VariantAnnotation 1.12.9
Valerie Obenchain
| Snapshot Date: 2015-04-09 16:20:12 -0700 (Thu, 09 Apr 2015) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_0/madman/Rpacks/VariantAnnotation | | Last Changed Rev: 98524 / Revision: 102249 | | Last Changed Date: 2015-01-20 14:44:33 -0800 (Tue, 20 Jan 2015) |
| zin1 | Linux (Ubuntu 12.04.4 LTS) / x86_64 | OK | OK | WARNINGS | |
| moscato1 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | [ OK ] | OK | WARNINGS | OK |
| perceval | Mac OS X Snow Leopard (10.6.8) / x86_64 | OK | OK | WARNINGS | OK |
| oaxaca | Mac OS X Mavericks (10.9.5) / x86_64 | OK | OK | WARNINGS | OK |
##############################################################################
##############################################################################
###
### Running command:
###
### C:\cygwin\bin\curl.exe -O http://zin1/BBS/3.0/bioc/src/contrib/VariantAnnotation_1.12.9.tar.gz && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch VariantAnnotation_1.12.9.tar.gz && rm VariantAnnotation_1.12.9.tar.gz
###
##############################################################################
##############################################################################
% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
100 922k 100 922k 0 0 41.1M 0 --:--:-- --:--:-- --:--:-- 53.0M
install for i386
* installing to library 'D:/biocbld/bbs-3.0-bioc/R/library'
* installing *source* package 'VariantAnnotation' ...
** libs
gcc -m32 -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/XVector/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Biostrings/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c Biostrings_stubs.c -o Biostrings_stubs.o
gcc -m32 -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/XVector/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Biostrings/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c IRanges_stubs.c -o IRanges_stubs.o
gcc -m32 -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/XVector/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Biostrings/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c R_init_VariantAnnotation.c -o R_init_VariantAnnotation.o
gcc -m32 -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/XVector/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Biostrings/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c XVector_stubs.c -o XVector_stubs.o
gcc -m32 -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/XVector/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Biostrings/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c dna_hash.c -o dna_hash.o
gcc -m32 -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/XVector/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Biostrings/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c rle.c -o rle.o
gcc -m32 -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/XVector/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Biostrings/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c strhash.c -o strhash.o
gcc -m32 -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/XVector/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Biostrings/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c utilities.c -o utilities.o
gcc -m32 -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/XVector/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Biostrings/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c vcffile.c -o vcffile.o
gcc -m32 -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/XVector/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Biostrings/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c vcftype.c -o vcftype.o
gcc -m32 -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/XVector/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Biostrings/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c writevcf.c -o writevcf.o
gcc -m32 -shared -s -static-libgcc -o VariantAnnotation.dll tmp.def Biostrings_stubs.o IRanges_stubs.o R_init_VariantAnnotation.o XVector_stubs.o dna_hash.o rle.o strhash.o utilities.o vcffile.o vcftype.o writevcf.o D:/biocbld/bbs-3.0-bioc/R/library/Rsamtools/usrlib/i386/libbam.a D:/biocbld/bbs-3.0-bioc/R/library/Rsamtools/usrlib/i386/libbam.a D:/biocbld/bbs-3.0-bioc/R/library/Rsamtools/usrlib/i386/libbcf.a D:/biocbld/bbs-3.0-bioc/R/library/Rsamtools/usrlib/i386/libtabix.a -lws2_32 -pthread -LD:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/libs/i386 -lzlib1bioc -LD:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/libs/i386 -lzlib1bioc -Ld:/RCompile/CRANpkg/extralibs64/local/lib/i386 -Ld:/RCompile/CRANpkg/extralibs64/local/lib -LD:/biocbld/BBS-3˜1.0-B/R/bin/i386 -lR
installing to D:/biocbld/bbs-3.0-bioc/R/library/VariantAnnotation/libs/i386
** R
** inst
** preparing package for lazy loading
Creating a new generic function for 'tabulate' in package 'VariantAnnotation'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
install for x64
* installing to library 'D:/biocbld/bbs-3.0-bioc/R/library'
* installing *source* package 'VariantAnnotation' ...
** libs
gcc -m64 -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/XVector/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Biostrings/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c Biostrings_stubs.c -o Biostrings_stubs.o
gcc -m64 -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/XVector/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Biostrings/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c IRanges_stubs.c -o IRanges_stubs.o
gcc -m64 -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/XVector/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Biostrings/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c R_init_VariantAnnotation.c -o R_init_VariantAnnotation.o
gcc -m64 -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/XVector/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Biostrings/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c XVector_stubs.c -o XVector_stubs.o
gcc -m64 -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/XVector/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Biostrings/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c dna_hash.c -o dna_hash.o
gcc -m64 -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/XVector/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Biostrings/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c rle.c -o rle.o
gcc -m64 -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/XVector/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Biostrings/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c strhash.c -o strhash.o
gcc -m64 -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/XVector/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Biostrings/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c utilities.c -o utilities.o
gcc -m64 -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/XVector/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Biostrings/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c vcffile.c -o vcffile.o
gcc -m64 -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/XVector/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Biostrings/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c vcftype.c -o vcftype.o
gcc -m64 -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/XVector/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Biostrings/include" -I"D:/biocbld/bbs-3.0-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c writevcf.c -o writevcf.o
gcc -m64 -shared -s -static-libgcc -o VariantAnnotation.dll tmp.def Biostrings_stubs.o IRanges_stubs.o R_init_VariantAnnotation.o XVector_stubs.o dna_hash.o rle.o strhash.o utilities.o vcffile.o vcftype.o writevcf.o D:/biocbld/bbs-3.0-bioc/R/library/Rsamtools/usrlib/x64/libbam.a D:/biocbld/bbs-3.0-bioc/R/library/Rsamtools/usrlib/x64/libbam.a D:/biocbld/bbs-3.0-bioc/R/library/Rsamtools/usrlib/x64/libbcf.a D:/biocbld/bbs-3.0-bioc/R/library/Rsamtools/usrlib/x64/libtabix.a -lws2_32 -pthread -LD:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/libs/x64 -lzlib1bioc -LD:/biocbld/bbs-3.0-bioc/R/library/zlibbioc/libs/x64 -lzlib1bioc -Ld:/RCompile/CRANpkg/extralibs64/local/lib/x64 -Ld:/RCompile/CRANpkg/extralibs64/local/lib -LD:/biocbld/BBS-3˜1.0-B/R/bin/x64 -lR
installing to D:/biocbld/bbs-3.0-bioc/R/library/VariantAnnotation/libs/x64
** testing if installed package can be loaded
* DONE (VariantAnnotation)