sigPathway 1.21.0
Weil Lai
| Snapshot Date: 2011-07-06 19:21:50 -0700 (Wed, 06 Jul 2011) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/sigPathway | | Last Changed Rev: 54810 / Revision: 56603 | | Last Changed Date: 2011-04-13 18:14:51 -0700 (Wed, 13 Apr 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 (64-bit) / x64 | OK | OK | OK |
| moscato1 | Windows Server 2008 R2 Enterprise (64-bit) / x64 | OK | [ OK ] | OK |
| pitt | Mac OS X Leopard (10.5.8) / i386 | OK | OK | OK |
* using log directory 'D:/biocbld/bbs-2.9-bioc/meat/sigPathway.Rcheck'
* using R version 2.14.0 Under development (unstable) (2011-06-20 r56188)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'sigPathway/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'sigPathway' version '1.21.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'sigPathway' 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
* loading checks for arch 'i386'
** 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 name space can be loaded with stated dependencies ... OK
** checking whether the name space can be unloaded cleanly ... OK
* loading checks for arch 'x64'
** 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 name space can be loaded with stated dependencies ... OK
** checking whether the name space 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... NOTE
Note: found 1 marked Latin-1 string
* checking data for ASCII and uncompressed saves ... NOTE
Note: significantly better compression could be obtained
by using tools::resaveRdaFiles() or R CMD build --resave-data
old_size new_size compress
MuscleExample.RData 487Kb 254Kb xz
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable compilation flags in Makevars ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... 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
install for i386
* installing *source* package 'sigPathway' ...
** libs
gcc -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O3 -Wall -std=gnu99 -mtune=core2 -c calc_gene_set_internal.c -o calc_gene_set_internal.o
gcc -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O3 -Wall -std=gnu99 -mtune=core2 -c calc_gene_set_stat.c -o calc_gene_set_stat.o
gcc -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O3 -Wall -std=gnu99 -mtune=core2 -c calc_probe_stat.c -o calc_probe_stat.o
gcc -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O3 -Wall -std=gnu99 -mtune=core2 -c calc_weights.c -o calc_weights.o
gcc -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O3 -Wall -std=gnu99 -mtune=core2 -c matrix_fn.c -o matrix_fn.o
gcc -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O3 -Wall -std=gnu99 -mtune=core2 -c permute.c -o permute.o
gcc -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O3 -Wall -std=gnu99 -mtune=core2 -c shuffle.c -o shuffle.o
gcc -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O3 -Wall -std=gnu99 -mtune=core2 -c sigPathway.c -o sigPathway.o
gcc -shared -s -static-libgcc -o sigPathway.dll tmp.def calc_gene_set_internal.o calc_gene_set_stat.o calc_probe_stat.o calc_weights.o matrix_fn.o permute.o shuffle.o sigPathway.o -LD:/biocbld/BBS-2˜1.9-B/R/bin/i386 -lRlapack -LD:/biocbld/BBS-2˜1.9-B/R/bin/i386 -lRblas -lgfortran -LD:/biocbld/BBS-2˜1.9-B/R/bin/i386 -lR
installing to D:/biocbld/bbs-2.9-bioc/meat/sigPathway.buildbin-libdir/sigPathway/libs/i386
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
'sigPathway-vignette.Rnw'
** testing if installed package can be loaded
add DLL for x64
* installing *source* package 'sigPathway' ...
** libs
x86_64-w64-mingw32-gcc -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O2 -Wall -std=gnu99 -mtune=core2 -c calc_gene_set_internal.c -o calc_gene_set_internal.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O2 -Wall -std=gnu99 -mtune=core2 -c calc_gene_set_stat.c -o calc_gene_set_stat.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O2 -Wall -std=gnu99 -mtune=core2 -c calc_probe_stat.c -o calc_probe_stat.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O2 -Wall -std=gnu99 -mtune=core2 -c calc_weights.c -o calc_weights.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O2 -Wall -std=gnu99 -mtune=core2 -c matrix_fn.c -o matrix_fn.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O2 -Wall -std=gnu99 -mtune=core2 -c permute.c -o permute.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O2 -Wall -std=gnu99 -mtune=core2 -c shuffle.c -o shuffle.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O2 -Wall -std=gnu99 -mtune=core2 -c sigPathway.c -o sigPathway.o
x86_64-w64-mingw32-gcc -shared -s -static-libgcc -o sigPathway.dll tmp.def calc_gene_set_internal.o calc_gene_set_stat.o calc_probe_stat.o calc_weights.o matrix_fn.o permute.o shuffle.o sigPathway.o -LD:/biocbld/BBS-2˜1.9-B/R/bin/x64 -lRlapack -LD:/biocbld/BBS-2˜1.9-B/R/bin/x64 -lRblas -lgfortran -LD:/biocbld/BBS-2˜1.9-B/R/bin/x64 -lR
installing to D:/biocbld/bbs-2.9-bioc/meat/sigPathway.buildbin-libdir/sigPathway/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'sigPathway' as sigPathway_1.21.0.zip
* DONE (sigPathway)