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BioC 2.13: CHECK report for geneplotter on moscato1

This page was generated on 2014-04-05 09:48:55 -0700 (Sat, 05 Apr 2014).

Package 287/750HostnameOS / ArchBUILDCHECKBUILD BIN
geneplotter 1.40.0
Bioconductor Package Maintainer
Snapshot Date: 2014-04-04 16:20:29 -0700 (Fri, 04 Apr 2014)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_13/madman/Rpacks/geneplotter
Last Changed Rev: 81642 / Revision: 88450
Last Changed Date: 2013-10-14 14:29:21 -0700 (Mon, 14 Oct 2013)
zin1 Linux (Ubuntu 12.04.4 LTS) / x86_64  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK [ OK ] OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK 

Summary

Package: geneplotter
Version: 1.40.0
Command: rm -rf geneplotter.buildbin-libdir && mkdir geneplotter.buildbin-libdir && D:\biocbld\bbs-2.13-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=geneplotter.buildbin-libdir geneplotter_1.40.0.tar.gz >geneplotter-install.out 2>&1 && D:\biocbld\bbs-2.13-bioc\R\bin\R.exe CMD check --library=geneplotter.buildbin-libdir --install="check:geneplotter-install.out" --force-multiarch --no-vignettes --timings geneplotter_1.40.0.tar.gz && mv geneplotter.buildbin-libdir/* geneplotter.Rcheck/ && rmdir geneplotter.buildbin-libdir
StartedAt: 2014-04-05 04:04:56 -0700 (Sat, 05 Apr 2014)
EndedAt: 2014-04-05 04:08:02 -0700 (Sat, 05 Apr 2014)
EllapsedTime: 186.6 seconds
RetCode: 0
Status:  OK  
CheckDir: geneplotter.Rcheck
Warnings: 0

Command output

* using log directory 'D:/biocbld/bbs-2.13-bioc/meat/geneplotter.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 'geneplotter/DESCRIPTION' ... OK
* this is package 'geneplotter' version '1.40.0'
* 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 whether package 'geneplotter' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' 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
'library' or 'require' call to 'annotate' which was already attached by Depends.
  Please remove these calls from your code.
Package in Depends field not imported from: 'lattice'
  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 ... 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' ... OK
* checking for old-style vignette sources ... NOTE
Vignette sources only in 'inst/doc':
  'byChroms.Rnw', 'visualize.Rnw'
A 'vignettes' directory will be required as from R 3.1.0
* checking examples ...
** running examples for arch 'i386' ... [23s] OK
** running examples for arch 'x64' ... [24s] 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 vignette outputs ... SKIPPED
* checking PDF version of manual ... OK

NOTE: There were 2 notes.
See
  'D:/biocbld/bbs-2.13-bioc/meat/geneplotter.Rcheck/00check.log'
for details.

geneplotter.Rcheck/00install.out:


install for i386

* installing *source* package 'geneplotter' ...
** 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 'geneplotter' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'geneplotter' as geneplotter_1.40.0.zip
* DONE (geneplotter)

geneplotter.Rcheck/examples_i386/geneplotter-Ex.timings:

nameusersystemelapsed
GetColor0.010.000.02
Makesense3.350.033.40
alongChrom1.760.081.85
amplicon.plot0.010.000.02
cColor1.860.011.87
cPlot1.670.031.70
cScale1.510.001.51
eset133a0.360.000.36
groupedHeatmap0.710.000.71
histStack0.010.020.03
imageMap0.060.010.10
make.chromOrd0.250.020.41
multiecdf0.060.020.08
openHtmlPage0.010.000.01
plotChr3.260.013.28
plotExpressionGraph1.810.052.13
plotMA0.050.000.04
savepng0.180.000.19

geneplotter.Rcheck/examples_x64/geneplotter-Ex.timings:

nameusersystemelapsed
GetColor0.020.000.01
Makesense3.630.063.70
alongChrom1.920.022.12
amplicon.plot0.000.010.02
cColor1.960.021.98
cPlot1.740.031.78
cScale1.510.001.52
eset133a0.190.000.19
groupedHeatmap0.920.000.92
histStack0.030.010.05
imageMap0.100.000.09
make.chromOrd0.180.020.21
multiecdf0.080.000.08
openHtmlPage0.000.020.01
plotChr2.460.072.54
plotExpressionGraph1.700.081.77
plotMA0.040.000.05
savepng0.190.000.21