From owner-freebsd-pkg-fallout@freebsd.org Wed Dec 13 16:58:39 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 ECE80EA3C38 for ; Wed, 13 Dec 2017 16:58:39 +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 D92E678AAF for ; Wed, 13 Dec 2017 16:58:39 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: by mailman.ysv.freebsd.org (Postfix) id D58B0EA3C37; Wed, 13 Dec 2017 16:58:39 +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 D51CFEA3C36 for ; Wed, 13 Dec 2017 16:58:39 +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 8025278AAD for ; Wed, 13 Dec 2017 16:58:39 +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 vBDGwckb022290 for ; Wed, 13 Dec 2017 16:58:38 GMT (envelope-from pkg-fallout@FreeBSD.org) Received: (from root@localhost) by beefy8.nyi.freebsd.org (8.15.2/8.15.2/Submit) id vBDGwcqV022289; Wed, 13 Dec 2017 16:58:38 GMT (envelope-from pkg-fallout@FreeBSD.org) Date: Wed, 13 Dec 2017 16:58:38 GMT From: pkg-fallout@FreeBSD.org Message-Id: <201712131658.vBDGwcqV022289@beefy8.nyi.freebsd.org> To: pkg-fallout@FreeBSD.org Subject: [package - head-armv6-default][biology/pycogent] Failed for pycogent-1.9 in configure X-BeenThere: freebsd-pkg-fallout@freebsd.org X-Mailman-Version: 2.1.25 Precedence: list List-Id: Fallout logs from package building List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , X-List-Received-Date: Wed, 13 Dec 2017 16:58:40 -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: python@FreeBSD.org Last committer: antoine@FreeBSD.org Ident: $FreeBSD: head/biology/pycogent/Makefile 456050 2017-12-11 16:54:20Z antoine $ Log URL: http://beefy8.nyi.freebsd.org/data/head-armv6-default/p456071_s326720/logs/pycogent-1.9.log Build URL: http://beefy8.nyi.freebsd.org/build.html?mastername=head-armv6-default&build=p456071_s326720 Log: =>> Building biology/pycogent build started at Wed Dec 13 16:57:25 UTC 2017 port directory: /usr/ports/biology/pycogent package name: pycogent-1.9 building for: FreeBSD head-armv6-default-job-09 12.0-CURRENT FreeBSD 12.0-CURRENT 1200054 arm maintained by: python@FreeBSD.org Makefile ident: $FreeBSD: head/biology/pycogent/Makefile 456050 2017-12-11 16:54:20Z antoine $ Poudriere version: 3.2.3-8-gadde3df7 Host OSVERSION: 1200052 Jail OSVERSION: 1200054 Job Id: 09 !!! Jail is newer than host. (Jail: 1200054, Host: 1200052) !!! !!! 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=1200054 UNAME_v=FreeBSD 12.0-CURRENT 1200054 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 OLDPWD=/usr/local/poudriere/data/.m/head-armv6-default/ref/.p P_PORTS_FEATURES=FLAVORS SELECTED_OPTIONS 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 P_PYTHON_MAJOR_VER=2 POUDRIERE_VERSION=3.2.3-8-gadde3df7 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= FLAVOR=py27 DEPENDS_ARGS= MAKE_ARGS= FLAVOR=py27 ---End Poudriere Port Flags/Env--- ---Begin OPTIONS List--- ---End OPTIONS List--- --MAINTAINER-- python@FreeBSD.org --End MAINTAINER-- --CONFIGURE_ARGS-- --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- PYTHON="/usr/local/bin/python2.7" XDG_DATA_HOME=/wrkdirs/usr/ports/biology/pycogent/work-py27 XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/pycogent/work-py27 HOME=/wrkdirs/usr/ports/biology/pycogent/work-py27 TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/pycogent/work-py27/.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/pycogent/work-py27 XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/pycogent/work-py27 HOME=/wrkdirs/usr/ports/biology/pycogent/work-py27 TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/pycogent/work-py27/.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 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/pycogent" EXAMPLESDIR="share/examples/pycogent" DATADIR="share/pycogent" WWWDIR="www/pycogent" ETCDIR="etc/pycogent" --End PLIST_SUB-- --SUB_LIST-- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/pycogent DOCSDIR=/usr/local/share/doc/pycogent EXAMPLESDIR=/usr/local/share/examples/pycogent WWWDIR=/usr/local/www/pycogent ETCDIR=/usr/local/etc/pycogent --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=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=1200054 PYTHONBASE=/usr/local UID=0 _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 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 GPLv2 accepted by the user =========================================================================== =================================================== ===> pycogent-1.9 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.10.3_1.txz [head-armv6-default-job-09] Installing pkg-1.10.3_1... [head-armv6-default-job-09] Extracting pkg-1.10.3_1: .......... done ===> pycogent-1.9 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of pycogent-1.9 =========================================================================== =================================================== =========================================================================== =================================================== ===> License GPLv2 accepted by the user ===> Fetching all distfiles required by pycogent-1.9 for building =========================================================================== =================================================== ===> License GPLv2 accepted by the user ===> Fetching all distfiles required by pycogent-1.9 for building => SHA256 Checksum OK for pycogent-pycogent-1.9_GH0.tar.gz. =========================================================================== =================================================== =========================================================================== =================================================== ===> License GPLv2 accepted by the user ===> Fetching all distfiles required by pycogent-1.9 for building ===> Extracting for pycogent-1.9 => SHA256 Checksum OK for pycogent-pycogent-1.9_GH0.tar.gz. =========================================================================== =================================================== =========================================================================== =================================================== ===> Patching for pycogent-1.9 =========================================================================== =================================================== ===> pycogent-1.9 depends on package: py27-numpy>0 - not found ===> Installing existing package /packages/All/py27-numpy-1.13.3,1.txz [head-armv6-default-job-09] Installing py27-numpy-1.13.3,1... [head-armv6-default-job-09] `-- Installing blas-3.5.0_3... [head-armv6-default-job-09] | `-- Installing gcc6-6.4.0_3... [head-armv6-default-job-09] | | `-- Installing binutils-2.28,1... [head-armv6-default-job-09] | | `-- Installing gettext-runtime-0.19.8.1_1... [head-armv6-default-job-09] | | | `-- Installing indexinfo-0.3.1... [head-armv6-default-job-09] | | | `-- Extracting indexinfo-0.3.1: .... done [head-armv6-default-job-09] | | `-- Extracting gettext-runtime-0.19.8.1_1: .......... done [head-armv6-default-job-09] | | `-- Extracting binutils-2.28,1: .......... done [head-armv6-default-job-09] | | `-- Installing gmp-6.1.2... [head-armv6-default-job-09] | | `-- Extracting gmp-6.1.2: .......... done [head-armv6-default-job-09] | | `-- Installing mpc-1.0.3... [head-armv6-default-job-09] | | `-- Installing mpfr-3.1.6... [head-armv6-default-job-09] | | `-- Extracting mpfr-3.1.6: .......... done [head-armv6-default-job-09] | | `-- Extracting mpc-1.0.3: ...... done [head-armv6-default-job-09] | `-- Extracting gcc6-6.4.0_3: .......... done [head-armv6-default-job-09] `-- Extracting blas-3.5.0_3: ....... done [head-armv6-default-job-09] `-- Installing cblas-1.0_7... [head-armv6-default-job-09] `-- Extracting cblas-1.0_7: ......... done [head-armv6-default-job-09] `-- Installing lapack-3.5.0_3... [head-armv6-default-job-09] `-- Extracting lapack-3.5.0_3: .......... done [head-armv6-default-job-09] `-- Installing py27-setuptools-36.5.0... [head-armv6-default-job-09] | `-- Installing python27-2.7.14_1... [head-armv6-default-job-09] | | `-- Installing libffi-3.2.1_1... [head-armv6-default-job-09] | | `-- Extracting libffi-3.2.1_1: .......... done [head-armv6-default-job-09] | | `-- Installing readline-7.0.3_1... [head-armv6-default-job-09] | | `-- Extracting readline-7.0.3_1: .......... done [head-armv6-default-job-09] | `-- Extracting python27-2.7.14_1: .......... done [head-armv6-default-job-09] `-- Extracting py27-setuptools-36.5.0: .......... done [head-armv6-default-job-09] `-- Installing suitesparse-4.0.2_7... [head-armv6-default-job-09] | `-- Installing openblas-0.2.20_1,1... [head-armv6-default-job-09] | `-- Extracting openblas-0.2.20_1,1: ......... done [head-armv6-default-job-09] `-- Extracting suitesparse-4.0.2_7: .......... done [head-armv6-default-job-09] Extracting py27-numpy-1.13.3,1: .......... done Message from gcc6-6.4.0_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/gcc6 For ports leveraging USE_GCC, USES=compiler, or USES=fortran this happens transparently. Message from cblas-1.0_7: ===> 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 python27-2.7.14_1: =========================================================================== 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 =========================================================================== ===> pycogent-1.9 depends on package: py27-numpy>0 - found ===> Returning to build of pycogent-1.9 ===> pycogent-1.9 depends on package: py27-sphinx>=0 - not found ===> Installing existing package /packages/All/py27-sphinx-1.4.8_2,1.txz [head-armv6-default-job-09] Installing py27-sphinx-1.4.8_2,1... [head-armv6-default-job-09] `-- Installing ca_root_nss-3.34.1... [head-armv6-default-job-09] `-- Extracting ca_root_nss-3.34.1: ........ done [head-armv6-default-job-09] `-- Installing py27-Babel-2.5.1... [head-armv6-default-job-09] | `-- Installing py27-pytz-2017.3,1... [head-armv6-default-job-09] | `-- Extracting py27-pytz-2017.3,1: .......... done [head-armv6-default-job-09] `-- Extracting py27-Babel-2.5.1: .......... done [head-armv6-default-job-09] `-- Installing py27-Jinja2-2.10... [head-armv6-default-job-09] | `-- Installing py27-MarkupSafe-1.0... [head-armv6-default-job-09] | `-- Extracting py27-MarkupSafe-1.0: .......... done [head-armv6-default-job-09] `-- Extracting py27-Jinja2-2.10: .......... done [head-armv6-default-job-09] `-- Installing py27-alabaster-0.7.6... [head-armv6-default-job-09] `-- Extracting py27-alabaster-0.7.6: .......... done [head-armv6-default-job-09] `-- Installing py27-docutils-0.14_1... [head-armv6-default-job-09] `-- Extracting py27-docutils-0.14_1: .......... done [head-armv6-default-job-09] `-- Installing py27-imagesize-0.7.1... [head-armv6-default-job-09] `-- Extracting py27-imagesize-0.7.1: .......... done [head-armv6-default-job-09] `-- Installing py27-pygments-2.2.0... [head-armv6-default-job-09] `-- Extracting py27-pygments-2.2.0: .......... done [head-armv6-default-job-09] `-- Installing py27-six-1.11.0... [head-armv6-default-job-09] `-- Extracting py27-six-1.11.0: .......... done [head-armv6-default-job-09] `-- Installing py27-snowballstemmer-1.2.0_1... [head-armv6-default-job-09] | `-- Installing py27-pystemmer-1.3.0_1... [head-armv6-default-job-09] | `-- Extracting py27-pystemmer-1.3.0_1: ......... done [head-armv6-default-job-09] `-- Extracting py27-snowballstemmer-1.2.0_1: .......... done [head-armv6-default-job-09] `-- Installing py27-sphinx_rtd_theme-0.2.4... [head-armv6-default-job-09] `-- Extracting py27-sphinx_rtd_theme-0.2.4: .......... done [head-armv6-default-job-09] Extracting py27-sphinx-1.4.8_2,1: .......... done Message from ca_root_nss-3.34.1: ********************************* WARNING ********************************* FreeBSD does not, and can not warrant that the certification authorities whose certificates are included in this package have in any way been audited for trustworthiness or RFC 3647 compliance. Assessment and verification of trust is the complete responsibility of the system administrator. *********************************** NOTE ********************************** This package installs symlinks to support root certificates discovery by default for software that uses OpenSSL. This enables SSL Certificate Verification by client software without manual intervention. If you prefer to do this manually, replace the following symlinks with either an empty file or your site-local certificate bundle. * /etc/ssl/cert.pem * /usr/local/etc/ssl/cert.pem * /usr/local/openssl/cert.pem *************************************************************************** ===> pycogent-1.9 depends on package: py27-sphinx>=0 - found ===> Returning to build of pycogent-1.9 ===> pycogent-1.9 depends on package: py27-sqlalchemy10>=1.0.13 - not found ===> Installing existing package /packages/All/py27-sqlalchemy10-1.0.14.txz [head-armv6-default-job-09] Installing py27-sqlalchemy10-1.0.14... [head-armv6-default-job-09] `-- Installing py27-sqlite3-2.7.14_7... [head-armv6-default-job-09] | `-- Installing sqlite3-3.21.0_1... [head-armv6-default-job-09] | `-- Extracting sqlite3-3.21.0_1: .......... done [head-armv6-default-job-09] `-- Extracting py27-sqlite3-2.7.14_7: ........ done [head-armv6-default-job-09] Extracting py27-sqlalchemy10-1.0.14: .......... done ===> pycogent-1.9 depends on package: py27-sqlalchemy10>=1.0.13 - found ===> Returning to build of pycogent-1.9 ===> pycogent-1.9 depends on executable: cython-2.7 - not found ===> Installing existing package /packages/All/py27-cython-0.26.txz [head-armv6-default-job-09] Installing py27-cython-0.26... [head-armv6-default-job-09] Extracting py27-cython-0.26: .......... done ===> pycogent-1.9 depends on executable: cython-2.7 - found ===> Returning to build of pycogent-1.9 ===> pycogent-1.9 depends on package: py27-setuptools>0 - found ===> pycogent-1.9 depends on file: /usr/local/bin/python2.7 - found =========================================================================== =================================================== =========================================================================== =================================================== ===> Configuring for pycogent-1.9 Traceback (most recent call last): File "", line 1, in File "setup.py", line 26, in raise RuntimeError("Numpy required but not found.") RuntimeError: Numpy required but not found. *** Error code 1 Stop. make: stopped in /usr/ports/biology/pycogent