Package: tilingArray

Version: 1.31.0

Command: mkdir tilingArray.buildbin-libdir && D:\biocbld\bbs-2.9-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=tilingArray.buildbin-libdir tilingArray_1.31.0.tar.gz >tilingArray-install.out 2>&1 && D:\biocbld\bbs-2.9-bioc\R\bin\R.exe CMD check --library=tilingArray.buildbin-libdir --install="check:tilingArray-install.out" --force-multiarch --no-vignettes --timings tilingArray_1.31.0.tar.gz && mv tilingArray.buildbin-libdir/* tilingArray.Rcheck/ && rmdir tilingArray.buildbin-libdir

StartedAt: 2011-07-07 06:30:07 -0700 (Thu, 07 Jul 2011)

EndedAt: 2011-07-07 06:32:00 -0700 (Thu, 07 Jul 2011)

EllapsedTime: 113.1 seconds

RetCode: 0

Status:  OK

CheckDir: tilingArray.Rcheck

Warnings: 0

* using log directory 'D:/biocbld/bbs-2.9-bioc/meat/tilingArray.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 'tilingArray/DESCRIPTION' ... OK
* this is package 'tilingArray' version '1.31.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'tilingArray' can be installed ... OK
* checking installed package size ... NOTE
  installed size is  7.4Mb
  sub-directories of 1Mb or more:
    doc       3.9Mb
    scripts   3.1Mb
* 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 ... OK
* checking data for ASCII and uncompressed saves ... 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 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 'tilingArray' ...
** libs
gcc  -I"D:/biocbld/BBS-2˜1.9-B/R/include"          -O3 -Wall  -std=gnu99 -mtune=core2 -c findsegments.c -o findsegments.o
gcc  -I"D:/biocbld/BBS-2˜1.9-B/R/include"          -O3 -Wall  -std=gnu99 -mtune=core2 -c sampleStep.c -o sampleStep.o
gcc -shared -s -static-libgcc -o tilingArray.dll tmp.def findsegments.o sampleStep.o -LD:/biocbld/BBS-2˜1.9-B/R/bin/i386 -lR
installing to D:/biocbld/bbs-2.9-bioc/meat/tilingArray.buildbin-libdir/tilingArray/libs/i386
** R
** data
** inst
** preparing package for lazy loading

Welcome to Bioconductor

  Vignettes contain introductory material. To view, type
  'browseVignettes()'. To cite Bioconductor, see
  'citation("Biobase")' and for packages 'citation("pkgname")'.

** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   'assessNorm.Rnw' 
   'costMatrix.Rnw' 
   'findsegments.Rnw' 
   'plotAlongChrom.Rnw' 
   'segmentation.Rnw' 
** testing if installed package can be loaded

add DLL for x64

* installing *source* package 'tilingArray' ...
** libs
x86_64-w64-mingw32-gcc  -I"D:/biocbld/BBS-2˜1.9-B/R/include"          -O2 -Wall  -std=gnu99 -mtune=core2 -c findsegments.c -o findsegments.o
x86_64-w64-mingw32-gcc  -I"D:/biocbld/BBS-2˜1.9-B/R/include"          -O2 -Wall  -std=gnu99 -mtune=core2 -c sampleStep.c -o sampleStep.o
x86_64-w64-mingw32-gcc -shared -s -static-libgcc -o tilingArray.dll tmp.def findsegments.o sampleStep.o -LD:/biocbld/BBS-2˜1.9-B/R/bin/x64 -lR
installing to D:/biocbld/bbs-2.9-bioc/meat/tilingArray.buildbin-libdir/tilingArray/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'tilingArray' as tilingArray_1.31.0.zip

* DONE (tilingArray)

name	user	system	elapsed
PMindex	0	0	0
class-segmentation	0.12	0.00	0.12
comparisonPlot	0.02	0.00	0.02
costMatrix	0.07	0.00	0.08
findsegments	0	0	0
gffSub	0.22	0.00	0.22
normalizeByReference	0	0	0
otherStrand	0	0	0
plotAlongChrom	0.35	0.00	0.34
plotAlongChromLegend	0	0	0
plotSegmentationHeatmap	0.18	0.00	0.19
plotpenLL	0	0	0
posMin	0	0	0
qcPlots	0	0	0
readCel2eSet	0	0	0
sampleStep	0	0	0
segChrom	0	0	0
segment	0.01	0.00	0.02
segnf	0.21	0.00	0.23