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build.

Maintainer:     j...@freebsd.org
Last committer: jbe...@freebsd.org
Ident:          $FreeBSD: head/biology/unanimity/Makefile 476723 2018-08-09 
06:58:30Z jbeich $
Log URL:        
http://package19.nyi.freebsd.org/data/104amd64-default-build-as-user/476857/logs/unanimity-g20180307_1.log
Build URL:      
http://package19.nyi.freebsd.org/build.html?mastername=104amd64-default-build-as-user&build=476857
Log:

=>> Building biology/unanimity
build started at Sun Aug 12 06:46:32 UTC 2018
port directory: /usr/ports/biology/unanimity
package name: unanimity-g20180307_1
building for: FreeBSD 104amd64-default-build-as-user-job-14 10.4-RELEASE-p10 
FreeBSD 10.4-RELEASE-p10 amd64
maintained by: j...@freebsd.org
Makefile ident:      $FreeBSD: head/biology/unanimity/Makefile 476723 
2018-08-09 06:58:30Z jbeich $
Poudriere version: 3.2.7-2-g1cf194be
Host OSVERSION: 1200069
Jail OSVERSION: 1004000
Job Id: 14

---Begin Environment---
SHELL=/bin/csh
OSVERSION=1004000
UNAME_v=FreeBSD 10.4-RELEASE-p10
UNAME_r=10.4-RELEASE-p10
BLOCKSIZE=K
MAIL=/var/mail/root
STATUS=1
HOME=/root
PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/games:/usr/local/sbin:/usr/local/bin:/root/bin
LOCALBASE=/usr/local
USER=root
LIBEXECPREFIX=/usr/local/libexec/poudriere
POUDRIERE_VERSION=3.2.7-2-g1cf194be
MASTERMNT=/poudriere/data/.m/104amd64-default-build-as-user/ref
POUDRIERE_BUILD_TYPE=bulk
PACKAGE_BUILDING=yes
SAVED_TERM=
GID=0
UID=0
PWD=/poudriere/data/.m/104amd64-default-build-as-user/ref/.p/pool
P_PORTS_FEATURES=FLAVORS SELECTED_OPTIONS
MASTERNAME=104amd64-default-build-as-user
SCRIPTPREFIX=/usr/local/share/poudriere
OLDPWD=/poudriere/data/.m/104amd64-default-build-as-user/ref/.p
SCRIPTPATH=/usr/local/share/poudriere/bulk.sh
POUDRIEREPATH=/usr/local/bin/poudriere
---End Environment---

---Begin Poudriere Port Flags/Env---
PORT_FLAGS=
PKGENV=
FLAVOR=
DEPENDS_ARGS=
MAKE_ARGS=
---End Poudriere Port Flags/Env---

---Begin OPTIONS List---
---End OPTIONS List---

--MAINTAINER--
j...@freebsd.org
--End MAINTAINER--

--CONFIGURE_ARGS--

--End CONFIGURE_ARGS--

--CONFIGURE_ENV--
PKG_CONFIG=pkgconf PYTHON="/usr/local/bin/python2.7" 
XDG_DATA_HOME=/wrkdirs/usr/ports/biology/unanimity/work  
XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/unanimity/work  
HOME=/wrkdirs/usr/ports/biology/unanimity/work TMPDIR="/tmp" 
PATH=/wrkdirs/usr/ports/biology/unanimity/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/games:/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/unanimity/work  
XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/unanimity/work  
HOME=/wrkdirs/usr/ports/biology/unanimity/work TMPDIR="/tmp" 
PATH=/wrkdirs/usr/ports/biology/unanimity/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/games:/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 
DESTDIR=/wrkdirs/usr/ports/biology/unanimity/work/stage PREFIX=/usr/local  
LOCALBASE=/usr/local  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--
PORTDOCS="" PORTEXAMPLES="" CMAKE_BUILD_TYPE="release" 
PYTHON_INCLUDEDIR=include/python2.7  PYTHON_LIBDIR=lib/python2.7  
PYTHON_PLATFORM=freebsd10  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=10.4 PREFIX=%D 
LOCALBASE=/usr/local  RESETPREFIX=/usr/local LIB32DIR=lib 
DOCSDIR="share/doc/unanimity"  EXAMPLESDIR="share/examples/unanimity"  
DATADIR="share/unanimity"  WWWDIR="www/unanimity"  ETCDIR="etc/unanimity"
--End PLIST_SUB--

