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Package 192/467HostnameOS / ArchBUILDCHECKBUILD BIN
genoset 1.0.0
Peter M. Haverty
Snapshot Date: 2011-10-20 07:20:33 -0700 (Thu, 20 Oct 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_8/madman/Rpacks/genoset
Last Changed Rev: 54800 / Revision: 59457
Last Changed Date: 2011-04-13 15:27:35 -0700 (Wed, 13 Apr 2011)
lamb1 Linux (openSUSE 11.3) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK [ OK ] OK 
gewurz Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  WARNINGS  OK 
pelham Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: genoset
Version: 1.0.0
Command: E:\biocbld\bbs-2.8-bioc\R\bin\R.exe CMD check --no-vignettes --timings --no-multiarch genoset_1.0.0.tar.gz
StartedAt: 2011-10-20 15:17:38 -0700 (Thu, 20 Oct 2011)
EndedAt: 2011-10-20 15:19:49 -0700 (Thu, 20 Oct 2011)
EllapsedTime: 131.0 seconds
RetCode: 0
Status:  OK  
CheckDir: genoset.Rcheck
Warnings: 0

Command output

* using log directory 'E:/biocbld/bbs-2.8-bioc/meat/genoset.Rcheck'
* using R version 2.13.2 (2011-09-30)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'genoset/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'genoset' version '1.0.0'
* checking package namespace information ... OK
* checking package dependencies ... NOTE
Package which this enhances but not available for checking: multicore
* checking if this is a source package ... OK
* checking whether package 'genoset' 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 namespace can be loaded with stated dependencies ... OK
* checking whether the namespace 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 'prove.pmh.utils.R'
  Comparing 'prove.pmh.utils.Rout' to 'prove.pmh.utils.Rout.save' ... OK
 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

genoset.Rcheck/00install.out:

* installing *source* package 'genoset' ...
** libs
gcc -I"E:/biocbld/BBS-2˜1.8-B/R/include"          -O3 -Wall  -std=gnu99 -c genoset.c -o genoset.o
gcc -shared -s -static-libgcc -o genoset.dll tmp.def genoset.o -LE:/biocbld/BBS-2˜1.8-B/R/bin/i386 -lR
installing to E:/biocbld/bbs-2.8-bioc/meat/genoset.Rcheck/genoset/libs/i386
** R
** data
** inst
** preparing package for lazy loading

**************************************************************************
   The plan to change the data format for CNA object has been postponed   
 in order to ensure backward compatibility with older versions of DNAcopy 
**************************************************************************

** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (genoset)

genoset.Rcheck/genoset-Ex.timings:

nameusersystemelapsed
BAFSet0.440.000.44
BAFSet.to.ExpressionSets0.160.000.16
CNSet0.190.000.19
GenoSet0.190.000.19
baf0.040.000.05
baf2mbaf0.040.000.03
bafset-class0.230.000.23
boundingIndices000
boundingIndices2000
chr-methods0.190.000.19
chrIndices-methods0.030.000.03
chrInfo0.030.000.03
chrOrder000
cn0.050.000.05
cnset-class0.180.000.19
colMeans000
gcCorrect0.020.000.01
genoPlot0.080.000.08
genoPos-methods0.040.000.05
genomeAxis0.050.000.05
genomeOrder0.030.000.03
genoset-class0.280.000.28
genoset-methods0.660.020.67
initGenoSet0.170.000.17
isGenomeOrder0.100.000.09
locData0.010.000.02
lrr0.050.000.05
modeCenter000
orderedChrs0.220.000.22
pos0.170.000.17
rangeSampleMeans0.20.00.2
runCBS4.640.004.66
segTable3.890.013.90
segs2Rle3.540.003.53
segs2RleDataFrame3.810.003.82
subsetAssayData0.030.000.03
uniqueChrs0.190.000.19
universe0.010.000.01