BioC experimental data: CHECK report for davidTiling on moscato1

Package: davidTiling

Version: 1.2.19

Command: rm -rf davidTiling.buildbin-libdir && mkdir davidTiling.buildbin-libdir && D:\biocbld\bbs-2.13-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=davidTiling.buildbin-libdir davidTiling_1.2.19.tar.gz >davidTiling-install.out 2>&1 && D:\biocbld\bbs-2.13-bioc\R\bin\R.exe CMD check --library=davidTiling.buildbin-libdir --install="check:davidTiling-install.out" --force-multiarch --no-vignettes --timings davidTiling_1.2.19.tar.gz && mv davidTiling.buildbin-libdir/* davidTiling.Rcheck/ && rmdir davidTiling.buildbin-libdir

StartedAt: 2014-04-04 11:22:41 -0700 (Fri, 04 Apr 2014)

EndedAt: 2014-04-04 11:34:36 -0700 (Fri, 04 Apr 2014)

EllapsedTime: 714.8 seconds

RetCode: 0

Status:  OK

CheckDir: davidTiling.Rcheck

Warnings: 0

* using log directory 'D:/biocbld/bbs-2.13-data-experiment/meat/davidTiling.Rcheck'
* using R version 3.0.3 (2014-03-06)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'davidTiling/DESCRIPTION' ... OK
* this is package 'davidTiling' version '1.2.19'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'davidTiling' can be installed ... OK
* checking installed package size ... NOTE
  installed size is 538.0Mb
  sub-directories of 1Mb or more:
    celfiles  305.9Mb
    data      229.5Mb
    website     2.3Mb
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over 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 namespace can be loaded with stated dependencies ... OK
** checking whether the namespace 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 namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... NOTE
Packages in Depends field not imported from:
  'Biobase' 'GO.db' 'tilingArray'
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
See the information on DESCRIPTION files in the chapter 'Creating R
packages' of the 'Writing R Extensions' manual.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
GOHyperG: no visible global function definition for
  'replaceSystematicByCommonName'
scoreSegments: no visible binding for global variable 'yeastFeatures'
scoreSegments: no visible binding for global variable 'chrs'
* checking Rd files ... NOTE
prepare_Rd: GOHyperG.Rd:34-35: Dropping empty section \examples
prepare_Rd: getGO.Rd:32-33: Dropping empty section \examples
prepare_Rd: scatterWithHist.Rd:19-20: Dropping empty section \details
prepare_Rd: scoreSegments.Rd:103-104: Dropping empty section \examples
* 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 files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... [61s] OK
Examples with CPU or elapsed time > 5s
             user system elapsed
davidTiling 48.50   0.46   48.95
probeAnno    6.66   0.26    6.93
** running examples for arch 'x64' ... [62s] OK
Examples with CPU or elapsed time > 5s
             user system elapsed
davidTiling 49.28   0.43   49.75
probeAnno    6.17   0.28    6.46
* checking PDF version of manual ... OK

NOTE: There were 4 notes.
See
  'D:/biocbld/bbs-2.13-data-experiment/meat/davidTiling.Rcheck/00check.log'
for details.

install for i386

* installing *source* package 'davidTiling' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing *source* package 'davidTiling' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'davidTiling' as davidTiling_1.2.19.zip
* DONE (davidTiling)

name	user	system	elapsed
davidTiling	48.50	0.46	48.95
getAttributeField	0.01	0.00	0.02
gff	0.16	0.00	0.15
probeAnno	6.66	0.26	6.93
scatterWithHist	0.02	0.00	0.02
showDens	0	0	0
yeastFeatures	0	0	0

name	user	system	elapsed
davidTiling	49.28	0.43	49.75
getAttributeField	0.01	0.00	0.02
gff	0.15	0.02	0.15
probeAnno	6.17	0.28	6.46
scatterWithHist	0.02	0.00	0.02
showDens	0	0	0
yeastFeatures	0.00	0.02	0.01