From nobody Wed May 18 02:04:34 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 5174F1B3A38A for ; Wed, 18 May 2022 02:04:35 +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 4L2xBW0DHWz3lNm for ; Wed, 18 May 2022 02:04:35 +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 DB9B2203E9 for ; Wed, 18 May 2022 02:04:34 +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 24I24YDY014055 for ; Wed, 18 May 2022 02:04:34 GMT (envelope-from pkg-fallout@FreeBSD.org) Received: (from root@localhost) by beefy7.nyi.freebsd.org (8.16.1/8.16.1/Submit) id 24I24Y1j014053; Wed, 18 May 2022 02:04:34 GMT (envelope-from pkg-fallout@FreeBSD.org) Date: Wed, 18 May 2022 02:04:34 GMT From: pkg-fallout@FreeBSD.org Message-Id: <202205180204.24I24Y1j014053@beefy7.nyi.freebsd.org> To: pkg-fallout@FreeBSD.org Subject: [package - main-riscv64-default][biology/py-pysam] Failed for py38-pysam-0.19.0 in build ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=freebsd.org; s=dkim; t=1652839475; h=from:from:reply-to:subject:subject:date:date:message-id:message-id: to:to:cc; bh=N2vblZTeBETmJOFUFGBwurVQQhwmhTq+E1NBkUDfWwQ=; b=Nzqa2HdJd+dXy9J8Wu5A1JfxPjm39lPbbfTzJUQMFHpr4nuWB66lZ1ZW+qivWdyRkFVuDk 0GdH0qs9tBVK9rKVdVndf+yfOih56RCUQvZ44vPwbpks2ESBnvDqOosoL1UeiEQyf2lloR QJ3WklcgaxaC+ldvoTsDJm5ItYxjEcPs4HZvPnNdcw/vXLp4mCyukauSBSwO1vWXhmeN5r MimyNkAI2s+Pt9vNq4J7OnQ46ymz+sTIimtO6P0Y4v3oo8d2SF8dHUsuOPjK9csdZz0f/R r5zBJVHfHxDZHqPctbhUR9QYMtLQbiH52ik2NTExEL2pk/7B+1dITfsgH/wEAA== ARC-Seal: i=1; s=dkim; d=freebsd.org; t=1652839475; a=rsa-sha256; cv=none; b=vxft3dF+xVDzA8dSpNemezKZ1U9i+4/Ae3rSfC1jMXWpzT5Et3tRyhstC5lotg7u9J9+FO sybPUX8fJS/CRLLBdq0TgMQX5LIt2UW0H3I69fUCJqyw8eAN0ZfhylxNYDknFId79W0b17 an1V7uRnWkuvwum+RseFvJBwicFixGVa51eosONoDjwyQT/D+LADBAYRlo0TmndXXkp5zy qBy0WZo3YgS12L6F3+Rr7kp8W1rmXCyLBm7ifUJqKwIcwoxR85X9OAPEHxQ/G+mnBTUy0h g2Fj9F8MJG07fUOdIszWqnIH0umuJTj09HH8b6ezg/Z9GcaUqRQ3fWWcmdEV5A== 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/pbc1f9b826e47_saa9f97af93/logs/py38-pysam-0.19.0.log Build URL: http://beefy7.nyi.freebsd.org/build.html?mastername=main-riscv64-default&build=pbc1f9b826e47_saa9f97af93 Log: =>> Building biology/py-pysam build started at Wed May 18 01:58:41 UTC 2022 port directory: /usr/ports/biology/py-pysam package name: py38-pysam-0.19.0 building for: FreeBSD main-riscv64-default-job-05 14.0-CURRENT FreeBSD 14.0-CURRENT 1400059 riscv maintained by: yuri@FreeBSD.org Makefile ident: Poudriere version: 3.2.8-21-g883afb07 Host OSVERSION: 1400050 Jail OSVERSION: 1400059 Job Id: 05 !!! Jail is newer than host. (Jail: 1400059, Host: 1400050) !!! !!! This is not supported. !!! !!! Host kernel must be same or newer than jail. !!! !!! Expect build failures. !!! ---Begin Environment--- SHELL=/bin/sh UNAME_p=riscv64 UNAME_m=riscv ABI_FILE=/usr/lib/crt1.o OSVERSION=1400059 UNAME_v=FreeBSD 14.0-CURRENT 1400059 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=py38 DEPENDS_ARGS= MAKE_ARGS= FLAVOR=py38 ---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/python3.8" XDG_DATA_HOME=/wrkdirs/usr/ports/biology/py-pysam/work-py38 XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/py-pysam/work-py38 XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/py-pysam/work-py38/.cache HOME=/wrkdirs/usr/ports/biology/py-pysam/work-py38 TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/py-pysam/work-py38/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin SHELL=/bin/sh CONFIG_SHELL=/bin/sh --End CONFIGURE_ENV-- --MAKE_ENV-- XDG_DATA_HOME=/wrkdirs/usr/ports/biology/py-pysam/work-py38 XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/py-pysam/work-py38 XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/py-pysam/work-py38/.cache HOME=/wrkdirs/usr/ports/biology/py-pysam/work-py38 TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/py-pysam/work-py38/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin 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 -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/python3.8 PYTHON_LIBDIR=lib/python3.8 PYTHON_PLATFORM=freebsd14 PYTHON_SITELIBDIR=lib/python3.8/site-packages PYTHON_SUFFIX=38 PYTHON_EXT_SUFFIX=.cpython-38 PYTHON_VER=3.8 PYTHON_VERSION=python3.8 