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Date:      Sat, 1 Sep 2018 10:33:55 GMT
From:      pkg-fallout@FreeBSD.org
To:        pkg-fallout@FreeBSD.org
Subject:   [package - 111armv6-quarterly][biology/py-bx-python] Failed for py36-bx-python-0.8.1_1 in configure
Message-ID:  <201809011033.w81AXtMd039484@beefy15.nyi.freebsd.org>

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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
Last committer: mat@FreeBSD.org
Ident:          $FreeBSD: branches/2018Q3/biology/py-bx-python/Makefile 472884 2018-06-20 17:05:41Z mat $
Log URL:        http://beefy15.nyi.freebsd.org/data/111armv6-quarterly/478641/logs/py36-bx-python-0.8.1_1.log
Build URL:      http://beefy15.nyi.freebsd.org/build.html?mastername=111armv6-quarterly&build=478641
Log:

=>> Building biology/py-bx-python
build started at Sat Sep  1 10:33:21 UTC 2018
port directory: /usr/ports/biology/py-bx-python
package name: py36-bx-python-0.8.1_1
building for: FreeBSD 111armv6-quarterly-job-16 11.1-RELEASE-p13 FreeBSD 11.1-RELEASE-p13 1101001 arm
maintained by: yuri@FreeBSD.org
Makefile ident:      $FreeBSD: branches/2018Q3/biology/py-bx-python/Makefile 472884 2018-06-20 17:05:41Z mat $
Poudriere version: 3.2.7-6-g819c79a1
Host OSVERSION: 1200069
Jail OSVERSION: 1101001
Job Id: 16

---Begin Environment---
POUDRIEREPATH=/usr/local/bin/poudriere
SCRIPTPATH=/usr/local/share/poudriere/bulk.sh
OLDPWD=/usr/local/poudriere/data/.m/111armv6-quarterly/ref/.p
SCRIPTPREFIX=/usr/local/share/poudriere
MASTERNAME=111armv6-quarterly
P_PORTS_FEATURES=FLAVORS SELECTED_OPTIONS
PWD=/usr/local/poudriere/data/.m/111armv6-quarterly/ref/.p/pool
SAVED_TERM=
PACKAGE_BUILDING=yes
POUDRIERE_BUILD_TYPE=bulk
MASTERMNT=/usr/local/poudriere/data/.m/111armv6-quarterly/ref
POUDRIERE_VERSION=3.2.7-6-g819c79a1
LIBEXECPREFIX=/usr/local/libexec/poudriere
USER=root
QEMU_EMULATING=1
LOCALBASE=/usr/local
PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin
HOME=/root
STATUS=1
MAIL=/var/mail/root
BLOCKSIZE=K
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UNAME_v=FreeBSD 11.1-RELEASE-p13 1101001
OSVERSION=1101001
ABI_FILE=/usr/lib/crt1.o
UNAME_m=arm
UNAME_p=armv6
SHELL=/bin/csh
---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--
yuri@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-bx-python/work-py36  XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/py-bx-python/work-py36  HOME=/wrkdirs/usr/ports/biology/py-bx-python/work-py36 TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/py-bx-python/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-bx-python/work-py36  XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/py-bx-python/work-py36  HOME=/wrkdirs/usr/ports/biology/py-bx-python/work-py36 TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/py-bx-python/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="/nxb-bin/usr/bin/cc -shared" PYTHONDONTWRITEBYTECODE= PYTHONOPTIMIZE= PREFIX=/usr/local  LOCALBASE=/usr/local  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--
PORTDOCS="" PORTEXAMPLES="" PYTHON_INCLUDEDIR=include/python3.6m  PYTHON_LIBDIR=lib/python3.6  PYTHON_PLATFORM=freebsd11  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=11.1 PREFIX=%D LOCALBASE=/usr/local  RESETPREFIX=/usr/local 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
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

