[package - 112mips-quarterly][biology/ngs-sdk] Failed for ngs-sdk-2.9.3 in build
pkg-fallout at FreeBSD.org
pkg-fallout at FreeBSD.org
Tue Feb 19 01:51:36 UTC 2019
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 at FreeBSD.org
Last committer: yuri at FreeBSD.org
Ident: $FreeBSD: branches/2019Q1/biology/ngs-sdk/Makefile 482381 2018-10-18 21:38:21Z yuri $
Log URL: http://beefy14.nyi.freebsd.org/data/112mips-quarterly/493344/logs/ngs-sdk-2.9.3.log
Build URL: http://beefy14.nyi.freebsd.org/build.html?mastername=112mips-quarterly&build=493344
Log:
=>> Building biology/ngs-sdk
build started at Tue Feb 19 01:50:46 UTC 2019
port directory: /usr/ports/biology/ngs-sdk
package name: ngs-sdk-2.9.3
building for: FreeBSD 112mips-quarterly-job-01 11.2-RELEASE-p9 FreeBSD 11.2-RELEASE-p9 1102000 mips
maintained by: yuri at FreeBSD.org
Makefile ident: $FreeBSD: branches/2019Q1/biology/ngs-sdk/Makefile 482381 2018-10-18 21:38:21Z yuri $
Poudriere version: 3.2.8-3-g02cc9753
Host OSVERSION: 1300009
Jail OSVERSION: 1102000
Job Id: 01
---Begin Environment---
POUDRIEREPATH=/usr/local/bin/poudriere
SCRIPTPATH=/usr/local/share/poudriere/bulk.sh
OLDPWD=/usr/local/poudriere/data/.m/112mips-quarterly/ref/.p
SCRIPTPREFIX=/usr/local/share/poudriere
MASTERNAME=112mips-quarterly
P_PORTS_FEATURES=FLAVORS SELECTED_OPTIONS
PWD=/usr/local/poudriere/data/.m/112mips-quarterly/ref/.p/pool
SAVED_TERM=
PACKAGE_BUILDING=yes
POUDRIERE_BUILD_TYPE=bulk
MASTERMNT=/usr/local/poudriere/data/.m/112mips-quarterly/ref
POUDRIERE_VERSION=3.2.8-3-g02cc9753
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
UNAME_r=11.2-RELEASE-p9
UNAME_v=FreeBSD 11.2-RELEASE-p9 1102000
OSVERSION=1102000
ABI_FILE=/usr/lib/crt1.o
UNAME_m=mips
UNAME_p=mips
SHELL=/bin/csh
---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--
yuri at FreeBSD.org
--End MAINTAINER--
--CONFIGURE_ARGS--
--prefix=/usr/local ${_LATE_CONFIGURE_ARGS}
--End CONFIGURE_ARGS--
--CONFIGURE_ENV--
MAKE=gmake ac_cv_path_PERL=/usr/local/bin/perl ac_cv_path_PERL_PATH=/usr/local/bin/perl PERL_USE_UNSAFE_INC=1 XDG_DATA_HOME=/wrkdirs/usr/ports/biology/ngs-sdk/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/ngs-sdk/work HOME=/wrkdirs/usr/ports/biology/ngs-sdk/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/ngs-sdk/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin SHELL=/bin/sh CONFIG_SHELL=/bin/sh CONFIG_SITE=/usr/ports/Templates/config.site lt_cv_sys_max_cmd_len=262144
--End CONFIGURE_ENV--
--MAKE_ENV--
PERL_USE_UNSAFE_INC=1 XDG_DATA_HOME=/wrkdirs/usr/ports/biology/ngs-sdk/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/ngs-sdk/work HOME=/wrkdirs/usr/ports/biology/ngs-sdk/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/ngs-sdk/work/.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 PREFIX=/usr/local LOCALBASE=/usr/local CC="/nxb-bin/usr/bin/cc" CFLAGS="-O2 -pipe -G0 -I/wrkdirs/usr/ports/biology/ngs-sdk/work/ngs-2.9.3/ngs-sdk/ngs/unix/mips/ -fno-strict-aliasing " CPP="/nxb-bin/usr/bin/cpp" CPPFLAGS="" LDFLAGS=" " LIBS="" CXX="/nxb-bin/usr/bin/c++" CXXFLAGS="-O2 -pipe -G0 -I/wrkdirs/usr/ports/biology/ngs-sdk/work/ngs-2.9.3/ngs-sdk/ngs/unix/mips/ -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--