--SUB_LIST--
PREFIX=/usr/local LOCALBASE=/usr/local  DATADIR=/usr/local/share/unanimity 
DOCSDIR=/usr/local/share/doc/unanimity 
EXAMPLESDIR=/usr/local/share/examples/unanimity  
WWWDIR=/usr/local/www/unanimity ETCDIR=/usr/local/etc/unanimity
--End SUB_LIST--

---Begin make.conf---
USE_PACKAGE_DEPENDS=yes
BATCH=yes
WRKDIRPREFIX=/wrkdirs
PORTSDIR=/usr/ports
PACKAGES=/packages
DISTDIR=/distfiles
FORCE_PACKAGE=yes
PACKAGE_BUILDING=yes
PACKAGE_BUILDING_FLAVORS=yes
#### /usr/local/etc/poudriere.d/make.conf ####
# 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_921dbbb2=FreeBSD clang version 3.4.1 (tags/RELEASE_34/dot1-final 
208032) 20140512 Target: x86_64-unknown-freebsd10.4 Thread model: posix
_ALTCCVERSION_921dbbb2=none
_CXXINTERNAL_acaad9ca=FreeBSD clang version 3.4.1 (tags/RELEASE_34/dot1-final 
208032) 20140512 Target: x86_64-unknown-freebsd10.4 Thread model: posix 
"/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_921dbbb2_58173849=yes
CC_OUTPUT_921dbbb2_9bdba57c=yes
CC_OUTPUT_921dbbb2_6a4fe7f5=yes
CC_OUTPUT_921dbbb2_6bcac02b=yes
CC_OUTPUT_921dbbb2_67d20829=yes
CC_OUTPUT_921dbbb2_bfa62e83=yes
CC_OUTPUT_921dbbb2_f0b4d593=yes
CC_OUTPUT_921dbbb2_308abb44=yes
CC_OUTPUT_921dbbb2_f00456e5=yes
CC_OUTPUT_921dbbb2_65ad290d=error: invalid value 'c++14' in '-std=c++14'
CC_OUTPUT_921dbbb2_f2776b26=error: invalid value 'c++17' in '-std=c++17'
CC_OUTPUT_921dbbb2_b2657cc3=yes
CC_OUTPUT_921dbbb2_380987f7=yes
CC_OUTPUT_921dbbb2_160933ec=error: invalid value 'gnu++14' in '-std=gnu++14'
CC_OUTPUT_921dbbb2_fb62803b=error: invalid value 'gnu++17' in '-std=gnu++17'
_OBJC_CCVERSION_921dbbb2=FreeBSD clang version 3.4.1 
(tags/RELEASE_34/dot1-final 208032) 20140512 Target: x86_64-unknown-freebsd10.4 
Thread model: posix
_OBJC_ALTCCVERSION_921dbbb2=none
ARCH=amd64
OPSYS=FreeBSD
_OSRELEASE=10.4-RELEASE-p10
OSREL=10.4
OSVERSION=1004000
PYTHONBASE=/usr/local
HAVE_COMPAT_IA32_KERN=YES
CONFIGURE_MAX_CMD_LEN=262144
HAVE_PORTS_ENV=1
#### Misc Poudriere ####
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)  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
sbsize                   (bytes, -b)  unlimited
pseudo-terminals                (-p)  unlimited
--End resource limits--
=======================<phase: check-sanity   >============================
===>  License BSD3CLAUSE accepted by the user
===========================================================================
=======================<phase: pkg-depends    >============================
===>   unanimity-g20180307_1 depends on file: /usr/local/sbin/pkg - not found
===>   Installing existing package /packages/All/pkg-1.10.5_1.txz
[104amd64-default-build-as-user-job-14] Installing pkg-1.10.5_1...
[104amd64-default-build-as-user-job-14] Extracting pkg-1.10.5_1: .......... done
===>   unanimity-g20180307_1 depends on file: /usr/local/sbin/pkg - found
===>   Returning to build of unanimity-g20180307_1
===========================================================================
=======================<phase: fetch-depends  >============================
===========================================================================
=======================<phase: fetch          >============================
===>  License BSD3CLAUSE accepted by the user
===> Fetching all distfiles required by unanimity-g20180307_1 for building
===========================================================================
=======================<phase: checksum       >============================
