Valerie Obenchain
| Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018) |
| URL: https://git.bioconductor.org/packages/VariantAnnotation |
| Branch: RELEASE_3_7 |
| Last Commit: 60ae675 |
| Last Changed Date: 2018-07-04 14:09:06 -0400 (Wed, 04 Jul 2018) |
| Back to Multiple platform build/check report for BioC 3.7 |
|
This page was generated on 2018-10-17 08:23:45 -0400 (Wed, 17 Oct 2018).
| Package 1531/1561 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| VariantAnnotation 1.26.1 Valerie Obenchain
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | [ OK ] | ERROR | skipped | |||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | | ||||||
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: VariantAnnotation |
| Version: 1.26.1 |
| Command: /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD INSTALL VariantAnnotation |
| StartedAt: 2018-10-15 18:22:37 -0400 (Mon, 15 Oct 2018) |
| EndedAt: 2018-10-15 18:23:29 -0400 (Mon, 15 Oct 2018) |
| EllapsedTime: 52.2 seconds |
| RetCode: 0 |
| Status: OK |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD INSTALL VariantAnnotation ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.7-bioc/R/library’ * installing *source* package ‘VariantAnnotation’ ... ** libs gcc -I"/home/biocbuild/bbs-3.7-bioc/R/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/home/biocbuild/bbs-3.7-bioc/R/library/S4Vectors/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/IRanges/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/XVector/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/Biostrings/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include" -I/usr/local/include -fpic -g -O2 -Wall -c Biostrings_stubs.c -o Biostrings_stubs.o gcc -I"/home/biocbuild/bbs-3.7-bioc/R/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/home/biocbuild/bbs-3.7-bioc/R/library/S4Vectors/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/IRanges/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/XVector/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/Biostrings/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include" -I/usr/local/include -fpic -g -O2 -Wall -c IRanges_stubs.c -o IRanges_stubs.o gcc -I"/home/biocbuild/bbs-3.7-bioc/R/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/home/biocbuild/bbs-3.7-bioc/R/library/S4Vectors/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/IRanges/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/XVector/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/Biostrings/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include" -I/usr/local/include -fpic -g -O2 -Wall -c R_init_VariantAnnotation.c -o R_init_VariantAnnotation.o gcc -I"/home/biocbuild/bbs-3.7-bioc/R/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/home/biocbuild/bbs-3.7-bioc/R/library/S4Vectors/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/IRanges/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/XVector/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/Biostrings/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include" -I/usr/local/include -fpic -g -O2 -Wall -c XVector_stubs.c -o XVector_stubs.o gcc -I"/home/biocbuild/bbs-3.7-bioc/R/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/home/biocbuild/bbs-3.7-bioc/R/library/S4Vectors/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/IRanges/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/XVector/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/Biostrings/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include" -I/usr/local/include -fpic -g -O2 -Wall -c dna_hash.c -o dna_hash.o gcc -I"/home/biocbuild/bbs-3.7-bioc/R/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/home/biocbuild/bbs-3.7-bioc/R/library/S4Vectors/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/IRanges/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/XVector/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/Biostrings/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include" -I/usr/local/include -fpic -g -O2 -Wall -c rle.c -o rle.o gcc -I"/home/biocbuild/bbs-3.7-bioc/R/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/home/biocbuild/bbs-3.7-bioc/R/library/S4Vectors/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/IRanges/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/XVector/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/Biostrings/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include" -I/usr/local/include -fpic -g -O2 -Wall -c strhash.c -o strhash.o gcc -I"/home/biocbuild/bbs-3.7-bioc/R/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/home/biocbuild/bbs-3.7-bioc/R/library/S4Vectors/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/IRanges/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/XVector/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/Biostrings/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include" -I/usr/local/include -fpic -g -O2 -Wall -c utilities.c -o utilities.o gcc -I"/home/biocbuild/bbs-3.7-bioc/R/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/home/biocbuild/bbs-3.7-bioc/R/library/S4Vectors/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/IRanges/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/XVector/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/Biostrings/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include" -I/usr/local/include -fpic -g -O2 -Wall -c vcffile.c -o vcffile.o gcc -I"/home/biocbuild/bbs-3.7-bioc/R/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/home/biocbuild/bbs-3.7-bioc/R/library/S4Vectors/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/IRanges/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/XVector/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/Biostrings/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include" -I/usr/local/include -fpic -g -O2 -Wall -c vcftype.c -o vcftype.o gcc -I"/home/biocbuild/bbs-3.7-bioc/R/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/home/biocbuild/bbs-3.7-bioc/R/library/S4Vectors/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/IRanges/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/XVector/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/Biostrings/include" -I"/home/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include" -I/usr/local/include -fpic -g -O2 -Wall -c writevcf.c -o writevcf.o gcc -shared -L/home/biocbuild/bbs-3.7-bioc/R/lib -L/usr/local/lib -o VariantAnnotation.so 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 /home/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/usrlib//libbam.a /home/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/usrlib//libbcf.a /home/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/usrlib//libtabix.a -lz -pthread -L/home/biocbuild/bbs-3.7-bioc/R/lib -lR installing to /home/biocbuild/bbs-3.7-bioc/R/library/VariantAnnotation/libs ** R ** inst ** byte-compile and prepare 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 * DONE (VariantAnnotation)