GenomicRanges 1.6.4
Bioconductor Package Maintainer
| Snapshot Date: 2012-01-08 18:22:44 -0800 (Sun, 08 Jan 2012) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_9/madman/Rpacks/GenomicRanges | | Last Changed Rev: 60803 / Revision: 61898 | | Last Changed Date: 2011-11-22 21:36:47 -0800 (Tue, 22 Nov 2011) |
| wilson2 | Linux (openSUSE 11.4) / x86_64 | OK | OK | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | [ OK ] | OK |
| gewurz | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | OK | OK | OK |
| moscato1 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | OK | OK | OK |
| pitt | Mac OS X Leopard (10.5.8) / i386 | OK | OK | OK |
* using log directory 'E:/biocbld/bbs-2.9-bioc/meat/GenomicRanges.Rcheck'
* using R version 2.14.1 (2011-12-22)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'GenomicRanges/DESCRIPTION' ... OK
* this is package 'GenomicRanges' version '1.6.4'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking whether package 'GenomicRanges' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking for unstated dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking compiled code ... OK
* checking examples ... OK
* checking for unstated dependencies in tests ... OK
* checking tests ...
Running 'GenomicRanges_unit_tests.R'
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignettes ... SKIPPED
* checking PDF version of manual ... OK
* installing *source* package 'GenomicRanges' ...
** libs
gcc -I"E:/biocbld/BBS-2˜1.9-B/R/include" -I"E:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -O3 -Wall -std=gnu99 -mtune=core2 -c IRanges_stubs.c -o IRanges_stubs.o
gcc -I"E:/biocbld/BBS-2˜1.9-B/R/include" -I"E:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -O3 -Wall -std=gnu99 -mtune=core2 -c R_init_GenomicRanges.c -o R_init_GenomicRanges.o
gcc -I"E:/biocbld/BBS-2˜1.9-B/R/include" -I"E:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -O3 -Wall -std=gnu99 -mtune=core2 -c cigar_utils.c -o cigar_utils.o
cigar_utils.c: In function 'cigar_to_width':
cigar_utils.c:842:23: warning: 'width' may be used uninitialized in this function
cigar_utils.c: In function 'cigar_qnarrow':
cigar_utils.c:311:17: warning: 'OPL' may be used uninitialized in this function
cigar_utils.c:311:17: note: 'OPL' was declared here
cigar_utils.c:312:7: warning: 'OP' may be used uninitialized in this function
cigar_utils.c:312:7: note: 'OP' was declared here
cigar_utils.c: In function 'cigar_narrow':
cigar_utils.c:471:17: warning: 'OPL' may be used uninitialized in this function
cigar_utils.c:471:17: note: 'OPL' was declared here
cigar_utils.c:472:7: warning: 'OP' may be used uninitialized in this function
cigar_utils.c:472:7: note: 'OP' was declared here
cigar_utils.c: In function 'ref_locs_to_query_locs':
cigar_utils.c:1172:9: warning: 'n' may be used uninitialized in this function
gcc -I"E:/biocbld/BBS-2˜1.9-B/R/include" -I"E:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -O3 -Wall -std=gnu99 -mtune=core2 -c transcript_utils.c -o transcript_utils.o
transcript_utils.c: In function 'tlocs2rlocs':
transcript_utils.c:207:44: warning: 'nlocs' may be used uninitialized in this function
gcc -shared -s -static-libgcc -o GenomicRanges.dll tmp.def IRanges_stubs.o R_init_GenomicRanges.o cigar_utils.o transcript_utils.o -LE:/biocbld/BBS-2˜1.9-B/R/bin/i386 -lR
installing to E:/biocbld/bbs-2.9-bioc/meat/GenomicRanges.Rcheck/GenomicRanges/libs/i386
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
'GenomicRangesIntroduction.Rnw'
'GenomicRangesUseCases.Rnw'
'summarizeOverlaps.Rnw'
** testing if installed package can be loaded
* DONE (GenomicRanges)