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BioC 2.12: CHECK report for siggenes on petty

This page was generated on 2013-10-09 09:39:22 -0700 (Wed, 09 Oct 2013).

Package 594/671HostnameOS / ArchBUILDCHECKBUILD BIN
siggenes 1.34.0
Holger Schwender
Snapshot Date: 2013-10-08 17:00:48 -0700 (Tue, 08 Oct 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_12/madman/Rpacks/siggenes
Last Changed Rev: 75263 / Revision: 81334
Last Changed Date: 2013-04-03 14:32:27 -0700 (Wed, 03 Apr 2013)
george2 Linux (Ubuntu 12.04.1 LTS) / x86_64  OK  OK 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  OK [ OK ] OK 

Summary

Package: siggenes
Version: 1.34.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch siggenes_1.34.0.tar.gz
StartedAt: 2013-10-08 23:54:45 -0700 (Tue, 08 Oct 2013)
EndedAt: 2013-10-08 23:56:34 -0700 (Tue, 08 Oct 2013)
EllapsedTime: 108.9 seconds
RetCode: 0
Status:  OK 
CheckDir: siggenes.Rcheck
Warnings: 0

Command output

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/siggenes.Rcheck'
* using R version 3.0.1 (2013-05-16)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'siggenes/DESCRIPTION' ... OK
* this is package 'siggenes' version '1.34.0'
* 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 for sufficient/correct file permissions ... OK
* checking whether package 'siggenes' can be installed ... [8s/9s] OK
* checking installed package size ... OK
* 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
* 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 ... NOTE
Foreign function call with 'PACKAGE' argument in a different package:
  .C("get_stat_num_denum", ..., PACKAGE = "multtest")
See the chapter 'System and foreign language interfaces' of the
'Writing R Extensions' manual.
* 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 sizes of PDF files under 'inst/doc' ... OK
* checking installed files from 'inst/doc' ... OK
* checking examples ... [3s/3s] 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

NOTE: There was 1 note.
See
  '/Users/biocbuild/bbs-2.12-bioc/meat/siggenes.Rcheck/00check.log'
for details.

siggenes.Rcheck/00install.out:

* installing *source* package 'siggenes' ...
** R
** inst
** preparing package for lazy loading
Creating a generic function for 'print' from package 'base' in package 'siggenes'
Creating a generic function for 'identify' from package 'graphics' in package 'siggenes'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (siggenes)

siggenes.Rcheck/siggenes-Ex.timings:

nameusersystemelapsed
EBAM-class0.0150.0010.020
SAM-class0.0290.0020.031
chisq.ebam0.0200.0010.025
chisq.stat0.0190.0010.021
delta.plot0.0100.0010.011
denspr0.0070.0010.008
ebam0.0220.0040.026
find.a00.0100.0010.011
help.ebam0.0060.0010.008
help.finda00.0060.0000.005
help.sam0.0050.0000.006
list.siggenes0.0080.0000.012
md.plot0.0070.0000.008
pi0.est0.0080.0000.010
qvalue.cal0.0080.0000.009
sam0.0250.0020.036
sam.plot20.0090.0000.009
trend.ebam0.0140.0020.016
trend.stat0.0130.0010.017