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 14.0.3 (https://github.com/llvm/llvm-project.git llvmorg-14.0.3-0-g1f9140064dfb) Target: riscv64-unknown-freebsd14.0 Thread model: posix InstalledDir: /nxb-bin/usr/bin _ALTCCVERSION_9d218390=none _CXXINTERNAL_9c45a5b1=FreeBSD clang version 14.0.3 (https://github.com/llvm/llvm-project.git llvmorg-14.0.3-0-g1f9140064dfb) 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 14.0.3 (https://github.com/llvm/llvm-project.git llvmorg-14.0.3-0-g1f9140064dfb) 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=1400059 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 =========================================================================== =================================================== ===> py38-pysam-0.19.0 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.17.5_1.pkg pkg-static: Warning: Major OS version upgrade detected. Running "pkg bootstrap -f" recommended [main-riscv64-default-job-05] Installing pkg-1.17.5_1... [main-riscv64-default-job-05] Extracting pkg-1.17.5_1: .......... done ===> py38-pysam-0.19.0 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of py38-pysam-0.19.0 =========================================================================== =================================================== =========================================================================== =================================================== ===> License MIT accepted by the user ===> Fetching all distfiles required by py38-pysam-0.19.0 for building =========================================================================== =================================================== ===> License MIT accepted by the user #define Py_DEPRECATED(VERSION_UNUSED) __attribute__((__deprecated__)) ^ pysam/libctabixproxies.c:18219:3: warning: 'tp_print' is deprecated [-Wdeprecated-declarations] 0, /*tp_print*/ ^ /usr/local/include/python3.8/cpython/object.h:260:5: note: 'tp_print' has been explicitly marked deprecated here Py_DEPRECATED(3.8) int (*tp_print)(PyObject *, FILE *, int); ^ /usr/local/include/python3.8/pyport.h:515:54: note: expanded from macro 'Py_DEPRECATED' #define Py_DEPRECATED(VERSION_UNUSED) __attribute__((__deprecated__)) ^ pysam/libctabixproxies.c:18364:3: warning: 'tp_print' is deprecated [-Wdeprecated-declarations] 0, /*tp_print*/ ^ /usr/local/include/python3.8/cpython/object.h:260:5: note: 'tp_print' has been explicitly marked deprecated here Py_DEPRECATED(3.8) int (*tp_print)(PyObject *, FILE *, int); ^ /usr/local/include/python3.8/pyport.h:515:54: note: expanded from macro 'Py_DEPRECATED' #define Py_DEPRECATED(VERSION_UNUSED) __attribute__((__deprecated__)) ^ pysam/libctabixproxies.c:18497:3: warning: 'tp_print' is deprecated [-Wdeprecated-declarations] 0, /*tp_print*/ ^ /usr/local/include/python3.8/cpython/object.h:260:5: note: 'tp_print' has been explicitly marked deprecated here Py_DEPRECATED(3.8) int (*tp_print)(PyObject *, FILE *, int); ^ /usr/local/include/python3.8/pyport.h:515:54: note: expanded from macro 'Py_DEPRECATED' #define Py_DEPRECATED(VERSION_UNUSED) __attribute__((__deprecated__)) ^ pysam/libctabixproxies.c:18614:3: warning: 'tp_print' is deprecated [-Wdeprecated-declarations] 0, /*tp_print*/ ^ /usr/local/include/python3.8/cpython/object.h:260:5: note: 'tp_print' has been explicitly marked deprecated here Py_DEPRECATED(3.8) int (*tp_print)(PyObject *, FILE *, int); ^ /usr/local/include/python3.8/pyport.h:515:54: note: expanded from macro 'Py_DEPRECATED' #define Py_DEPRECATED(VERSION_UNUSED) __attribute__((__deprecated__)) ^ pysam/libctabixproxies.c:18710:3: warning: 'tp_print' is deprecated [-Wdeprecated-declarations] 0, /*tp_print*/ ^ /usr/local/include/python3.8/cpython/object.h:260:5: note: 'tp_print' has been explicitly marked deprecated here Py_DEPRECATED(3.8) int (*tp_print)(PyObject *, FILE *, int); ^ /usr/local/include/python3.8/pyport.h:515:54: note: expanded from macro 'Py_DEPRECATED' #define Py_DEPRECATED(VERSION_UNUSED) __attribute__((__deprecated__)) ^ pysam/libctabixproxies.c:18806:3: warning: 'tp_print' is deprecated [-Wdeprecated-declarations] 0, /*tp_print*/ ^ /usr/local/include/python3.8/cpython/object.h:260:5: note: 'tp_print' has been explicitly