ShortRead 1.11.23
Biocore Team c/o BioC user list
| Snapshot Date: 2011-07-06 19:21:50 -0700 (Wed, 06 Jul 2011) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ShortRead | | Last Changed Rev: 56598 / Revision: 56603 | | Last Changed Date: 2011-07-06 15:55:59 -0700 (Wed, 06 Jul 2011) |
| wilson2 | Linux (openSUSE 11.4) / x86_64 | OK | WARNINGS | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | WARNINGS | OK |
| gewurz | Windows Server 2008 R2 Enterprise (64-bit) / x64 | OK | WARNINGS | [ OK ] |
| moscato1 | Windows Server 2008 R2 Enterprise (64-bit) / x64 | OK | WARNINGS | OK |
| pitt | Mac OS X Leopard (10.5.8) / i386 | OK | WARNINGS | OK |
* installing *source* package 'ShortRead' ...
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WARNING: this package has a configure script
It probably needs manual configuration
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** libs
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/Biostrings/include" -O2 -Wall -std=gnu99 -c Biostrings_stubs.c -o Biostrings_stubs.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/Biostrings/include" -O2 -Wall -std=gnu99 -c IRanges_stubs.c -o IRanges_stubs.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/Biostrings/include" -O2 -Wall -std=gnu99 -c R_init_ShortRead.c -o R_init_ShortRead.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/Biostrings/include" -O2 -Wall -std=gnu99 -c alphabet.c -o alphabet.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/Biostrings/include" -O2 -Wall -std=gnu99 -c io.c -o io.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/Biostrings/include" -O2 -Wall -std=gnu99 -c io_bowtie.c -o io_bowtie.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/Biostrings/include" -O2 -Wall -std=gnu99 -c io_soap.c -o io_soap.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/Biostrings/include" -O2 -Wall -std=gnu99 -c pileup.c -o pileup.o
x86_64-w64-mingw32-g++ -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/Biostrings/include" -O2 -Wall -c readBfaToc.cc -o readBfaToc.o
x86_64-w64-mingw32-g++ -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/Biostrings/include" -O2 -Wall -c read_maq_map.cc -o read_maq_map.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/Biostrings/include" -O2 -Wall -std=gnu99 -c sampler.c -o sampler.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/Biostrings/include" -O2 -Wall -std=gnu99 -c trim.c -o trim.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/Biostrings/include" -O2 -Wall -std=gnu99 -c util.c -o util.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/Biostrings/include" -O2 -Wall -std=gnu99 -c xsnap.c -o xsnap.o
x86_64-w64-mingw32-g++ -shared -s -static-libgcc -o ShortRead.dll tmp.def Biostrings_stubs.o IRanges_stubs.o R_init_ShortRead.o alphabet.o io.o io_bowtie.o io_soap.o pileup.o readBfaToc.o read_maq_map.o sampler.o trim.o util.o xsnap.o -LD:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/libs/x64 -lzlib1bioc -LD:/biocbld/bbs-2.9-bioc/R/bin/x64 -lR
installing to D:/biocbld/bbs-2.9-bioc/meat/ShortRead.buildbin-libdir/ShortRead/libs/x64
** R
** inst
** preparing package for lazy loading
Attaching package: 'IRanges'
The following object(s) are masked from 'package:base':
Map, cbind, eval, intersect, mapply, order, paste, pmax, pmax.int,
pmin, pmin.int, rbind, rep.int, setdiff, table, union
Loading required package: RColorBrewer
Warning: Class "AssayData" is defined (with package slot 'Biobase') but no metadata object found to revise subclass information---not exported? Making a copy in package 'ShortRead'
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
'Overview.Rnw'
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'ShortRead' as ShortRead_1.11.23.zip
* DONE (ShortRead)