===>  License BSD3CLAUSE accepted by the user
===> Fetching all distfiles required by unanimity-g20180307_1 for building
=> SHA256 Checksum OK for 
PacificBiosciences-unanimity-g20180307-6f11a13e1472b8c00337ba8c5e94bf83bdab31d6_GH0.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===========================================================================
=======================<phase: extract        >============================
===>  License BSD3CLAUSE accepted by the user
===> Fetching all distfiles required by unanimity-g20180307_1 for building
===>  Extracting for unanimity-g20180307_1
=> SHA256 Checksum OK for 
PacificBiosciences-unanimity-g20180307-6f11a13e1472b8c00337ba8c5e94bf83bdab31d6_GH0.tar.gz.
===========================================================================
=======================<phase: patch-depends  >============================
===========================================================================
=======================<phase: patch          >============================
===>  Patching for unanimity-g20180307_1
===>  Applying FreeBSD patches for unanimity-g20180307_1
===========================================================================
=======================<phase: build-depends  >============================
===>   unanimity-g20180307_1 depends on package: pbseqan==g20171002 - not found
===>   Installing existing package /packages/All/pbseqan-g20171002.txz
[104amd64-default-build-as-user-job-14] Installing pbseqan-g20171002...
[104amd64-default-build-as-user-job-14] Extracting pbseqan-g20171002: 
.......... done
===>   unanimity-g20180307_1 depends on package: pbseqan==g20171002 - found
===>   Returning to build of unanimity-g20180307_1
===>   unanimity-g20180307_1 depends on package: pbbam==g20180416 - not found
===>   Installing existing package /packages/All/pbbam-g20180416_1.txz
[104amd64-default-build-as-user-job-14] Installing pbbam-g20180416_1...
[104amd64-default-build-as-user-job-14] `-- Installing boost-libs-1.68.0...
[104amd64-default-build-as-user-job-14] |   `-- Installing icu-62.1_2,1...
[104amd64-default-build-as-user-job-14] |   `-- Extracting icu-62.1_2,1: 
.......... done
[104amd64-default-build-as-user-job-14] `-- Extracting boost-libs-1.68.0: 
.......... done
[104amd64-default-build-as-user-job-14] `-- Installing htslib-1.9...
[104amd64-default-build-as-user-job-14] |   `-- Installing curl-7.61.0_1...
[104amd64-default-build-as-user-job-14] |   | `-- Installing ca_root_nss-3.38...
[104amd64-default-build-as-user-job-14] |   | `-- Extracting ca_root_nss-3.38: 
........ done
[104amd64-default-build-as-user-job-14] |   | `-- Installing 
libnghttp2-1.32.0...
[104amd64-default-build-as-user-job-14] |   | `-- Extracting libnghttp2-1.32.0: 
.......... done
[104amd64-default-build-as-user-job-14] |   `-- Extracting curl-7.61.0_1: 
.......... done
[104amd64-default-build-as-user-job-14] `-- Extracting htslib-1.9: .......... 
done
[104amd64-default-build-as-user-job-14] Extracting pbbam-g20180416_1: 
.......... done
Message from boost-libs-1.68.0:

You have built the Boost library with thread support.

Don't forget to add -pthread to your linker options when
linking your code.
Message from ca_root_nss-3.38:

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

***************************************************************************
===>   unanimity-g20180307_1 depends on package: pbbam==g20180416 - not found
*** Error code 1

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