# stable/10 includes src.conf too late but make.conf is in sys.mk
.if ${.CURDIR:M/poudriere/jails/10*/usr/src/usr.bin/xlint*}
# Disable build of llib now that head no longer has lint(1)
LINT=	true
.endif
#### /usr/ports/Mk/Scripts/ports_env.sh ####
_CCVERSION_9d218390=FreeBSD clang version 4.0.0 (tags/RELEASE_400/final 297347) (based on LLVM 4.0.0) Target: armv6-unknown-freebsd11.1-gnueabihf Thread model: posix InstalledDir: /nxb-bin/usr/bin
_ALTCCVERSION_9d218390=none
_CXXINTERNAL_9c45a5b1=FreeBSD clang version 4.0.0 (tags/RELEASE_400/final 297347) (based on LLVM 4.0.0) Target: armv6-unknown-freebsd11.1-gnueabihf Thread model: posix InstalledDir: /nxb-bin/usr/bin "/nxb-bin/usr/bin/ld" "--eh-frame-hdr" "-dynamic-linker" "/libexec/ld-elf.so.1" "--hash-style=both" "--enable-new-dtags" "-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=error: invalid value 'c++17' in '-std=c++17'
CC_OUTPUT_9d218390_b2657cc3=yes
CC_OUTPUT_9d218390_380987f7=yes
CC_OUTPUT_9d218390_160933ec=yes
CC_OUTPUT_9d218390_fb62803b=error: invalid value 'gnu++17' in '-std=gnu++17'
_OBJC_CCVERSION_9d218390=FreeBSD clang version 4.0.0 (tags/RELEASE_400/final 297347) (based on LLVM 4.0.0) Target: armv6-unknown-freebsd11.1-gnueabihf Thread model: posix InstalledDir: /nxb-bin/usr/bin
_OBJC_ALTCCVERSION_9d218390=none
ARCH=armv6
OPSYS=FreeBSD
_OSRELEASE=11.1-RELEASE-p13
OSREL=11.1
OSVERSION=1101001
PYTHONBASE=/usr/local
CONFIGURE_MAX_CMD_LEN=262144
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++
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--
=======================<phase: check-sanity   >============================
===>  License MIT accepted by the user
===========================================================================
=======================<phase: pkg-depends    >============================
===>   py36-bx-python-0.8.1_1 depends on file: /usr/local/sbin/pkg - not found
===>   Installing existing package /packages/All/pkg-1.10.5_1.txz
[111armv6-quarterly-job-16] Installing pkg-1.10.5_1...
[111armv6-quarterly-job-16] Extracting pkg-1.10.5_1: .......... done
===>   py36-bx-python-0.8.1_1 depends on file: /usr/local/sbin/pkg - found
===>   Returning to build of py36-bx-python-0.8.1_1
===========================================================================
=======================<phase: fetch-depends  >============================
===========================================================================
=======================<phase: fetch          >============================
===>  License MIT accepted by the user
===> Fetching all distfiles required by py36-bx-python-0.8.1_1 for building
===========================================================================
=======================<phase: checksum       >============================
===>  License MIT accepted by the user
===> Fetching all distfiles required by py36-bx-python-0.8.1_1 for building
=> SHA256 Checksum OK for bxlab-bx-python-0.8.1_GH0.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===========================================================================
=======================<phase: extract        >============================
===>  License MIT accepted by the user
===> Fetching all distfiles required by py36-bx-python-0.8.1_1 for building
===>  Extracting for py36-bx-python-0.8.1_1
=> SHA256 Checksum OK for bxlab-bx-python-0.8.1_GH0.tar.gz.
===========================================================================
=======================<phase: patch-depends  >============================
===========================================================================
=======================<phase: patch          >============================
===>  Patching for py36-bx-python-0.8.1_1
===========================================================================
=======================<phase: build-depends  >============================
===>   py36-bx-python-0.8.1_1 depends on package: py36-numpy>0 - not found
===>   Installing existing package /packages/All/py36-numpy-1.14.3,1.txz
[111armv6-quarterly-job-16] Installing py36-numpy-1.14.3,1...
[111armv6-quarterly-job-16] `-- Installing blas-3.5.0_4...
[111armv6-quarterly-job-16] |   `-- Installing gcc6-6.4.0_7...
[111armv6-quarterly-job-16] |   | `-- Installing binutils-2.30_3,1...
[111armv6-quarterly-job-16] |   |   `-- Installing gettext-runtime-0.19.8.1_1...
[111armv6-quarterly-job-16] |   |   | `-- Installing indexinfo-0.3.1...
[111armv6-quarterly-job-16] |   |   | `-- Extracting indexinfo-0.3.1: .... done
[111armv6-quarterly-job-16] |   |   `-- Extracting gettext-runtime-0.19.8.1_1: .......... done
[111armv6-quarterly-job-16] |   | `-- Extracting binutils-2.30_3,1: .......... done
[111armv6-quarterly-job-16] |   | `-- Installing gmp-6.1.2...
[111armv6-quarterly-job-16] |   | `-- Extracting gmp-6.1.2: .......... done
[111armv6-quarterly-job-16] |   | `-- Installing mpc-1.1.0_1...
[111armv6-quarterly-job-16] |   |   `-- Installing mpfr-4.0.1...
[111armv6-quarterly-job-16] |   |   `-- Extracting mpfr-4.0.1: .......... done
[111armv6-quarterly-job-16] |   | `-- Extracting mpc-1.1.0_1: ......... done
[111armv6-quarterly-job-16] |   `-- Extracting gcc6-6.4.0_7: .......... done
[111armv6-quarterly-job-16] `-- Extracting blas-3.5.0_4: ....... done
[111armv6-quarterly-job-16] `-- Installing cblas-1.0_8...
[111armv6-quarterly-job-16] `-- Extracting cblas-1.0_8: ......... done
[111armv6-quarterly-job-16] `-- Installing lapack-3.5.0_4...
[111armv6-quarterly-job-16] `-- Extracting lapack-3.5.0_4: .......... done
[111armv6-quarterly-job-16] `-- Installing py36-setuptools-39.2.0...
[111armv6-quarterly-job-16] |   `-- Installing python36-3.6.5...
[111armv6-quarterly-job-16] |   | `-- Installing libffi-3.2.1_2...
[111armv6-quarterly-job-16] |   | `-- Extracting libffi-3.2.1_2: .......... done
[111armv6-quarterly-job-16] |   | `-- Installing readline-7.0.3_1...
[111armv6-quarterly-job-16] |   | `-- Extracting readline-7.0.3_1: .......... done
[111armv6-quarterly-job-16] |   `-- Extracting python36-3.6.5: .......... done
[111armv6-quarterly-job-16] `-- Extracting py36-setuptools-39.2.0: .......... done
[111armv6-quarterly-job-16] `-- Installing suitesparse-5.2.0...
[111armv6-quarterly-job-16] |   `-- Installing metis-5.1.0_4...
[111armv6-quarterly-job-16] |   `-- Extracting metis-5.1.0_4: .......... done
[111armv6-quarterly-job-16] |   `-- Installing openblas-0.2.20_2,1...
[111armv6-quarterly-job-16] |   `-- Extracting openblas-0.2.20_2,1: ......... done
[111armv6-quarterly-job-16] `-- Extracting suitesparse-5.2.0: .......... done
[111armv6-quarterly-job-16] Extracting py36-numpy-1.14.3,1: .......... done
Message from gcc6-6.4.0_7:

