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Date:      Tue, 28 Feb 2017 02:21:17 GMT
From:      pkg-fallout@FreeBSD.org
To:        pkg-fallout@FreeBSD.org
Subject:   [package - 110mips-quarterly][biology/libsbml] Failed for libsbml-5.13.0 in configure
Message-ID:  <201702280221.v1S2LHM8049848@beefy14.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:     ports@FreeBSD.org
Last committer: mat@FreeBSD.org
Ident:          $FreeBSD: branches/2017Q1/biology/libsbml/Makefile 425174 2016-11-02 22:45:14Z mat $
Log URL:        http://beefy14.nyi.freebsd.org/data/110mips-quarterly/434978/logs/libsbml-5.13.0.log
Build URL:      http://beefy14.nyi.freebsd.org/build.html?mastername=110mips-quarterly&build=434978
Log:

====>> Building biology/libsbml
build started at Tue Feb 28 02:20:50 UTC 2017
port directory: /usr/ports/biology/libsbml
building for: FreeBSD 110mips-quarterly-job-15 11.0-RELEASE-p8 FreeBSD 11.0-RELEASE-p8 r314125 mips
maintained by: ports@FreeBSD.org
Makefile ident:      $FreeBSD: branches/2017Q1/biology/libsbml/Makefile 425174 2016-11-02 22:45:14Z mat $
Poudriere version: 3.1.14
Host OSVERSION: 1200020
Jail OSVERSION: 1100122
Job Id: 15

---Begin Environment---
SHELL=/bin/csh
UNAME_p=mips
UNAME_m=mips
ABI_FILE=/usr/lib/crt1.o
OSVERSION=1100122
UNAME_v=FreeBSD 11.0-RELEASE-p8 r314125
UNAME_r=11.0-RELEASE-p8
BLOCKSIZE=K
MAIL=/var/mail/root
STATUS=1
SAVED_TERM=
MASTERMNT=/usr/local/poudriere/data/.m/110mips-quarterly/ref
QEMU_EMULATING=1
PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin
POUDRIERE_BUILD_TYPE=bulk
PKGNAME=libsbml-5.13.0
OLDPWD=/
PWD=/usr/local/poudriere/data/.m/110mips-quarterly/ref/.p/pool
MASTERNAME=110mips-quarterly
SCRIPTPREFIX=/usr/local/share/poudriere
USER=root
HOME=/root
POUDRIERE_VERSION=3.1.14
SCRIPTPATH=/usr/local/share/poudriere/bulk.sh
LIBEXECPREFIX=/usr/local/libexec/poudriere
LOCALBASE=/usr/local
PACKAGE_BUILDING=yes
---End Environment---

---Begin OPTIONS List---
===> The following configuration options are available for libsbml-5.13.0:
     EXAMPLES=on: Build and/or install examples
     PYTHON=off: Python bindings or support
     RUBY=off: Ruby bindings or support
===> Use 'make config' to modify these settings
---End OPTIONS List---

--CONFIGURE_ARGS--

--End CONFIGURE_ARGS--

--CONFIGURE_ENV--
XDG_DATA_HOME=/wrkdirs/usr/ports/biology/libsbml/work  XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/libsbml/work  HOME=/wrkdirs/usr/ports/biology/libsbml/work TMPDIR="/tmp" SHELL=/bin/sh CONFIG_SHELL=/bin/sh
--End CONFIGURE_ENV--

--MAKE_ENV--
XDG_DATA_HOME=/wrkdirs/usr/ports/biology/libsbml/work  XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/libsbml/work  HOME=/wrkdirs/usr/ports/biology/libsbml/work TMPDIR="/tmp" NO_PIE=yes MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES PREFIX=/usr/local  LOCALBASE=/usr/local  LIBDIR="/usr/lib"  CC="/nxb-bin/usr/bin/cc" CFLAGS="-O2 -pipe -G0  -I/usr/include -DLIBICONV_PLUG -fno-strict-aliasing"  CPP="/nxb-bin/usr/bin/cpp" CPPFLAGS="-DLIBICONV_PLUG"  LDFLAGS=" -L/usr/lib" LIBS=""  CXX="/nxb-bin/usr/bin/c++" CXXFLAGS="-O2 -pipe -G0 -I/usr/include -DLIBICONV_PLUG -fno-strict-aliasing  -DLIBICONV_PLUG"  MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install  -s -m 555"  BSD_INSTALL_LIB="install  -s -m 444"  BSD_INSTALL_SCRIPT="install  -m 555"  BSD_INSTALL_DATA="install  -m 0644"  BSD_INSTALL_MAN="install  -m 444"
--End MAKE_ENV--

