 DISABLE_MAKE_JOBS=poudriere ---End make.conf--- ---Begin make.nxb.conf--- CC=/nxb-bin/usr/bin/cc CPP=/nxb-bin/usr/bin/cpp CXX=/nxb-bin/usr/bin/c++ NM=/nxb-bin/usr/bin/nm LD=/nxb-bin/usr/bin/ld OBJCOPY=/nxb-bin/usr/bin/objcopy SIZE=/nxb-bin/usr/bin/size STRIPBIN=/nxb-bin/usr/bin/strip SED=/nxb-bin/usr/bin/sed RANLIB=/nxb-bin/usr/bin/ranlib YACC=/nxb-bin/usr/bin/yacc MAKE=/nxb-bin/usr/bin/make STRINGS=/nxb-bin/usr/bin/strings AWK=/nxb-bin/usr/bin/awk FLEX=/nxb-bin/usr/bin/flex ---End make.nxb.conf--- --Resource limits-- cpu time (seconds, -t) unlimited file size (512-blocks, -f) unlimited data seg size (kbytes, -d) 33554432 stack size (kbytes, -s) 524288 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 pkg-static: Warning: Major OS version upgrade detected. Running "pkg bootstrap -f" recommended [main-riscv64-default-job-08] Installing pkg-1.18.3... [main-riscv64-default-job-08] 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. #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ 2 warnings generated. /nxb-bin/usr/bin/cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -march=rv64imafdc -mabi=lp64d -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -march=rv64imafdc -mabi=lp64d -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/pysam_util.c -o build/temp.freebsd-14.0-CURRENT-riscv-cpython-39/pysam/pysam_util.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement /nxb-bin/usr/bin/cc -shared -fstack-protector-strong -O2 -pipe -march=rv64imafdc -mabi=lp64d -fstack-protector-strong -fno-strict-aliasing build/temp.freebsd-14.0-CURRENT-riscv-cpython-39/pysam/libcutils.o build/temp.freebsd-14.0-CURRENT-riscv-cpython-39/pysam/pysam_util.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-riscv-3.9/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -L/usr/local/lib -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-39 -lcsamtools.cpython-39 -lcbcftools.cpython-39 -o build/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam/libcutils.cpython-39.so -Wl,-rp ath,$ORIGIN building 'pysam.libcalignmentfile' extension /nxb-bin/usr/bin/cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -march=rv64imafdc -mabi=lp64d -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -march=rv64imafdc -mabi=lp64d -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/libcalignmentfile.c -o build/temp.freebsd-14.0-CURRENT-riscv-cpython-39/pysam/libcalignmentfile.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 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. /nxb-bin/usr/bin/cc -shared -fstack-protector-strong -O2 -pipe -march=rv64imafdc -mabi=lp64d -fstack-protector-strong -fno-strict-aliasing build/temp.freebsd-14.0-CURRENT-riscv-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-riscv-3.9/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-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-riscv-cpython-39/pysam/libcalignmentfile.cpython-39.so -Wl,-rpath,$ORIGIN building 'pysam.libcsamfile' extension /nxb-bin/usr/bin/cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -march=rv64imafdc -mabi=lp64d -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -march=rv64imafdc -mabi=lp64d -fstack-protector-strong -fno-strict-aliasing -fPIC -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/htslib -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/samtools -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/samtools/lz4 -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/bcftools -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/pysam -I/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1 -I/usr/local/include/python3.9 -c pysam/libcsamfile.c -o build/temp.freebsd-14.0-CURRENT-riscv-cpython-39/pysam/libcsamfile.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement /nxb-bin/usr/bin/cc -shared -fstack-protector-strong -O2 -pipe -march=rv64imafdc -mabi=lp64d -fstack-protector-strong -fno-strict-aliasing build/temp.freebsd-14.0-CURRENT-riscv-cpython-39/pysam/libcsamfile.o -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/pysam -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/pysam -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1 -L/wrkdirs/usr/ports/biology/py-pysam/work-py39/pysam-0.19.1/build/lib.freebsd-14.0-CURRENT-riscv-3.9/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -L/usr/local/lib -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-39 -lcutils.cpython-39 -o build/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam/libcsamfile .cpython-39.so -Wl,-rpath,$ORIGIN building 'pysam.libcalignedsegment' extension /nxb-bin/usr/bin/cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -march=rv64imafdc -mabi=lp64d -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -march=rv64imafdc -mabi=lp64d -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-riscv-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. /nxb-bin/usr/bin/cc -shared -fstack-protector-strong -O2 -pipe -march=rv64imafdc -mabi=lp64d -fstack-protector-strong -fno-strict-aliasing build/temp.freebsd-14.0-CURRENT-riscv-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-riscv-3.9/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-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-riscv-cpython-39/pysam/libcalignedsegment.cpython-39.so -Wl,-rpath,$ORIGIN building 'pysam.libctabix' extension /nxb-bin/usr/bin/cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -march=rv64imafdc -mabi=lp64d -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -march=rv64imafdc -mabi=lp64d -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-riscv-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. /nxb-bin/usr/bin/cc -shared -fstack-protector-strong -O2 -pipe -march=rv64imafdc -mabi=lp64d -fstack-protector-strong -fno-strict-aliasing build/temp.freebsd-14.0-CURRENT-riscv-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-riscv-3.9/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-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-riscv-cpython-39/pysam/libctabix.cpython-39.so -Wl,-rpath,$ORIGIN building 'pysam.libcfaidx' extension /nxb-bin/usr/bin/cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -march=rv64imafdc -mabi=lp64d -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -march=rv64imafdc -mabi=lp64d -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-riscv-cpython-39/pysam/libcfaidx.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement /nxb-bin/usr/bin/cc -shared -fstack-protector-strong -O2 -pipe -march=rv64imafdc -mabi=lp64d -fstack-protector-strong -fno-strict-aliasing build/temp.freebsd-14.0-CURRENT-riscv-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-riscv-3.9/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cp ython-39/pysam -L/usr/local/lib -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-39 -lcutils.cpython-39 -o build/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam/libcfaidx.cpython-39.so -Wl,-rpath,$ORIGIN building 'pysam.libcbcf' extension /nxb-bin/usr/bin/cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -march=rv64imafdc -mabi=lp64d -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -march=rv64imafdc -mabi=lp64d -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-riscv-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. /nxb-bin/usr/bin/cc -shared -fstack-protector-strong -O2 -pipe -march=rv64imafdc -mabi=lp64d -fstack-protector-strong -fno-strict-aliasing build/temp.freebsd-14.0-CURRENT-riscv-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-riscv-3.9/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpyt hon-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-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-riscv-cpython-39/pysam/libcbcf.cpython-39.so -Wl,-rpath,$ORIGIN building 'pysam.libcbgzf' extension /nxb-bin/usr/bin/cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -march=rv64imafdc -mabi=lp64d -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -march=rv64imafdc -mabi=lp64d -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-riscv-cpython-39/pysam/libcbgzf.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement /nxb-bin/usr/bin/cc -shared -fstack-protector-strong -O2 -pipe -march=rv64imafdc -mabi=lp64d -fstack-protector-strong -fno-strict-aliasing build/temp.freebsd-14.0-CURRENT-riscv-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-riscv-3.9/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpy thon-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-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-riscv-cpython-39/pysam/libcbgzf.cpython-39.so -Wl,-rpath,$ORIGIN building 'pysam.libctabixproxies' extension /nxb-bin/usr/bin/cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -march=rv64imafdc -mabi=lp64d -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -march=rv64imafdc -mabi=lp64d -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-riscv-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. /nxb-bin/usr/bin/cc -shared -fstack-protector-strong -O2 -pipe -march=rv64imafdc -mabi=lp64d -fstack-protector-strong -fno-strict-aliasing build/temp.freebsd-14.0-CURRENT-riscv-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-riscv-3.9/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-r iscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-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-riscv-cpython-39/pysam/libctabixproxies.cpython-39.so -Wl,-rpath,$ORIGIN building 'pysam.libcvcf' extension /nxb-bin/usr/bin/cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -march=rv64imafdc -mabi=lp64d -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -march=rv64imafdc -mabi=lp64d -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-riscv-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. /nxb-bin/usr/bin/cc -shared -fstack-protector-strong -O2 -pipe -march=rv64imafdc -mabi=lp64d -fstack-protector-strong -fno-strict-aliasing build/temp.freebsd-14.0-CURRENT-riscv-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-riscv-3.9/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpyt hon-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-cpython-39/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-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-riscv-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): .Lline_table_start0 error: symbols defined in multiple extensions *** Error code 1 Stop. make: stopped in /usr/ports/biology/py-pysam