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_8:

===>   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 python36-3.6.5:

===========================================================================

Note that some standard Python modules are provided as separate ports
as they require additional dependencies. They are available as:

py36-gdbm       databases/py-gdbm@py36
py36-sqlite3    databases/py-sqlite3@py36
py36-tkinter    x11-toolkits/py-tkinter@py36

===========================================================================
Message from py36-setuptools-39.2.0:

*******************************************************************

  Only /usr/local/bin/easy_install-3.6 script has been installed
  since Python 3.6 is not the default Python version.

*******************************************************************
Message from metis-5.1.0_4:

===>   NOTICE:

The metis 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
===>   py36-bx-python-0.8.1_1 depends on package: py36-numpy>0 - found
===>   Returning to build of py36-bx-python-0.8.1_1
===>   py36-bx-python-0.8.1_1 depends on package: py36-python-lzo>0 - not found
===>   Installing existing package /packages/All/py36-python-lzo-1.12.txz
[111armv6-quarterly-job-16] Installing py36-python-lzo-1.12...
[111armv6-quarterly-job-16] `-- Installing lzo2-2.10_1...
[111armv6-quarterly-job-16] `-- Extracting lzo2-2.10_1: .......... done
[111armv6-quarterly-job-16] Extracting py36-python-lzo-1.12: ........ done
===>   py36-bx-python-0.8.1_1 depends on package: py36-python-lzo>0 - found
===>   Returning to build of py36-bx-python-0.8.1_1
===>   py36-bx-python-0.8.1_1 depends on executable: cython-3.6 - not found
===>   Installing existing package /packages/All/py36-cython-0.28.2.txz
[111armv6-quarterly-job-16] Installing py36-cython-0.28.2...
[111armv6-quarterly-job-16] Extracting py36-cython-0.28.2: .......... done
===>   py36-bx-python-0.8.1_1 depends on executable: cython-3.6 - found
===>   Returning to build of py36-bx-python-0.8.1_1
===>   py36-bx-python-0.8.1_1 depends on package: py36-setuptools>0 - found
===>   py36-bx-python-0.8.1_1 depends on file: /usr/local/bin/python3.6 - found
===========================================================================
=======================<phase: lib-depends    >============================
===========================================================================
=======================<phase: configure      >============================
===>  Configuring for py36-bx-python-0.8.1_1
Traceback (most recent call last):
  File "<string>", line 1, in <module>
  File "setup.py", line 266, in <module>
    main()
  File "setup.py", line 73, 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



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