OSREL=11.2 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib PERL_VERSION=5.28.1 PERL_VER=5.28 PERL5_MAN1=lib/perl5/site_perl/man/man1 PERL5_MAN3=lib/perl5/site_perl/man/man3 SITE_PERL=lib/perl5/site_perl SITE_ARCH=lib/perl5/site_perl/mach/5.28 DOCSDIR="share/doc/ngs" EXAMPLESDIR="share/examples/ngs" DATADIR="share/ngs" WWWDIR="www/ngs" ETCDIR="etc/ngs"
--End PLIST_SUB--
--SUB_LIST--
PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/ngs DOCSDIR=/usr/local/share/doc/ngs EXAMPLESDIR=/usr/local/share/examples/ngs WWWDIR=/usr/local/www/ngs ETCDIR=/usr/local/etc/ngs
--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=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
# 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=cc (GCC) 4.2.1 20070831 patched [FreeBSD] Copyright (C) 2007 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
_ALTCCVERSION_9d218390=none
_CXXINTERNAL_9c45a5b1=Using built-in specs. Target: mips-undermydesk-freebsd Configured with: FreeBSD/mips system compiler Thread model: posix gcc version 4.2.1 20070831 patched [FreeBSD] "/usr/bin/ld" "--eh-frame-hdr" "-EB" "-EB" "-melf32btsmip_fbsd" "--enable-new-dtags" "-dynamic-linker" "/libexec/ld-elf.so.1" "/usr/lib/crt1.o" "/usr/lib/crti.o" "/usr/lib/crtbegin.o" "-L/usr/lib" "-L/usr/lib" "/dev/null" "-lstdc++" "-lm" "-lgcc_s" "-lgcc" "-lc" "-lgcc_s" "-lgcc" "/usr/lib/crtend.o" "/usr/lib/crtn.o"
CC_OUTPUT_9d218390_58173849=yes
CC_OUTPUT_9d218390_9bdba57c=yes
CC_OUTPUT_9d218390_6a4fe7f5=cc1: error: unrecognized command line option "-std=c11"
CC_OUTPUT_9d218390_6bcac02b=yes
CC_OUTPUT_9d218390_67d20829=yes
CC_OUTPUT_9d218390_bfa62e83=cc1: error: unrecognized command line option "-std=gnu11"
CC_OUTPUT_9d218390_f0b4d593=yes
CC_OUTPUT_9d218390_308abb44=cc1plus: error: unrecognized command line option "-std=c++0x"
CC_OUTPUT_9d218390_f00456e5=cc1plus: error: unrecognized command line option "-std=c++11"
CC_OUTPUT_9d218390_65ad290d=cc1plus: error: unrecognized command line option "-std=c++14"
CC_OUTPUT_9d218390_f2776b26=cc1plus: error: unrecognized command line option "-std=c++17"
CC_OUTPUT_9d218390_b2657cc3=yes
CC_OUTPUT_9d218390_380987f7=cc1plus: error: unrecognized command line option "-std=gnu++11"
CC_OUTPUT_9d218390_160933ec=cc1plus: error: unrecognized command line option "-std=gnu++14"
CC_OUTPUT_9d218390_fb62803b=cc1plus: error: unrecognized command line option "-std=gnu++17"
_OBJC_CCVERSION_9d218390=cc (GCC) 4.2.1 20070831 patched [FreeBSD] Copyright (C) 2007 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
_OBJC_ALTCCVERSION_9d218390=none
ARCH=mips
OPSYS=FreeBSD
_OSRELEASE=11.2-RELEASE-p9
OSREL=11.2
OSVERSION=1102000
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) 131072
stack size (kbytes, -s) 8192
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 PD accepted by the user
===========================================================================
=======================<phase: pkg-depends >============================
===> ngs-sdk-2.9.3 depends on file: /usr/local/sbin/pkg - not found
===> Installing existing package /packages/All/pkg-1.10.5_5.txz
[112mips-quarterly-job-01] Installing pkg-1.10.5_5...