marked deprecated here Py_DEPRECATED(3.8) int (*tp_print)(PyObject *, FILE *, int); ^ /usr/local/include/python3.8/pyport.h:515:54: note: expanded from macro 'Py_DEPRECATED' #define Py_DEPRECATED(VERSION_UNUSED) __attribute__((__deprecated__)) ^ pysam/libctabixproxies.c:18902:3: warning: 'tp_print' is deprecated [-Wdeprecated-declarations] 0, /*tp_print*/ ^ /usr/local/include/python3.8/cpython/object.h:260:5: note: 'tp_print' has been explicitly marked deprecated here Py_DEPRECATED(3.8) int (*tp_print)(PyObject *, FILE *, int); ^ /usr/local/include/python3.8/pyport.h:515:54: note: expanded from macro 'Py_DEPRECATED' #define Py_DEPRECATED(VERSION_UNUSED) __attribute__((__deprecated__)) ^ pysam/libctabixproxies.c:22442:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libctabixproxies.c:327:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ pysam/libctabixproxies.c:22453:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libctabixproxies.c:327:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ pysam/libctabixproxies.c:23405:5: warning: 'tp_print' is deprecated [-Wdeprecated-declarations] 0, ^ /usr/local/include/python3.8/cpython/object.h:260:5: note: 'tp_print' has been explicitly marked deprecated here Py_DEPRECATED(3.8) int (*tp_print)(PyObject *, FILE *, int); ^ /usr/local/include/python3.8/pyport.h:515:54: note: expanded from macro 'Py_DEPRECATED' #define Py_DEPRECATED(VERSION_UNUSED) __attribute__((__deprecated__)) ^ pysam/libctabixproxies.c:25736:5: warning: 'tp_print' is deprecated [-Wdeprecated-declarations] 0, ^ /usr/local/include/python3.8/cpython/object.h:260:5: note: 'tp_print' has been explicitly marked deprecated here Py_DEPRECATED(3.8) int (*tp_print)(PyObject *, FILE *, int); ^ /usr/local/include/python3.8/pyport.h:515:54: note: expanded from macro 'Py_DEPRECATED' #define Py_DEPRECATED(VERSION_UNUSED) __attribute__((__deprecated__)) ^ 17 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-3.8/pysam/libctabixproxies.o -L/wrkdirs/usr/ports/biology/py-pysam/work-py38/pysam-0.19.0/pysam -L/wrkdirs/usr/ports/biology/py-pysam/work-py38/pysam-0.19.0/pysam -L/wrkdirs/usr/ports/biology/py-pysam/work-py38/pysam-0.19.0 -L/wrkdirs/usr/ports/biology/py-pysam/work-py38/pysam-0.19.0/build/lib.freebsd-14.0-CURRENT-riscv-3.8/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-3.8/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-3.8/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-3.8/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-3.8/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-3.8/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-3.8/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-3.8/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-3.8/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-3.8/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-3.8/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-3.8/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-3.8/pysam -L/usr/local/lib -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-38 -lcutils.cpython-38 -o build/lib.freebsd-14.0-CURRENT-riscv-3.8/pysam/libctabixproxies.cpython-38.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-py38/pysam-0.19.0/htslib -I/wrkdirs/usr/ports/biology/py-pysam/work-py38/pysam-0.19.0/samtools -I/wrkdirs/usr/ports/biology/py-pysam/work-py38/pysam-0.19.0/samtools/lz4 -I/wrkdirs/usr/ports/biology/py-pysam/work-py38/pysam-0.19.0/bcftools -I/wrkdirs/usr/ports/biology/py-pysam/work-py38/pysam-0.19.0/pysam -I/wrkdirs/usr/ports/biology/py-pysam/work-py38/pysam-0.19.0 -I/usr/local/include/python3.8 -c pysam/libcvcf.c -o build/temp.freebsd-14.0-CURRENT-riscv-3.8/pysam/libcvcf.