Back to the "Multiple platform build/check report" A  B  C  D  E  F [G] H  I  J  K  L  M  N  O  P  Q  R  S  T  U  V  W  X  Y  Z 

BioC 2.14: INSTALL report for GenomicAlignments on moscato2

This page was generated on 2014-10-08 08:56:16 -0700 (Wed, 08 Oct 2014).

Package 336/824HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
GenomicAlignments 1.0.6
Bioconductor Package Maintainer
Snapshot Date: 2014-10-07 17:20:37 -0700 (Tue, 07 Oct 2014)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_14/madman/Rpacks/GenomicAlignments
Last Changed Rev: 93517 / Revision: 95116
Last Changed Date: 2014-08-21 16:04:36 -0700 (Thu, 21 Aug 2014)
zin2 Linux (Ubuntu 12.04.4 LTS) / x86_64  OK  OK  OK 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 [ OK ] OK  OK  OK 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK  OK 
morelia Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  OK  OK 

Summary

Package: GenomicAlignments
Version: 1.0.6
Command: C:\cygwin\bin\curl.exe -O http://zin2/BBS/2.14/bioc/src/contrib/GenomicAlignments_1.0.6.tar.gz && E:\biocbld\bbs-2.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch GenomicAlignments_1.0.6.tar.gz && rm GenomicAlignments_1.0.6.tar.gz
StartedAt: 2014-10-07 18:47:55 -0700 (Tue, 07 Oct 2014)
EndedAt: 2014-10-07 18:48:48 -0700 (Tue, 07 Oct 2014)
EllapsedTime: 52.8 seconds
RetCode: 0
Status:  OK  

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://zin2/BBS/2.14/bioc/src/contrib/GenomicAlignments_1.0.6.tar.gz && E:\biocbld\bbs-2.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch GenomicAlignments_1.0.6.tar.gz && rm GenomicAlignments_1.0.6.tar.gz
###
##############################################################################
##############################################################################




