From owner-freebsd-pkg-fallout@freebsd.org Thu Aug 31 12:48:30 2017 Return-Path: Delivered-To: freebsd-pkg-fallout@mailman.ysv.freebsd.org Received: from mx1.freebsd.org (mx1.freebsd.org [IPv6:2001:1900:2254:206a::19:1]) by mailman.ysv.freebsd.org (Postfix) with ESMTP id E634BE1E1B3 for ; Thu, 31 Aug 2017 12:48:30 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: from mailman.ysv.freebsd.org (mailman.ysv.freebsd.org [IPv6:2001:1900:2254:206a::50:5]) by mx1.freebsd.org (Postfix) with ESMTP id D250276CCB for ; Thu, 31 Aug 2017 12:48:30 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: by mailman.ysv.freebsd.org (Postfix) id CE5C3E1E1B2; Thu, 31 Aug 2017 12:48:30 +0000 (UTC) Delivered-To: pkg-fallout@mailman.ysv.freebsd.org Received: from mx1.freebsd.org (mx1.freebsd.org [IPv6:2001:1900:2254:206a::19:1]) by mailman.ysv.freebsd.org (Postfix) with ESMTP id CDCD6E1E1B1 for ; Thu, 31 Aug 2017 12:48:30 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: from beefy8.nyi.freebsd.org (beefy8.nyi.freebsd.org [IPv6:2610:1c1:1:6080::16:eb]) (using TLSv1.2 with cipher ECDHE-RSA-AES256-GCM-SHA384 (256/256 bits)) (Client did not present a certificate) by mx1.freebsd.org (Postfix) with ESMTPS id 9B4EA76CCA for ; Thu, 31 Aug 2017 12:48:30 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: from beefy8.nyi.freebsd.org (localhost [127.0.0.1]) by beefy8.nyi.freebsd.org (8.15.2/8.15.2) with ESMTP id v7VCmTuO020832 for ; Thu, 31 Aug 2017 12:48:29 GMT (envelope-from pkg-fallout@FreeBSD.org) Received: (from root@localhost) by beefy8.nyi.freebsd.org (8.15.2/8.15.2/Submit) id v7VCmTsq020831; Thu, 31 Aug 2017 12:48:29 GMT (envelope-from pkg-fallout@FreeBSD.org) Date: Thu, 31 Aug 2017 12:48:29 GMT From: pkg-fallout@FreeBSD.org Message-Id: <201708311248.v7VCmTsq020831@beefy8.nyi.freebsd.org> To: pkg-fallout@FreeBSD.org Subject: [package - head-armv6-default][biology/py-bx-python] Failed for py27-bx-python-0.7.4 in configure X-BeenThere: freebsd-pkg-fallout@freebsd.org X-Mailman-Version: 2.1.23 Precedence: list List-Id: Fallout logs from package building List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , X-List-Received-Date: Thu, 31 Aug 2017 12:48:31 -0000 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@rawbw.com Last committer: miwi@FreeBSD.org Ident: $FreeBSD: head/biology/py-bx-python/Makefile 440232 2017-05-06 06:07:03Z miwi $ Log URL: http://beefy8.nyi.freebsd.org/data/head-armv6-default/p448889_s322995/logs/py27-bx-python-0.7.4.log Build URL: http://beefy8.nyi.freebsd.org/build.html?mastername=head-armv6-default&build=p448889_s322995 Log: ====>> Building biology/py-bx-python build started at Thu Aug 31 12:47:23 UTC 2017 port directory: /usr/ports/biology/py-bx-python building for: FreeBSD head-armv6-default-job-08 12.0-CURRENT FreeBSD 12.0-CURRENT 1200043 arm maintained by: yuri@rawbw.com Makefile ident: $FreeBSD: head/biology/py-bx-python/Makefile 440232 2017-05-06 06:07:03Z miwi $ Poudriere version: 3.1.19-62-gd8fb0333 Host OSVERSION: 1200040 Jail OSVERSION: 1200043 Job Id: 08 !!! Jail is newer than host. (Jail: 1200043, Host: 1200040) !!! !!! This is not supported. !!! !!! Host kernel must be same or newer than jail. !!! !!! Expect build failures. !!! ---Begin Environment--- SHELL=/bin/csh UNAME_p=armv6 UNAME_m=arm ABI_FILE=/usr/lib/crt1.o OSVERSION=1200043 UNAME_v=FreeBSD 12.0-CURRENT 1200043 UNAME_r=12.0-CURRENT BLOCKSIZE=K MAIL=/var/mail/root STATUS=1 SAVED_TERM= MASTERMNT=/usr/local/poudriere/data/.m/head-armv6-default/ref QEMU_EMULATING=1 PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin POUDRIERE_BUILD_TYPE=bulk PKGNAME=py27-bx-python-0.7.4 OLDPWD=/ PWD=/usr/local/poudriere/data/.m/head-armv6-default/ref/.p/pool MASTERNAME=head-armv6-default SCRIPTPREFIX=/usr/local/share/poudriere USER=root HOME=/root POUDRIERE_VERSION=3.1.19-62-gd8fb0333 SCRIPTPATH=/usr/local/share/poudriere/bulk.sh LIBEXECPREFIX=/usr/local/libexec/poudriere LOCALBASE=/usr/local POUDRIEREPATH=/usr/local/bin/poudriere ---End Environment--- ---Begin Poudriere Port Flags/Env--- PORT_FLAGS= PKGENV= ---End Poudriere Port Flags/Env--- ---Begin OPTIONS List--- ---End OPTIONS List--- --CONFIGURE_ARGS-- --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- PYTHON="/usr/local/bin/python2.7" XDG_DATA_HOME=/wrkdirs/usr/ports/biology/py-bx-python/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/py-bx-python/work HOME=/wrkdirs/usr/ports/biology/py-bx-python/work TMPDIR="/tmp" SHELL=/bin/sh CONFIG_SHELL=/bin/sh --End CONFIGURE_ENV-- --MAKE_ENV-- XDG_DATA_HOME=/wrkdirs/usr/ports/biology/py-bx-python/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/py-bx-python/work