[package - head-i386-default][biology/py-macs2] Failed for py36-macs2-2.1.0.p20170505 in configure
pkg-fallout at FreeBSD.org
pkg-fallout at FreeBSD.org
Tue Dec 5 17:55:00 UTC 2017
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: jwb at FreeBSD.org
Last committer: jwb at FreeBSD.org
Ident: $FreeBSD: head/biology/py-macs2/Makefile 455383 2017-12-02 20:46:28Z jwb $
Log URL: http://beefy11.nyi.freebsd.org/data/head-i386-default/p455559_s326544/logs/py36-macs2-2.1.0.p20170505.log
Build URL: http://beefy11.nyi.freebsd.org/build.html?mastername=head-i386-default&build=p455559_s326544
Log:
=>> Building biology/py-macs2
build started at Tue Dec 5 17:54:31 UTC 2017
port directory: /usr/ports/biology/py-macs2
package name: py36-macs2-2.1.0.p20170505
building for: FreeBSD head-i386-default-job-04 12.0-CURRENT FreeBSD 12.0-CURRENT 1200054 i386
maintained by: jwb at FreeBSD.org
Makefile ident: $FreeBSD: head/biology/py-macs2/Makefile 455383 2017-12-02 20:46:28Z jwb $
Poudriere version: 3.2.2-11-ge1d3bef2
Host OSVERSION: 1200052
Jail OSVERSION: 1200054
Job Id: 04
!!! 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=i386
UNAME_m=i386
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-i386-default/ref
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-i386-default/ref/.p
P_PORTS_FEATURES=FLAVORS SELECTED_OPTIONS
PWD=/usr/local/poudriere/data/.m/head-i386-default/ref/.p/pool
MASTERNAME=head-i386-default
SCRIPTPREFIX=/usr/local/share/poudriere
USER=root
HOME=/root
P_PYTHON_MAJOR_VER=2
POUDRIERE_VERSION=3.2.2-11-ge1d3bef2
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=py36
DEPENDS_ARGS=
MAKE_ARGS= FLAVOR=py36
---End Poudriere Port Flags/Env---
---Begin OPTIONS List---
---End OPTIONS List---
--MAINTAINER--
jwb at FreeBSD.org
--End MAINTAINER--
--CONFIGURE_ARGS--
--End CONFIGURE_ARGS--
--CONFIGURE_ENV--
PYTHON="/usr/local/bin/python3.6" XDG_DATA_HOME=/wrkdirs/usr/ports/biology/py-macs2/work-py36 XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/py-macs2/work-py36 HOME=/wrkdirs/usr/ports/biology/py-macs2/work-py36 TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/py-macs2/work-py36/.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-macs2/work-py36 XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/py-macs2/work-py36 HOME=/wrkdirs/usr/ports/biology/py-macs2/work-py36 TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/py-macs2/work-py36/.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="cc -shared" PYTHONDONTWRITEBYTECODE= PYTHONOPTIMIZE= PREFIX=/usr/local LOCALBASE=/usr/local LIBDIR="/usr/lib" CC="cc" CFLAGS="-O2 -pipe -fstack-protector -fno-strict-aliasing" CPP="cpp" CPPFLAGS="" LDFLAGS=" -fstack-protector" LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector -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/python3.6m PYTHON_LIBDIR=lib/python3.6 PYTHON_PLATFORM=freebsd12 PYTHON_PYOEXTENSION=opt-1.pyc PYTHON_SITELIBDIR=lib/python3.6/site-packages PYTHON_SUFFIX=36 PYTHON_VER=3.6 PYTHON_VERSION=python3.6 PYTHON2="@comment " PYTHON3="" OSREL=12.0 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local PORTDOCS="" PORTEXAMPLES="" LIB32DIR=lib DOCSDIR="share/doc/py36-macs2" EXAMPLESDIR="share/examples/py36-macs2" DATADIR="share/py36-macs2" WWWDIR="www/py36-macs2" ETCDIR="etc/py36-macs2"
--End PLIST_SUB--
--SUB_LIST--
PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/py36-macs2 DOCSDIR=/usr/local/share/doc/py36-macs2 EXAMPLESDIR=/usr/local/share/examples/py36-macs2 WWWDIR=/usr/local/www/py36-macs2 ETCDIR=/usr/local/etc/py36-macs2
--End SUB_LIST--
---Begin make.conf---
USE_PACKAGE_DEPENDS=yes
BATCH=yes
WRKDIRPREFIX=/wrkdirs
PORTSDIR=/usr/ports
