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- cpan[1]> install Bio::DB::BigWig
- CPAN: Storable loaded ok (v2.15)
- Going to read '/homes/www-potato/.cpan/Metadata'
- Database was generated on Thu, 07 Oct 2010 00:30:52 GMT
- Running install for module 'Bio::DB::BigWig'
- CPAN: YAML loaded ok (v0.66)
- Running make for L/LD/LDS/Bio-BigFile-1.03.tar.gz
- CPAN: Digest::SHA loaded ok (v5.47)
- CPAN: Compress::Zlib loaded ok (v2.027)
- Checksum for /homes/www-potato/.cpan/sources/authors/id/L/LD/LDS/Bio-BigFile-1.03.tar.gz ok
- Scanning cache /homes/www-potato/.cpan/build for sizes
- ..........................................................................--DONE
- DEL(1/7): /homes/www-potato/.cpan/build/XML-LibXML-1.70-4lhwKh
- DEL(2/7): /homes/www-potato/.cpan/build/Algorithm-Diff-1.1902-f6gAad
- DEL(3/7): /homes/www-potato/.cpan/build/Algorithm-Diff-1.1902-f6gAad.yml
- DEL(4/7): /homes/www-potato/.cpan/build/Algorithm-Diff-1.1902-mIUr3U
- DEL(5/7): /homes/www-potato/.cpan/build/Algorithm-Diff-1.1902-mIUr3U.yml
- DEL(6/7): /homes/www-potato/.cpan/build/Capture-Tiny-0.08-ws4oae
- DEL(7/7): /homes/www-potato/.cpan/build/Capture-Tiny-0.08-ws4oae.yml
- CPAN: Archive::Tar loaded ok (v1.64)
- Bio-BigFile-1.03/
- Bio-BigFile-1.03/t/
- Bio-BigFile-1.03/t/05.bigwig_set.t
- Bio-BigFile-1.03/t/04.bigbed_high.t
- Bio-BigFile-1.03/t/01.bigwig.t
- Bio-BigFile-1.03/t/03.bigwig_high.t
- Bio-BigFile-1.03/t/02.bigbed.t
- Bio-BigFile-1.03/bin/
- Bio-BigFile-1.03/bin/index_bigwigset.pl
- Bio-BigFile-1.03/bin/wigToBigWig.pl
- Bio-BigFile-1.03/bin/bigWigToWig.pl
- Bio-BigFile-1.03/lib/
- Bio-BigFile-1.03/lib/Bio/
- Bio-BigFile-1.03/lib/Bio/DB/
- Bio-BigFile-1.03/lib/Bio/DB/BigFile/
- Bio-BigFile-1.03/lib/Bio/DB/BigFile/Iterators.pm
- Bio-BigFile-1.03/lib/Bio/DB/BigFile/Constants.pm
- Bio-BigFile-1.03/lib/Bio/DB/BigBed.pm
- Bio-BigFile-1.03/lib/Bio/DB/BigWigSet.pm
- Bio-BigFile-1.03/lib/Bio/DB/BigWig.pm
- Bio-BigFile-1.03/lib/Bio/DB/BigFile.pm
- Bio-BigFile-1.03/lib/Bio/DB/BigFile.xs
- Bio-BigFile-1.03/DISCLAIMER
- Bio-BigFile-1.03/LICENSE
- Bio-BigFile-1.03/README
- Bio-BigFile-1.03/Changes
- Bio-BigFile-1.03/Build.PL
- Bio-BigFile-1.03/META.yml
- Bio-BigFile-1.03/typemap
- Bio-BigFile-1.03/MANIFEST
- Bio-BigFile-1.03/ExampleData/
- Bio-BigFile-1.03/ExampleData/refSeqTest.as
- Bio-BigFile-1.03/ExampleData/WS180.chrom.sizes
- Bio-BigFile-1.03/ExampleData/refSeqTest.flat.bed
- Bio-BigFile-1.03/ExampleData/refSeqTest.flat.bb
- Bio-BigFile-1.03/ExampleData/dpy-27-variable.bw
- Bio-BigFile-1.03/ExampleData/hg18.chrom.sizes
- Bio-BigFile-1.03/ExampleData/dpy-27-variable-trunk.wig.gz
- CPAN: File::Temp loaded ok (v0.22)
- CPAN: Time::HiRes loaded ok (v1.86)
- CPAN.pm: Going to build L/LD/LDS/Bio-BigFile-1.03.tar.gz
- Creating new 'MYMETA.yml' with configuration results
- Creating new 'Build' script for 'Bio-BigFile' version '1.03'
- CPAN: Module::Build loaded ok (v0.3607)
- Building Bio-BigFile
- gcc -I/homes/www-potato/build/src/kent/src/inc -I/usr/lib64/perl5/5.8.8/x86_64-linux-thread-multi/CORE -DXS_VERSION="1.03" -DVERSION="1.03" -fPIC -Wformat=0 -DMACHTYPE_x86_64 -c -D_REENTRANT -D_GNU_SOURCE -fno-strict-aliasing -pipe -Wdeclaration-after-statement -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/include/gdbm -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -o lib/Bio/DB/BigFile.o lib/Bio/DB/BigFile.c
- lib/Bio/DB/BigFile.xs: In function ‘XS_Bio__DB__bbiFile_bigWigIntervalQuery’:
