BioC experimental data: CHECK report for ccTutorial on moscato2

Package: ccTutorial

Version: 1.0.23

Command: rm -rf ccTutorial.buildbin-libdir && mkdir ccTutorial.buildbin-libdir && E:\biocbld\bbs-2.12-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=ccTutorial.buildbin-libdir ccTutorial_1.0.23.tar.gz >ccTutorial-install.out 2>&1 && E:\biocbld\bbs-2.12-bioc\R\bin\R.exe CMD check --library=ccTutorial.buildbin-libdir --install="check:ccTutorial-install.out" --force-multiarch --no-vignettes --timings ccTutorial_1.0.23.tar.gz && mv ccTutorial.buildbin-libdir/* ccTutorial.Rcheck/ && rmdir ccTutorial.buildbin-libdir

StartedAt: 2013-10-08 13:00:42 -0700 (Tue, 08 Oct 2013)

EndedAt: 2013-10-08 13:28:35 -0700 (Tue, 08 Oct 2013)

EllapsedTime: 1673.7 seconds

RetCode: 0

Status:  OK

CheckDir: ccTutorial.Rcheck

Warnings: 0

* using log directory 'E:/biocbld/bbs-2.12-data-experiment/meat/ccTutorial.Rcheck'
* using R version 3.0.1 (2013-05-16)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'ccTutorial/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'ccTutorial' version '1.0.23'
* 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 'ccTutorial' can be installed ... OK
* checking installed package size ... NOTE
  installed size is 790.3Mb
  sub-directories of 1Mb or more:
    PairData       448.5Mb
    data            77.8Mb
    doc              5.4Mb
    exonerateData  202.3Mb
    expression      49.9Mb
    vignettes        6.3Mb
* 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 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 installed files from 'inst/doc' ... NOTE
The following files should probably not be installed:
  'Makefile', 'ccTutorial.tex', 'ccTutorialSupplement.tex'

Consider the use of a .Rinstignore file: see 'Writing R Extensions',
or move the vignette sources from 'inst/doc' to 'vignettes'.
* checking examples ...
** running examples for arch 'i386' ... [173s] OK
Examples with CPU or elapsed time > 5s
                       user system elapsed
X                     20.79   0.19   66.41
mm9g2p                 1.13   0.05   25.25
chersX                 1.07   0.06   16.77
arrayGenesToProbeSets  0.59   0.01   23.90
barreraExpressionX     0.09   0.00   21.20
mm9gene2GO             0.08   0.00    8.30
** running examples for arch 'x64' ... [44s] OK
Examples with CPU or elapsed time > 5s
   user system elapsed
X 22.86   0.11   23.87
* 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

NOTE: There were 2 notes.
See
  'E:/biocbld/bbs-2.12-data-experiment/meat/ccTutorial.Rcheck/00check.log'
for details.

install for i386

* installing *source* package 'ccTutorial' ...
** R
** data
** inst
** preparing package for lazy loading

groupGOTerms: 	GOBPTerm, GOMFTerm, GOCCTerm environments built.
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

groupGOTerms: 	GOBPTerm, GOMFTerm, GOCCTerm environments built.

install for x64

* installing *source* package 'ccTutorial' ...
** testing if installed package can be loaded

groupGOTerms: 	GOBPTerm, GOMFTerm, GOCCTerm environments built.
* MD5 sums
packaged installation of 'ccTutorial' as ccTutorial_1.0.23.zip
* DONE (ccTutorial)