--PLIST_SUB--
PORTVERSION=5.13.0
EXAMPLES=""
NO_EXAMPLES="@comment
"
PYTHON="@comment
"
NO_PYTHON=""
RUBY="@comment
"
NO_RUBY=""
CMAKE_BUILD_TYPE="release"
GTK2_VERSION="2.10.0"
GTK3_VERSION="3.0.0"
OSREL=11.0
PREFIX=%D
LOCALBASE=/usr/local
RESETPREFIX=/usr/local
PORTDOCS=""
PORTEXAMPLES=""
LIB32DIR=lib
DOCSDIR="share/doc/libsbml"
EXAMPLESDIR="share/examples/libsbml"
DATADIR="share/libsbml"
WWWDIR="www/libsbml"
ETCDIR="etc/libsbml"
--End PLIST_SUB--

--SUB_LIST--
EXAMPLES=""
NO_EXAMPLES="@comment
"
PYTHON="@comment
"
NO_PYTHON=""
RUBY="@comment
"
NO_RUBY=""
PREFIX=/usr/local
LOCALBASE=/usr/local
DATADIR=/usr/local/share/libsbml
DOCSDIR=/usr/local/share/doc/libsbml
EXAMPLESDIR=/usr/local/share/examples/libsbml
WWWDIR=/usr/local/www/libsbml
ETCDIR=/usr/local/etc/libsbml
--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
MACHINE=mips
MACHINE_ARCH=mips
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=mips
CONFIGURE_MAX_CMD_LEN=262144
OPSYS=FreeBSD
OSREL=11.0
OSVERSION=1100122
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=11.0-RELEASE-p8
#### 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)  9223372032559808512
file size           (512-blocks, -f)  18014398501093376
data seg size           (kbytes, -d)  562949953421312
stack size              (kbytes, -s)  35184372088832
core file size      (512-blocks, -c)  18014398501093376
max memory size         (kbytes, -m)  9007199250546688
locked memory           (kbytes, -l)  9007199250546688
max user processes              (-u)  386542761672704
open files                      (-n)  4398046511104
virtual mem size        (kbytes, -v)  9007199250546688
swap limit              (kbytes, -w)  9007199250546688
socket buffer size       (bytes, -b)  9223372032559808512
pseudo-terminals                (-p)  9223372032559808512
kqueues                         (-k)  9223372032559808512
umtx shared locks               (-o)  9223372032559808512
--End resource limits--
=======================<phase: check-sanity   >============================
===>   NOTICE:

The libsbml 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

===>  License LGPL21 accepted by the user
===========================================================================
=======================<phase: pkg-depends    >============================
===>   libsbml-5.13.0 depends on file: /usr/local/sbin/pkg - not found
===>   Installing existing package /packages/All/pkg-1.9.4_1.txz
[110mips-quarterly-job-15] Installing pkg-1.9.4_1...
[110mips-quarterly-job-15] Extracting pkg-1.9.4_1: .......... done
===>   libsbml-5.13.0 depends on file: /usr/local/sbin/pkg - found
===>   Returning to build of libsbml-5.13.0
===========================================================================
=======================<phase: fetch-depends  >============================
===========================================================================
=======================<phase: fetch          >============================
===>   NOTICE:

The libsbml 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

===>  License LGPL21 accepted by the user
===> Fetching all distfiles required by libsbml-5.13.0 for building
===========================================================================
=======================<phase: checksum       >============================
===>   NOTICE:

The libsbml 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

===>  License LGPL21 accepted by the user
===> Fetching all distfiles required by libsbml-5.13.0 for building
=> SHA256 Checksum OK for libSBML-5.13.0-core-src.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===========================================================================
=======================<phase: extract        >============================
===>   NOTICE:

The libsbml 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

===>  License LGPL21 accepted by the user
===> Fetching all distfiles required by libsbml-5.13.0 for building
===>  Extracting for libsbml-5.13.0
=> SHA256 Checksum OK for libSBML-5.13.0-core-src.tar.gz.
===========================================================================
=======================<phase: patch-depends  >============================
===========================================================================
=======================<phase: patch          >============================
===>  Patching for libsbml-5.13.0
===========================================================================
=======================<phase: build-depends  >============================
===>   libsbml-5.13.0 depends on file: /usr/local/bin/cmake - not found
===>   Installing existing package /packages/All/cmake-3.7.1.txz
[110mips-quarterly-job-15] Installing cmake-3.7.1...
[110mips-quarterly-job-15] `-- Installing expat-2.2.0_1...
[110mips-quarterly-job-15] `-- Extracting expat-2.2.0_1: .......... done
[110mips-quarterly-job-15] `-- Installing cmake-modules-3.7.1...
[110mips-quarterly-job-15] `-- Extracting cmake-modules-3.7.1: .......... done
[110mips-quarterly-job-15] `-- Installing curl-7.53.0...
[110mips-quarterly-job-15] |   `-- Installing libnghttp2-1.18.0...
[110mips-quarterly-job-15] |   `-- Extracting libnghttp2-1.18.0: .......... done
[110mips-quarterly-job-15] |   `-- Installing ca_root_nss-3.29.1...
[110mips-quarterly-job-15] |   `-- Extracting ca_root_nss-3.29.1: ........ done
[110mips-quarterly-job-15] `-- Extracting curl-7.53.0: .......... done
[110mips-quarterly-job-15] `-- Installing libarchive-3.2.2,1...
[110mips-quarterly-job-15] |   `-- Installing liblz4-131...
[110mips-quarterly-job-15] |   `-- Extracting liblz4-131: .......... done
[110mips-quarterly-job-15] |   `-- Installing lzo2-2.09...
[110mips-quarterly-job-15] |   `-- Extracting lzo2-2.09: .......... done
[110mips-quarterly-job-15] `-- Extracting libarchive-3.2.2,1: .......... done
[110mips-quarterly-job-15] `-- Installing jsoncpp-1.8.0_1...
[110mips-quarterly-job-15] `-- Extracting jsoncpp-1.8.0_1: .......... done
[110mips-quarterly-job-15] `-- Installing libuv-1.10.1...
[110mips-quarterly-job-15] `-- Extracting libuv-1.10.1: .......... done
[110mips-quarterly-job-15] Extracting cmake-3.7.1: .......... done
Message from ca_root_nss-3.29.1:
********************************* 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

