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Package 130/479HostnameOS / ArchBUILDCHECKBUILD BIN
DNAcopy 1.27.1
Venkatraman E. Seshan
Snapshot Date: 2011-07-06 19:21:50 -0700 (Wed, 06 Jul 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/DNAcopy
Last Changed Rev: 56460 / Revision: 56603
Last Changed Date: 2011-06-29 09:01:20 -0700 (Wed, 29 Jun 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 

Summary

Package: DNAcopy
Version: 1.27.1
Command: E:\biocbld\bbs-2.9-bioc\R\bin\R.exe CMD check --no-vignettes --timings --no-multiarch DNAcopy_1.27.1.tar.gz
StartedAt: 2011-07-07 01:35:04 -0700 (Thu, 07 Jul 2011)
EndedAt: 2011-07-07 01:35:41 -0700 (Thu, 07 Jul 2011)
EllapsedTime: 36.4 seconds
RetCode: 0
Status:  OK  
CheckDir: DNAcopy.Rcheck
Warnings: 0

Command output

* using log directory 'E:/biocbld/bbs-2.9-bioc/meat/DNAcopy.Rcheck'
* using R version 2.14.0 Under development (unstable) (2011-06-03 r56036)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'DNAcopy/DESCRIPTION' ... OK
* this is package 'DNAcopy' version '1.27.1'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'DNAcopy' 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 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 ... OK
* checking for unstated dependencies in tests ... OK
* checking tests ...
  Running 'redundancy,20090610,segment.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

DNAcopy.Rcheck/00install.out:

* installing *source* package 'DNAcopy' ...
** libs
gfortran      -O3  -c cbsWtstats.f -o cbsWtstats.o
gfortran      -O3  -c cbststats.f -o cbststats.o
gfortran      -O3  -c changepoints-wtd.f -o changepoints-wtd.o
gfortran      -O3  -c changepoints.f -o changepoints.o
gfortran      -O3  -c esegment.f -o esegment.o
gcc  -I"E:/biocbld/BBS-2˜1.9-B/R/include"          -O3 -Wall  -std=gnu99 -c flchoose.c -o flchoose.o
gcc  -I"E:/biocbld/BBS-2˜1.9-B/R/include"          -O3 -Wall  -std=gnu99 -c fphyper.c -o fphyper.o
gcc  -I"E:/biocbld/BBS-2˜1.9-B/R/include"          -O3 -Wall  -std=gnu99 -c fpnorm.c -o fpnorm.o
gfortran      -O3  -c getbdry.f -o getbdry.o
gfortran      -O3  -c prune.f -o prune.o
gcc  -I"E:/biocbld/BBS-2˜1.9-B/R/include"          -O3 -Wall  -std=gnu99 -c rshared.c -o rshared.o
gfortran      -O3  -c segmentp.f -o segmentp.o
gfortran      -O3  -c smoothCNA.f -o smoothCNA.o
gfortran      -O3  -c tailprobs.f -o tailprobs.o
gcc -shared -s -static-libgcc -o DNAcopy.dll tmp.def cbsWtstats.o cbststats.o changepoints-wtd.o changepoints.o esegment.o flchoose.o fphyper.o fpnorm.o getbdry.o prune.o rshared.o segmentp.o smoothCNA.o tailprobs.o -lgfortran -LE:/biocbld/BBS-2˜1.9-B/R/bin/i386 -lR
installing to E:/biocbld/bbs-2.9-bioc/meat/DNAcopy.Rcheck/DNAcopy/libs/i386
** R
** data
**  moving datasets to lazyload DB
** demo
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   'DNAcopy.Rnw' 
** testing if installed package can be loaded

* DONE (DNAcopy)

DNAcopy.Rcheck/DNAcopy-Ex.timings:

nameusersystemelapsed
CNA0.020.000.02
exon.segment0.370.000.37
plot.DNAcopy1.530.001.54
plotSample1.240.001.23
segment2.510.002.52
segments.p0.130.000.12
segments.summary0.120.000.13
smooth.CNA0.040.000.03
subset.CNA0.010.000.01
zoomIntoRegion1.160.001.19