HOME=/wrkdirs/usr/ports/biology/py-bx-python/work TMPDIR="/tmp" 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 LIBDIR="/usr/lib" CC="/nxb-bin/usr/bin/cc" CFLAGS="-O2 -pipe -fno-strict-aliasing" CPP="/nxb-bin/usr/bin/cpp" CPPFLAGS="" LDFLAGS="" LIBS="" CXX="/nxb-bin/usr/bin/c++" CXXFLAGS="-O2 -pipe -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/python2.7 PYTHON_LIBDIR=lib/python2.7 PYTHON_PLATFORM=freebsd12 PYTHON_PYOEXTENSION=pyo PYTHON_SITELIBDIR=lib/python2.7/site-packages PYTHON_SUFFIX=27 PYTHON_VER=2.7 PYTHON_VERSION=python2.7 PYTHON2="" PYTHON3="@comment " OSREL=12.0 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local PORTDOCS="" PORTEXAMPLES="" LIB32DIR=lib DOCSDIR="share/doc/bx-python" EXAMPLESDIR="share/examples/bx-python" DATADIR="share/bx-python" WWWDIR="www/bx-python" ETCDIR="etc/bx-python" --End PLIST_SUB-- --SUB_LIST-- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/bx-python DOCSDIR=/usr/local/share/doc/bx-python EXAMPLESDIR=/usr/local/share/examples/bx-python WWWDIR=/usr/local/www/bx-python ETCDIR=/usr/local/etc/bx-python --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 MACHINE=arm MACHINE_ARCH=armv6 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 #### ARCH=armv6 CONFIGURE_MAX_CMD_LEN=262144 OPSYS=FreeBSD OSREL=12.0 OSVERSION=1200043 PYTHONBASE=/usr/local UID=0 _JAVA_OS_LIST_REGEXP=native|linux _JAVA_VENDOR_LIST_REGEXP=openjdk|oracle|sun _JAVA_VERSION_LIST_REGEXP=1.6|1.7|1.8|1.6\+|1.7\+|1.8\+ _OSRELEASE=12.0-CURRENT #### Misc Poudriere #### GID=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++ AS=/nxb-bin/usr/bin/as 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 READELF=/nxb-bin/usr/bin/readelf 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 =========================================================================== =================================================== ===> py27-bx-python-0.7.4 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.10.1.txz [head-armv6-default-job-08] Installing pkg-1.10.1... [head-armv6-default-job-08] Extracting pkg-1.10.1: .......... done ===> py27-bx-python-0.7.4 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of py27-bx-python-0.7.4 =========================================================================== =================================================== =========================================================================== =================================================== ===> License MIT accepted by the user ===> Fetching all distfiles required by py27-bx-python-0.7.4 for building =========================================================================== =================================================== ===> License MIT accepted by the user ===> Fetching all distfiles required by py27-bx-python-0.7.4 for building => SHA256 Checksum OK for bxlab-bx-python-v0.7.4_GH0.tar.gz. =========================================================================== =================================================== =========================================================================== =================================================== ===> License MIT accepted by the user ===> Fetching all distfiles required by py27-bx-python-0.7.4 for building ===> Extracting for py27-bx-python-0.7.4 => SHA256 Checksum OK for bxlab-bx-python-v0.7.4_GH0.tar.gz. =========================================================================== =================================================== =========================================================================== =================================================== ===> Patching for py27-bx-python-0.7.4 =========================================================================== =================================================== ===> py27-bx-python-0.7.4 depends on file: /usr/local/lib/python2.7/site-packages/numpy/core/numeric.py - not found ===> Installing existing package /packages/All/py27-numpy-1.13.1_1,1.txz [head-armv6-default-job-08] Installing py27-numpy-1.13.1_1,1... [head-armv6-default-job-08] `-- Installing blas-3.5.0_3... [head-armv6-default-job-08] | `-- Installing gcc5-5.4.0_3... [head-armv6-default-job-08] | | `-- Installing binutils-2.28,1... [head-armv6-default-job-08] | | `-- Installing gettext-runtime-0.19.8.1_1... [head-armv6-default-job-08] | | | `-- Installing indexinfo-0.2.6... [head-armv6-default-job-08] | | | `-- Extracting indexinfo-0.2.6: .... done [head-armv6-default-job-08] | | `-- Extracting gettext-runtime-0.19.8.1_1: .......... done [head-armv6-default-job-08] | | `-- Extracting binutils-2.28,1: .......... done [head-armv6-default-job-08] | | `-- Installing gmp-6.1.2... [head-armv6-default-job-08] | | `-- Extracting gmp-6.1.2: .......... done [head-armv6-default-job-08] | | `-- Installing mpc-1.0.3... [head-armv6-default-job-08] | | `-- Installing mpfr-3.1.5_1... [head-armv6-default-job-08] | | `-- Extracting mpfr-3.1.5_1: .......... done [head-armv6-default-job-08] | | `-- Extracting mpc-1.0.3: ...... done [head-armv6-default-job-08] | `-- Extracting gcc5-5.4.0_3: .......... done [head-armv6-default-job-08] `-- Extracting blas-3.5.0_3: ....... done [head-armv6-default-job-08] `-- Installing cblas-1.0_6... [head-armv6-default-job-08] `-- Extracting cblas-1.0_6: ......... done [head-armv6-default-job-08] `-- Installing lapack-3.5.0_2... [head-armv6-default-job-08] `-- Extracting lapack-3.5.0_2: .......... done [head-armv6-default-job-08] `-- Installing py27-setuptools-36.2.2... [head-armv6-default-job-08] | `-- Installing python27-2.7.13_7... [head-armv6-default-job-08] | | `-- Installing libffi-3.2.1_1... [head-armv6-default-job-08] | | `-- Extracting libffi-3.2.1_1: .......... done [head-armv6-default-job-08] | | `-- Installing readline-7.0.3... [head-armv6-default-job-08] | | `-- Extracting readline-7.0.3: .......... done [head-armv6-default-job-08] | `-- Extracting python27-2.7.13_7: .......... done [head-armv6-default-job-08] `-- Extracting py27-setuptools-36.2.2: .......... done [head-armv6-default-job-08] `-- Installing suitesparse-4.0.2_6... [head-armv6-default-job-08] | `-- Installing openblas-0.2.20,1... [head-armv6-default-job-08] | `-- Extracting openblas-0.2.20,1: ......... done [head-armv6-default-job-08] `-- Extracting suitesparse-4.0.2_6: .......... done [head-armv6-default-job-08] Extracting py27-numpy-1.13.1_1,1: .......... done Message from gcc5-5.4.0_3: To ensure binaries built with this toolchain find appropriate versions of the necessary run-time libraries, you may want to link using -Wl,-rpath=/usr/local/lib/gcc5 For ports leveraging USE_GCC, USES=compiler, or USES=fortran this happens transparently. Message from cblas-1.0_6: ===> NOTICE: The cblas port currently does not have a maintainer. As a result, it is more likely to have unresolved issues, not be up-to-date, or even be removed in the future. To volunteer to maintain this port, please create an issue at: https://bugs.freebsd.org/bugzilla More information about port maintainership is available at: https://www.freebsd.org/doc/en/articles/contributing/ports-contributing.html#maintain-port Message from python27-2.7.13_7: =========================================================================== Note that some standard Python modules are provided as separate ports as they require additional dependencies. They are available as: bsddb databases/py-bsddb gdbm databases/py-gdbm sqlite3 databases/py-sqlite3 tkinter x11-toolkits/py-tkinter =========================================================================== ===> py27-bx-python-0.7.4 depends on file: /usr/local/lib/python2.7/site-packages/numpy/core/numeric.py - found ===> Returning to build of py27-bx-python-0.7.4 ===> py27-bx-python-0.7.4 depends on package: py27-python-lzo>0 - not found ===> Installing existing package /packages/All/py27-python-lzo-1.11.txz [head-armv6-default-job-08] Installing py27-python-lzo-1.11... [head-armv6-default-job-08] `-- Installing lzo2-2.10_1... [head-armv6-default-job-08] `-- Extracting lzo2-2.10_1: .......... done [head-armv6-default-job-08] `-- Installing python2-2_3... [head-armv6-default-job-08] `-- Extracting python2-2_3: ...... done [head-armv6-default-job-08] Extracting py27-python-lzo-1.11: ........ done ===> py27-bx-python-0.7.4 depends on package: py27-python-lzo>0 - found ===> Returning to build of py27-bx-python-0.7.4 ===> py27-bx-python-0.7.4 depends on package: py27-setuptools>0 - found ===> py27-bx-python-0.7.4 depends on file: /usr/local/bin/python2.7 - found =========================================================================== =================================================== =========================================================================== =================================================== ===> Configuring for py27-bx-python-0.7.4 Traceback (most recent call last): File "", line 1, in File "setup.py", line 251, in main() File "setup.py", line 64, in main raise Exception( "numpy must be installed to build" ) Exception: numpy must be installed to build *** Error code 1 Stop. make: stopped in /usr/ports/biology/py-bx-python