***************************************************************************
===>   libsbml-5.13.0 depends on file: /usr/local/bin/cmake - found
===>   Returning to build of libsbml-5.13.0
===========================================================================
=======================<phase: lib-depends    >============================
===>   libsbml-5.13.0 depends on shared library: libxml2.so - not found
===>   Installing existing package /packages/All/libxml2-2.9.4.txz
[110mips-quarterly-job-15] Installing libxml2-2.9.4...
[110mips-quarterly-job-15] Extracting libxml2-2.9.4: .......... done
===>   libsbml-5.13.0 depends on shared library: libxml2.so - found (/usr/local/lib/libxml2.so)
===>   Returning to build of libsbml-5.13.0
===========================================================================
=======================<phase: configure      >============================
===>  Configuring for libsbml-5.13.0
===>   FreeBSD 10 autotools fix applied to /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.13.0/config/libtool.m4
===>   FreeBSD 10 autotools fix applied to /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.13.0/configure
===>  Performing out-of-source build
/bin/mkdir -p /wrkdirs/usr/ports/biology/libsbml/work/.build
-- The C compiler identification is GNU 4.2.1
-- The CXX compiler identification is GNU 4.2.1
-- Check for working C compiler: /nxb-bin/usr/bin/cc
CMake Error: Generator: execution of make failed. Make command was: "/usr/bin/make" "cmTC_d59c1/fast"
-- Check for working C compiler: /nxb-bin/usr/bin/cc -- broken
CMake Error at /usr/local/share/cmake/Modules/CMakeTestCCompiler.cmake:51 (message):
  The C compiler "/nxb-bin/usr/bin/cc" is not able to compile a simple test
  program.

  It fails with the following output:

   Change Dir: /wrkdirs/usr/ports/biology/libsbml/work/.build/CMakeFiles/CMakeTmp

  

  Run Build Command:"/usr/bin/make" "cmTC_d59c1/fast"

  /nxb-bin/usr/bin/make -f CMakeFiles/cmTC_d59c1.dir/build.make
  CMakeFiles/cmTC_d59c1.dir/build

  Building C object CMakeFiles/cmTC_d59c1.dir/testCCompiler.c.o

  /nxb-bin/usr/bin/cc -O2 -pipe -G0 -I/usr/include -DLIBICONV_PLUG
  -fno-strict-aliasing -o CMakeFiles/cmTC_d59c1.dir/testCCompiler.c.o -c
  /wrkdirs/usr/ports/biology/libsbml/work/.build/CMakeFiles/CMakeTmp/testCCompiler.c


  Linking C executable cmTC_d59c1

  /usr/local/bin/cmake -E cmake_link_script
  CMakeFiles/cmTC_d59c1.dir/link.txt --verbose=1

  /nxb-bin/usr/bin/cc -O2 -pipe -G0 -I/usr/include -DLIBICONV_PLUG
  -fno-strict-aliasing CMakeFiles/cmTC_d59c1.dir/testCCompiler.c.o -o
  cmTC_d59c1

  

  Generator: execution of make failed.  Make command was: "/usr/bin/make"
  "cmTC_d59c1/fast"

  

  

  CMake will not be able to correctly generate this project.
Call Stack (most recent call first):
  CMakeLists.txt:35 (project)


-- Configuring incomplete, errors occurred!
See also "/wrkdirs/usr/ports/biology/libsbml/work/.build/CMakeFiles/CMakeOutput.log".
See also "/wrkdirs/usr/ports/biology/libsbml/work/.build/CMakeFiles/CMakeError.log".
*** Error code 1

Stop.
make: stopped in /usr/ports/biology/libsbml



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