build.log

Bio-BigFile-1.06.build.log (text/plain), 3.64 KB, created by Martin Mokrejš on 2013-09-13 15:55:40 UTC

[32;01m * [39;49;00mPackage:    dev-perl/Bio-BigFile-1.06
[32;01m * [39;49;00mRepository: science
[32;01m * [39;49;00mMaintainer: [e-mail] [e-mail]
[32;01m * [39;49;00mUSE:        abi_x86_64 amd64 elibc_glibc kernel_linux userland_GNU
[32;01m * [39;49;00mFEATURES:   nostrip preserve-libs sandbox splitdebug
>>> Unpacking source...
>>> Unpacking Bio-BigFile-1.06.tar.gz to /mnt/external/var/tmp/portage/dev-perl/Bio-BigFile-1.06/work
>>> Source unpacked in /mnt/external/var/tmp/portage/dev-perl/Bio-BigFile-1.06/work
>>> Preparing source in /mnt/external/var/tmp/portage/dev-perl/Bio-BigFile-1.06/work/Bio-BigFile-1.06 ...
 [32;01m*[0m Applying Build.PL.patch ...
[A[189C [34;01m[ [32;01mok[34;01m ][0m
>>> Source prepared.
>>> Configuring source in /mnt/external/var/tmp/portage/dev-perl/Bio-BigFile-1.06/work/Bio-BigFile-1.06 ...
 [32;01m*[0m Using Module::Build
 [32;01m*[0m perl Build.PL --installdirs=vendor --libdoc= --destdir=/mnt/external/var/tmp/portage/dev-perl/Bio-BigFile-1.06/image/ --create_packlist=0
Created MYMETA.yml and MYMETA.json
Creating new 'Build' script for 'Bio-BigFile' version '1.06'
>>> Source configured.
>>> Compiling source in /mnt/external/var/tmp/portage/dev-perl/Bio-BigFile-1.06/work/Bio-BigFile-1.06 ...
Building Bio-BigFile
x86_64-pc-linux-gnu-gcc -I/usr/include/ucsc-genome-browser -I/usr/lib64/perl5/5.16.3/x86_64-linux/CORE -DXS_VERSION="1.06" -DVERSION="1.06" -fPIC -Wno-format -Wformat=0 -DMACHTYPE_ -c -fno-strict-aliasing -pipe -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -O2 -pipe -maes -mpclmul -mpopcnt -march=native -D_REENTRANT -D_GNU_SOURCE -fno-strict-aliasing -O2 -pipe -maes -mpclmul -mpopcnt -march=native -o lib/Bio/DB/BigFile.o lib/Bio/DB/BigFile.c
ExtUtils::Mkbootstrap::Mkbootstrap('blib/arch/auto/Bio/DB/BigFile/BigFile.bs')
x86_64-pc-linux-gnu-gcc -shared -O2 -pipe -maes -mpclmul -mpopcnt -march=native -Wl,-O1 -Wl,--as-needed -o blib/arch/auto/Bio/DB/BigFile/BigFile.so lib/Bio/DB/BigFile.o /usr/lib/jkweb.a -lz -lssl
/usr/lib/gcc/x86_64-pc-linux-gnu/4.7.3/../../../../x86_64-pc-linux-gnu/bin/ld: /usr/lib/jkweb.a(bbiRead.o): relocation R_X86_64_32 against `.rodata' can not be used when making a shared object; recompile with -fPIC
/usr/lib/jkweb.a: could not read symbols: Bad value
collect2: error: ld returned 1 exit status
error building blib/arch/auto/Bio/DB/BigFile/BigFile.so from lib/Bio/DB/BigFile.o at /usr/lib64/perl5/vendor_perl/5.16.3/ExtUtils/CBuilder/Base.pm line 312.
 [31;01m*[0m ERROR: dev-perl/Bio-BigFile-1.06 failed (compile phase):
 [31;01m*[0m   Compilation failed
 [31;01m*[0m 
 [31;01m*[0m Call stack:
 [31;01m*[0m     ebuild.sh, line   93:  Called src_compile
 [31;01m*[0m   environment, line 2922:  Called perl-module_src_compile
 [31;01m*[0m   environment, line 2439:  Called die
 [31;01m*[0m The specific snippet of code:
 [31;01m*[0m           ./Build build || die "Compilation failed";
 [31;01m*[0m 
 [31;01m*[0m If you need support, post the output of `emerge --info '=dev-perl/Bio-BigFile-1.06'`,
 [31;01m*[0m the complete build log and the output of `emerge -pqv '=dev-perl/Bio-BigFile-1.06'`.
 [31;01m*[0m This ebuild is from an overlay named 'science': '/home/mmokrejs/proj/sci/'
 [31;01m*[0m The complete build log is located at '/mnt/external/var/tmp/portage/dev-perl/Bio-BigFile-1.06/temp/build.log'.
 [31;01m*[0m The ebuild environment file is located at '/mnt/external/var/tmp/portage/dev-perl/Bio-BigFile-1.06/temp/environment'.
 [31;01m*[0m Working directory: '/mnt/external/var/tmp/portage/dev-perl/Bio-BigFile-1.06/work/Bio-BigFile-1.06'
 [31;01m*[0m S: '/mnt/external/var/tmp/portage/dev-perl/Bio-BigFile-1.06/work/Bio-BigFile-1.06'