PACKAGES=/packages
DISTDIR=/distfiles
PACKAGE_BUILDING=yes
PACKAGE_BUILDING_FLAVORS=yes
MACHINE=i386
MACHINE_ARCH=i386
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=i386
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---
--Resource limits--
cpu time (seconds, -t) unlimited
file size (512-blocks, -f) unlimited
data seg size (kbytes, -d) 524288
stack size (kbytes, -s) 65536
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--
=======================<phase: check-sanity >============================
===> License BSD3CLAUSE accepted by the user
===========================================================================
=======================<phase: pkg-depends >============================
===> py36-macs2-2.1.0.p20170505 depends on file: /usr/local/sbin/pkg - not found
===> Installing existing package /packages/All/pkg-1.10.3.txz
[head-i386-default-job-04] Installing pkg-1.10.3...
[head-i386-default-job-04] Extracting pkg-1.10.3: .......... done
===> py36-macs2-2.1.0.p20170505 depends on file: /usr/local/sbin/pkg - found
===> Returning to build of py36-macs2-2.1.0.p20170505
===========================================================================
=======================<phase: fetch-depends >============================
===========================================================================
=======================<phase: fetch >============================
===> License BSD3CLAUSE accepted by the user
===> Fetching all distfiles required by py36-macs2-2.1.0.p20170505 for building
===========================================================================
=======================<phase: checksum >============================
===> License BSD3CLAUSE accepted by the user
===> Fetching all distfiles required by py36-macs2-2.1.0.p20170505 for building
=> SHA256 Checksum OK for taoliu-MACS-2.1.0.p20170505-6946b2f_GH0.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===========================================================================
=======================<phase: extract >============================
===> License BSD3CLAUSE accepted by the user
===> Fetching all distfiles required by py36-macs2-2.1.0.p20170505 for building
===> Extracting for py36-macs2-2.1.0.p20170505
=> SHA256 Checksum OK for taoliu-MACS-2.1.0.p20170505-6946b2f_GH0.tar.gz.
===========================================================================
=======================<phase: patch-depends >============================
===========================================================================
=======================<phase: patch >============================
===> Patching for py36-macs2-2.1.0.p20170505
===========================================================================
=======================<phase: build-depends >============================
===> py36-macs2-2.1.0.p20170505 depends on package: py36-numpy>0 - not found
===> Installing existing package /packages/All/py36-numpy-1.13.3,1.txz
[head-i386-default-job-04] Installing py36-numpy-1.13.3,1...
[head-i386-default-job-04] `-- Installing blas-3.5.0_3...
[head-i386-default-job-04] | `-- Installing gcc6-6.4.0_3...
[head-i386-default-job-04] | | `-- Installing binutils-2.28,1...
[head-i386-default-job-04] | | `-- Installing gettext-runtime-0.19.8.1_1...
[head-i386-default-job-04] | | | `-- Installing indexinfo-0.3.1...
[head-i386-default-job-04] | | | `-- Extracting indexinfo-0.3.1: .... done
[head-i386-default-job-04] | | `-- Extracting gettext-runtime-0.19.8.1_1: .......... done
[head-i386-default-job-04] | | `-- Extracting binutils-2.28,1: .......... done
[head-i386-default-job-04] | | `-- Installing gcc-ecj-4.5...
