Package: CSAR

Version: 1.0.0

Command: D:\biocbld\bbs-2.6-bioc\R\bin\R.exe CMD check --no-vignettes --timings CSAR_1.0.0.tar.gz

StartedAt: 2010-10-04 16:27:48 -0700 (Mon, 04 Oct 2010)

EndedAt: 2010-10-04 16:28:19 -0700 (Mon, 04 Oct 2010)

EllapsedTime: 31.7 seconds

RetCode: 0

Status:  OK

CheckDir: CSAR.Rcheck

Warnings: 0

* checking for working pdflatex ... OK
* using log directory 'D:/biocbld/bbs-2.6-bioc/meat/CSAR.Rcheck'
* using R version 2.11.1 (2010-05-31)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'CSAR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'CSAR' version '1.0.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'CSAR' can be installed ... 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 ... NOTE
mappedReads2Nhits: no visible global function definition for 'width'
mappedReads2Nhits: no visible global function definition for 'strand'
mappedReads2Nhits: no visible global function definition for
  'chromosome'
mappedReads2Nhits: no visible global function definition for 'position'
* 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 data for non-ASCII characters ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable use of $BLAS_LIBS ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK

* install options are ' --no-html'

* installing *source* package 'CSAR' ...
** libs
  making DLL ...
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.6-bioc/R/include"         -O2 -Wall  -std=gnu99 -c CSAR.c -o CSAR.o
x86_64-w64-mingw32-gcc -shared -s -static-libgcc -o CSAR.dll tmp.def CSAR.o -LD:/biocbld/bbs-2.6-bioc/R/bin -lR
installing to D:/biocbld/bbs-2.6-bioc/meat/CSAR.Rcheck/CSAR/libs/x64
  ... done
** R
** data
**  moving datasets to lazyload DB
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (CSAR)

name	user	system	elapsed
CSAR-package	1.61	0.03	1.64
ChIPseqScore	0.38	0.00	0.37
distance2Genes	0.51	0.00	0.52
genesWithPeaks	0.53	0.02	0.55
getPermutatedWinScores	1.52	0.04	1.56
getThreshold	1.67	0.02	1.72
loadMappedReads	0	0	0
mappedReads2Nhits	0.14	0.00	0.14
permutatedWinScores	1.52	0.02	1.53
sampleSEP3_test	0.01	0.00	0.01
score2wig	0.44	0.01	0.46
sigWin	0.47	0.02	0.48