- lib/Bio/DB/BigFile.xs:172: warning: operation on ‘list’ may be undefined
- lib/Bio/DB/BigFile.xs: In function ‘XS_Bio__DB__bbiFile_bigWigSummaryArray’:
- lib/Bio/DB/BigFile.xs:193: warning: comparison is always false due to limited range of data type
- lib/Bio/DB/BigFile.xs:193: warning: operation on ‘values’ may be undefined
- lib/Bio/DB/BigFile.xs: In function ‘XS_Bio__DB__bbiFile_bigBedSummaryArray’:
- lib/Bio/DB/BigFile.xs:252: warning: comparison is always false due to limited range of data type
- lib/Bio/DB/BigFile.xs:252: warning: operation on ‘values’ may be undefined
- lib/Bio/DB/BigFile.xs: In function ‘XS_Bio__DB__bbiFile_bigWigSummary’:
- lib/Bio/DB/BigFile.xs:296: warning: comparison is always false due to limited range of data type
- lib/Bio/DB/BigFile.xs:296: warning: operation on ‘summary’ may be undefined
- lib/Bio/DB/BigFile.xs:302: warning: operation on ‘summaryList’ may be undefined
- lib/Bio/DB/BigFile.xs:290: warning: unused variable ‘i’
- lib/Bio/DB/BigFile.xs: In function ‘XS_Bio__DB__bbiFile_bigBedSummary’:
- lib/Bio/DB/BigFile.xs:326: warning: comparison is always false due to limited range of data type
- lib/Bio/DB/BigFile.xs:326: warning: operation on ‘summary’ may be undefined
- lib/Bio/DB/BigFile.xs:332: warning: operation on ‘summaryList’ may be undefined
- lib/Bio/DB/BigFile.xs:320: warning: unused variable ‘i’
- lib/Bio/DB/BigFile.xs: In function ‘XS_Bio__DB__bbiFile_bigWigSummaryArrayExtended’:
- lib/Bio/DB/BigFile.xs:358: warning: comparison is always false due to limited range of data type
- lib/Bio/DB/BigFile.xs:358: warning: operation on ‘summary’ may be undefined
- lib/Bio/DB/BigFile.xs:354: warning: unused variable ‘summaryList’
- lib/Bio/DB/BigFile.xs: In function ‘XS_Bio__DB__bbiFile_bigBedSummaryArrayExtended’:
- lib/Bio/DB/BigFile.xs:395: warning: comparison is always false due to limited range of data type
- lib/Bio/DB/BigFile.xs:395: warning: operation on ‘summary’ may be undefined
- lib/Bio/DB/BigFile.xs:391: warning: unused variable ‘summaryList’
- lib/Bio/DB/BigFile.xs: In function ‘XS_Bio__DB__bbiFile_chromList’:
- lib/Bio/DB/BigFile.xs:424: warning: operation on ‘RETVAL’ may be undefined
- lib/Bio/DB/BigFile.xs: In function ‘XS_Bio__DB__bbiFile_bigBedIntervalQuery’:
- lib/Bio/DB/BigFile.xs:450: warning: operation on ‘list’ may be undefined
- ExtUtils::Mkbootstrap::Mkbootstrap('blib/arch/auto/Bio/DB/BigFile/BigFile.bs')
- gcc -shared -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -o blib/arch/auto/Bio/DB/BigFile/BigFile.so lib/Bio/DB/BigFile.o /homes/www-potato/build/src/kent/src/lib/x86_64/jkweb.a -lz
- /usr/bin/ld: /homes/www-potato/build/src/kent/src/lib/x86_64/jkweb.a(bbiRead.o): relocation R_X86_64_32S against `a local symbol' can not be used when making a shared object; recompile with -fPIC
- /homes/www-potato/build/src/kent/src/lib/x86_64/jkweb.a: could not read symbols: Bad value
- collect2: ld returned 1 exit status
- error building blib/arch/auto/Bio/DB/BigFile/BigFile.so from lib/Bio/DB/BigFile.o at /usr/lib/perl5/site_perl/5.8.8/ExtUtils/CBuilder/Base.pm line 244.
- LDS/Bio-BigFile-1.03.tar.gz
- ./Build -- NOT OK
- Running Build test
- Can't test without successful make
- Running Build install
- Make had returned bad status, install seems impossible
- Failed during this command:
- LDS/Bio-BigFile-1.03.tar.gz : make NO
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