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement pysam/libcvcf.c:31888:3: warning: 'tp_print' is deprecated [-Wdeprecated-declarations] 0, /*tp_print*/ ^ /usr/local/include/python3.8/cpython/object.h:260:5: note: 'tp_print' has been explicitly marked deprecated here Py_DEPRECATED(3.8) int (*tp_print)(PyObject *, FILE *, int); ^ /usr/local/include/python3.8/pyport.h:515:54: note: expanded from macro 'Py_DEPRECATED' #define Py_DEPRECATED(VERSION_UNUSED) __attribute__((__deprecated__)) ^ pysam/libcvcf.c:32010:3: warning: 'tp_print' is deprecated [-Wdeprecated-declarations] 0, /*tp_print*/ ^ /usr/local/include/python3.8/cpython/object.h:260:5: note: 'tp_print' has been explicitly marked deprecated here Py_DEPRECATED(3.8) int (*tp_print)(PyObject *, FILE *, int); ^ /usr/local/include/python3.8/pyport.h:515:54: note: expanded from macro 'Py_DEPRECATED' #define Py_DEPRECATED(VERSION_UNUSED) __attribute__((__deprecated__)) ^ pysam/libcvcf.c:32135:3: warning: 'tp_print' is deprecated [-Wdeprecated-declarations] 0, /*tp_print*/ ^ /usr/local/include/python3.8/cpython/object.h:260:5: note: 'tp_print' has been explicitly marked deprecated here Py_DEPRECATED(3.8) int (*tp_print)(PyObject *, FILE *, int); ^ /usr/local/include/python3.8/pyport.h:515:54: note: expanded from macro 'Py_DEPRECATED' #define Py_DEPRECATED(VERSION_UNUSED) __attribute__((__deprecated__)) ^ pysam/libcvcf.c:35664:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libcvcf.c:342:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ pysam/libcvcf.c:35675:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libcvcf.c:342:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ pysam/libcvcf.c:36673:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libcvcf.c:342:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ pysam/libcvcf.c:36684:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libcvcf.c:342:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ pysam/libcvcf.c:37005:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libcvcf.c:342:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ pysam/libcvcf.c:37016:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libcvcf.c:342:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ pysam/libcvcf.c:37140:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libcvcf.c:342:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ pysam/libcvcf.c:37151:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ pysam/libcvcf.c:342:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ pysam/libcvcf.c:38536:5: warning: 'tp_print' is deprecated [-Wdeprecated-declarations] 0, ^ /usr/local/include/python3.8/cpython/object.h:260:5: note: 'tp_print' has been explicitly marked deprecated here Py_DEPRECATED(3.8) int (*tp_print)(PyObject *, FILE *, int); ^ /usr/local/include/python3.8/pyport.h:515:54: note: expanded from macro 'Py_DEPRECATED' #define Py_DEPRECATED(VERSION_UNUSED) __attribute__((__deprecated__)) ^ pysam/libcvcf.c:40465:5: warning: 'tp_print' is deprecated [-Wdeprecated-declarations] 0, ^ /usr/local/include/python3.8/cpython/object.h:260:5: note: 'tp_print' has been explicitly marked deprecated here Py_DEPRECATED(3.8) int (*tp_print)(PyObject *, FILE *, int); ^ /usr/local/include/python3.8/pyport.h:515:54: note: expanded from macro 'Py_DEPRECATED' #define Py_DEPRECATED(VERSION_UNUSED) __attribute__((__deprecated__)) ^ 13 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-3.8/pysam/libcvcf.o -L/wrkdirs/usr/ports/biology/py-pysam/work-py38/pysam-0.19.0/pysam -L/wrkdirs/usr/ports/biology/py-pysam/work-py38/pysam-0.19.0/pysam -L/wrkdirs/usr/ports/biology/py-pysam/work-py38/pysam-0.19.0 -L/wrkdirs/usr/ports/biology/py-pysam/work-py38/pysam-0.19.0/build/lib.freebsd-14.0-CURRENT-riscv-3.8/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-3.8/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-3.8/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-3.8/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-3.8/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-3.8/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-3.8/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-3.8/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-3.8/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-3.8/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-3.8/pysam -Lbuild/ lib.freebsd-14.0-CURRENT-riscv-3.8/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-3.8/pysam -Lbuild/lib.freebsd-14.0-CURRENT-riscv-3.8/pysam -L/usr/local/lib -lz -llzma -lbz2 -lz -lm -lchtslib.cpython-38 -lcutils.cpython-38 -o build/lib.freebsd-14.0-CURRENT-riscv-3.8/pysam/libcvcf.cpython-38.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