[head-i386-default-job-04] | | `-- Extracting gcc-ecj-4.5: . done
[head-i386-default-job-04] | | `-- Installing gmp-6.1.2...
[head-i386-default-job-04] | | `-- Extracting gmp-6.1.2: .......... done
[head-i386-default-job-04] | | `-- Installing mpc-1.0.3...
[head-i386-default-job-04] | | `-- Installing mpfr-3.1.6...
[head-i386-default-job-04] | | `-- Extracting mpfr-3.1.6: .......... done
[head-i386-default-job-04] | | `-- Extracting mpc-1.0.3: ...... done
[head-i386-default-job-04] | `-- Extracting gcc6-6.4.0_3: .......... done
[head-i386-default-job-04] `-- Extracting blas-3.5.0_3: ....... done
[head-i386-default-job-04] `-- Installing cblas-1.0_7...
[head-i386-default-job-04] `-- Extracting cblas-1.0_7: ......... done
[head-i386-default-job-04] `-- Installing lapack-3.5.0_3...
[head-i386-default-job-04] `-- Extracting lapack-3.5.0_3: .......... done
[head-i386-default-job-04] `-- Installing py36-setuptools-36.5.0...
[head-i386-default-job-04] | `-- Installing python36-3.6.3...
[head-i386-default-job-04] | | `-- Installing libffi-3.2.1_1...
[head-i386-default-job-04] | | `-- Extracting libffi-3.2.1_1: .......... done
[head-i386-default-job-04] | | `-- Installing readline-7.0.3_1...
[head-i386-default-job-04] | | `-- Extracting readline-7.0.3_1: .......... done
[head-i386-default-job-04] | `-- Extracting python36-3.6.3: .......... done
[head-i386-default-job-04] `-- Extracting py36-setuptools-36.5.0: .......... done
[head-i386-default-job-04] `-- Installing suitesparse-4.0.2_7...
[head-i386-default-job-04] | `-- Installing openblas-0.2.20_1,1...
[head-i386-default-job-04] | `-- Extracting openblas-0.2.20_1,1: ......... done
[head-i386-default-job-04] `-- Extracting suitesparse-4.0.2_7: .......... done
[head-i386-default-job-04] Extracting py36-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 python36-3.6.3:
===========================================================================
Note that some standard Python modules are provided as separate ports
as they require additional dependencies. They are available as:
py36-gdbm databases/py36-gdbm
py36-sqlite3 databases/py36-sqlite3
py36-tkinter x11-toolkits/py36-tkinter
===========================================================================
Message from py36-setuptools-36.5.0:
*******************************************************************
Only /usr/local/bin/easy_install-3.6 script has been installed
since Python 3.6 is not the default Python version.
*******************************************************************
===> py36-macs2-2.1.0.p20170505 depends on package: py36-numpy>0 - found
===> Returning to build of py36-macs2-2.1.0.p20170505
===> py36-macs2-2.1.0.p20170505 depends on executable: cython-3.6 - not found
===> Installing existing package /packages/All/py36-cython-0.26.txz
[head-i386-default-job-04] Installing py36-cython-0.26...
[head-i386-default-job-04] Extracting py36-cython-0.26: .......... done
===> py36-macs2-2.1.0.p20170505 depends on executable: cython-3.6 - found
===> Returning to build of py36-macs2-2.1.0.p20170505
===> py36-macs2-2.1.0.p20170505 depends on package: py36-setuptools>0 - found
===> py36-macs2-2.1.0.p20170505 depends on file: /usr/local/bin/python3.6 - found
===========================================================================
=======================<phase: lib-depends >============================
===========================================================================
=======================<phase: configure >============================
===> Configuring for py36-macs2-2.1.0.p20170505
CRITICAL: Python version must be 2.7!
*** Error code 1
Stop.
make: stopped in /usr/ports/biology/py-macs2
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