[112mips-quarterly-job-01] Extracting pkg-1.10.5_5: .......... done
===> ngs-sdk-2.9.3 depends on file: /usr/local/sbin/pkg - found
===> Returning to build of ngs-sdk-2.9.3
===========================================================================
=======================<phase: fetch-depends >============================
===========================================================================
=======================<phase: fetch >============================
===> License PD accepted by the user
===> Fetching all distfiles required by ngs-sdk-2.9.3 for building
===========================================================================
=======================<phase: checksum >============================
===> License PD accepted by the user
===> Fetching all distfiles required by ngs-sdk-2.9.3 for building
=> SHA256 Checksum OK for ncbi-ngs-2.9.3_GH0.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===========================================================================
=======================<phase: extract >============================
===> License PD accepted by the user
===> Fetching all distfiles required by ngs-sdk-2.9.3 for building
===> Extracting for ngs-sdk-2.9.3
=> SHA256 Checksum OK for ncbi-ngs-2.9.3_GH0.tar.gz.
===========================================================================
=======================<phase: patch-depends >============================
===========================================================================
=======================<phase: patch >============================
===> Patching for ngs-sdk-2.9.3
===> Applying FreeBSD patches for ngs-sdk-2.9.3
===========================================================================
=======================<phase: build-depends >============================
===> ngs-sdk-2.9.3 depends on executable: gmake - not found
===> Installing existing package /packages/All/gmake-4.2.1_3.txz
[112mips-quarterly-job-01] Installing gmake-4.2.1_3...
[112mips-quarterly-job-01] `-- Installing gettext-runtime-0.19.8.1_2...
[112mips-quarterly-job-01] | `-- Installing indexinfo-0.3.1...
[112mips-quarterly-job-01] | `-- Extracting indexinfo-0.3.1: .... done
[112mips-quarterly-job-01] `-- Extracting gettext-runtime-0.19.8.1_2: .......... done
[112mips-quarterly-job-01] Extracting gmake-4.2.1_3: .......... done
===> ngs-sdk-2.9.3 depends on executable: gmake - found
===> Returning to build of ngs-sdk-2.9.3
===> ngs-sdk-2.9.3 depends on package: perl5>=5.28.r1<5.29 - not found
===> Installing existing package /packages/All/perl5-5.28.1.txz
[112mips-quarterly-job-01] Installing perl5-5.28.1...
[112mips-quarterly-job-01] Extracting perl5-5.28.1: .......... done
Message from perl5-5.28.1:
The /usr/bin/perl symlink has been removed starting with Perl 5.20.
For shebangs, you should either use:
#!/usr/local/bin/perl
or
#!/usr/bin/env perl
The first one will only work if you have a /usr/local/bin/perl,
the second will work as long as perl is in PATH.
===> ngs-sdk-2.9.3 depends on package: perl5>=5.28.r1<5.29 - found
===> Returning to build of ngs-sdk-2.9.3
===========================================================================
=======================<phase: lib-depends >============================
===========================================================================
=======================<phase: configure >============================
===> Configuring for ngs-sdk-2.9.3
CONFIGURING ngs-sdk
Configuring NGS-SDK package
checking system type... FreeBSD
checking machine architecture... mips
configure: error: unsupported architecture 'FreeBSD'
===========================================================================
=======================<phase: build >============================
===> Building for ngs-sdk-2.9.3
gmake[1]: Entering directory '/wrkdirs/usr/ports/biology/ngs-sdk/work/ngs-2.9.3'
gmake[2]: Entering directory '/wrkdirs/usr/ports/biology/ngs-sdk/work/ngs-2.9.3/ngs-sdk'
*** File 'Makefile.config.FreeBSD.mips' is missing. Please run ./configure
gmake[2]: *** [/wrkdirs/usr/ports/biology/ngs-sdk/work/ngs-2.9.3/ngs-sdk/Makefile.rules:72: Makefile.config.FreeBSD.mips] Error 1
gmake[2]: Leaving directory '/wrkdirs/usr/ports/biology/ngs-sdk/work/ngs-2.9.3/ngs-sdk'
gmake[1]: *** [Makefile:52: ngs-sdk] Error 2
gmake[1]: Leaving directory '/wrkdirs/usr/ports/biology/ngs-sdk/work/ngs-2.9.3'
*** Error code 1
Stop.
make: stopped in /usr/ports/biology/ngs-sdk
More information about the freebsd-pkg-fallout
mailing list