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Package 21/133HostnameOS / ArchBUILDCHECKBUILD BIN
ccTutorial 1.0.22
Joern Toedling
Snapshot Date: 2013-03-24 09:15:27 -0700 (Sun, 24 Mar 2013)
URL: https://hedgehog.fhcrc.org/bioc-data/trunk/experiment/pkgs/ccTutorial
Last Changed Rev: 2168 / Revision: 2286
Last Changed Date: 2012-10-01 10:57:19 -0700 (Mon, 01 Oct 2012)
lamb1 Linux (openSUSE 12.1) / x86_64  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
perceval Mac OS X Leopard (10.5.8) / i386  OK [ OK ] OK 

Summary

Package: ccTutorial
Version: 1.0.22
Command: /Library/Frameworks/R.framework/Versions/2.15/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch ccTutorial_1.0.22.tar.gz
StartedAt: 2013-03-24 11:33:40 -0700 (Sun, 24 Mar 2013)
EndedAt: 2013-03-24 11:42:59 -0700 (Sun, 24 Mar 2013)
EllapsedTime: 558.7 seconds
RetCode: 0
Status:  OK 
CheckDir: ccTutorial.Rcheck
Warnings: 0

Command output

* using log directory '/Users/biocbuild/bbs-2.11-data-experiment/meat/ccTutorial.Rcheck'
* using R version 2.15.3 (2013-03-01)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'ccTutorial/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'ccTutorial' version '1.0.22'
* 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 whether package 'ccTutorial' can be installed ... OK
* checking installed package size ... NOTE
  installed size is 790.4Mb
  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 for portable file names ... OK
* checking for sufficient/correct file permissions ... 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
* 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 sizes of PDF files under 'inst/doc' ... NOTE
  'qpdf' made some significant size reductions:
     compacted 'ccTutorial.pdf' from 600Kb to 192Kb
     compacted 'ccTutorialSupplement.pdf' from 4.6Mb to 3.3Mb
  consider running tools::compactPDF() on these files
* 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 ... OK
Examples with CPU or elapsed time > 5s
    user system elapsed
X 29.824  0.605  30.751
* 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 3 notes.
See
  '/Users/biocbuild/bbs-2.11-data-experiment/meat/ccTutorial.Rcheck/00check.log'
for details.

ccTutorial.Rcheck/00install.out:

* 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
   'ccTutorial.Rnw' 
   'ccTutorialSupplement.Rnw' 
** testing if installed package can be loaded

groupGOTerms: 	GOBPTerm, GOMFTerm, GOCCTerm environments built.

* DONE (ccTutorial)

ccTutorial.Rcheck/ccTutorial-Ex.timings:

nameusersystemelapsed
X29.824 0.60530.751
arrayGenesToProbeSets0.0710.0070.080
barreraExpressionX0.1570.0140.174
chersX1.3450.0421.403
mm9g2p2.5640.0872.792
mm9gene2GO0.0620.0060.076
mm9genes0.1320.0070.151
probeAnno000