install for i386

* installing to library 'E:/biocbld/bbs-2.14-bioc/R/library'
* installing *source* package 'GenomicAlignments' ...
** libs
gcc -m32 -I"E:/biocbld/BBS-2˜1.14-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.14-bioc/R/library/IRanges/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"E:/biocbld/BBS-2˜1.14-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.14-bioc/R/library/IRanges/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c R_init_GenomicAlignments.c -o R_init_GenomicAlignments.o
gcc -m32 -I"E:/biocbld/BBS-2˜1.14-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.14-bioc/R/library/IRanges/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c cigar_utils.c -o cigar_utils.o
cigar_utils.c: In function 'cigar_ranges':
cigar_utils.c:670:9: warning: 'f_elt' may be used uninitialized in this function [-Wuninitialized]
cigar_utils.c:668:16: warning: 'breakpoint' may be used uninitialized in this function [-Wuninitialized]
cigar_utils.c:533:2: warning: 'ans_breakpoints' may be used uninitialized in this function [-Wuninitialized]
cigar_utils.c:579:12: note: 'ans_breakpoints' was declared here
cigar_utils.c:664:12: warning: 'flag_elt' may be used uninitialized in this function [-Wuninitialized]
cigar_utils.c: In function 'cigar_width':
cigar_utils.c:728:12: warning: 'flag_elt' may be used uninitialized in this function [-Wuninitialized]
cigar_utils.c: In function 'cigar_narrow':
cigar_utils.c:881:24: warning: 'OP' may be used uninitialized in this function [-Wuninitialized]
cigar_utils.c:849:7: note: 'OP' was declared here
cigar_utils.c:873:8: warning: 'OPL' may be used uninitialized in this function [-Wuninitialized]
cigar_utils.c:848:17: note: 'OPL' was declared here
cigar_utils.c: In function 'cigar_qnarrow':
cigar_utils.c:1065:24: warning: 'OP' may be used uninitialized in this function [-Wuninitialized]
cigar_utils.c:1033:7: note: 'OP' was declared here
cigar_utils.c:1057:8: warning: 'OPL' may be used uninitialized in this function [-Wuninitialized]
cigar_utils.c:1032:17: note: 'OPL' was declared here
cigar_utils.c: In function 'ref_locs_to_query_locs':
cigar_utils.c:1184:8: warning: 'n' may be used uninitialized in this function [-Wuninitialized]
cigar_utils.c: In function 'query_locs_to_ref_locs':
cigar_utils.c:1266:8: warning: 'n' may be used uninitialized in this function [-Wuninitialized]
gcc -m32 -I"E:/biocbld/BBS-2˜1.14-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.14-bioc/R/library/IRanges/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c encodeOverlaps_methods.c -o encodeOverlaps_methods.o
encodeOverlaps_methods.c: In function 'overlap_encoding':
encodeOverlaps_methods.c:179:17: warning: 'out_nelt0' may be used uninitialized in this function [-Wuninitialized]
encodeOverlaps_methods.c:98:6: note: 'out_nelt0' was declared here
gcc -m32 -shared -s -static-libgcc -o GenomicAlignments.dll tmp.def IRanges_stubs.o R_init_GenomicAlignments.o cigar_utils.o encodeOverlaps_methods.o -Ld:/RCompile/CRANpkg/extralibs64/local/lib/i386 -Ld:/RCompile/CRANpkg/extralibs64/local/lib -LE:/biocbld/BBS-2˜1.14-/R/bin/i386 -lR
installing to E:/biocbld/bbs-2.14-bioc/R/library/GenomicAlignments/libs/i386
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing to library 'E:/biocbld/bbs-2.14-bioc/R/library'
* installing *source* package 'GenomicAlignments' ...
** libs
gcc -m64 -I"E:/biocbld/BBS-2˜1.14-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.14-bioc/R/library/IRanges/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"E:/biocbld/BBS-2˜1.14-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.14-bioc/R/library/IRanges/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c R_init_GenomicAlignments.c -o R_init_GenomicAlignments.o
gcc -m64 -I"E:/biocbld/BBS-2˜1.14-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.14-bioc/R/library/IRanges/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c cigar_utils.c -o cigar_utils.o
cigar_utils.c: In function 'cigar_ranges':
cigar_utils.c:670:9: warning: 'f_elt' may be used uninitialized in this function [-Wuninitialized]
cigar_utils.c:668:16: warning: 'breakpoint' may be used uninitialized in this function [-Wuninitialized]
cigar_utils.c:533:2: warning: 'ans_breakpoints' may be used uninitialized in this function [-Wuninitialized]
cigar_utils.c:579:12: note: 'ans_breakpoints' was declared here
cigar_utils.c:664:12: warning: 'flag_elt' may be used uninitialized in this function [-Wuninitialized]
cigar_utils.c: In function 'cigar_width':
cigar_utils.c:728:12: warning: 'flag_elt' may be used uninitialized in this function [-Wuninitialized]
cigar_utils.c: In function 'ref_locs_to_query_locs':
cigar_utils.c:1184:8: warning: 'n' may be used uninitialized in this function [-Wuninitialized]
cigar_utils.c: In function 'query_locs_to_ref_locs':
cigar_utils.c:1266:8: warning: 'n' may be used uninitialized in this function [-Wuninitialized]
gcc -m64 -I"E:/biocbld/BBS-2˜1.14-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.14-bioc/R/library/IRanges/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c encodeOverlaps_methods.c -o encodeOverlaps_methods.o
gcc -m64 -shared -s -static-libgcc -o GenomicAlignments.dll tmp.def IRanges_stubs.o R_init_GenomicAlignments.o cigar_utils.o encodeOverlaps_methods.o -Ld:/RCompile/CRANpkg/extralibs64/local/lib/x64 -Ld:/RCompile/CRANpkg/extralibs64/local/lib -LE:/biocbld/BBS-2˜1.14-/R/bin/x64 -lR
installing to E:/biocbld/bbs-2.14-bioc/R/library/GenomicAlignments/libs/x64
** testing if installed package can be loaded
* DONE (GenomicAlignments)