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BioC experimental data: CHECK report for DmelSGI on zin2

This page was generated on 2015-10-07 16:21:04 -0700 (Wed, 07 Oct 2015).

Package 62/241HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
DmelSGI 1.0.0
Bernd Fischer
Snapshot Date: 2015-10-07 07:15:35 -0700 (Wed, 07 Oct 2015)
URL: https://hedgehog.fhcrc.org/bioc-data/branches/RELEASE_3_1/experiment/pkgs/DmelSGI
Last Changed Rev: 3279 / Revision: 3442
Last Changed Date: 2015-04-16 13:16:53 -0700 (Thu, 16 Apr 2015)
zin2 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK [ OK ]UNNEEDED, same version exists in internal repository
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK  OK  OK 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK  OK  OK 

Summary

Package: DmelSGI
Version: 1.0.0
Command: /home/biocbuild/bbs-3.1-bioc/R/bin/R CMD check --no-vignettes --timings DmelSGI_1.0.0.tar.gz
StartedAt: 2015-10-07 09:34:17 -0700 (Wed, 07 Oct 2015)
EndedAt: 2015-10-07 09:36:08 -0700 (Wed, 07 Oct 2015)
EllapsedTime: 111.5 seconds
RetCode: 0
Status:  OK 
CheckDir: DmelSGI.Rcheck
Warnings: 0

Command output

##############################################################################
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### Running command:
###
###   /home/biocbuild/bbs-3.1-bioc/R/bin/R CMD check --no-vignettes --timings DmelSGI_1.0.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.1-data-experiment/meat/DmelSGI.Rcheck’
* using R version 3.2.2 (2015-08-14)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘DmelSGI/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘DmelSGI’ version ‘1.0.0’
* 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 ‘DmelSGI’ can be installed ... [2s/5s] OK
* checking installed package size ... NOTE
  installed size is 141.3Mb
  sub-directories of 1Mb or more:
    Rscripts    1.7Mb
    data      137.3Mb
    doc         2.1Mb
* 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
* 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 loading without being on the library search path ... OK
* checking 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’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [12s/27s] OK
Examples with CPU or elapsed time > 5s
                      user system elapsed
ChromatinSet-package 3.892  0.019   8.414
datamatrix           3.827  0.056   8.783
* 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
* DONE

Status: 1 NOTE
See
  ‘/home/biocbuild/bbs-3.1-data-experiment/meat/DmelSGI.Rcheck/00check.log’
for details.


DmelSGI.Rcheck/00install.out:

* installing *source* package ‘DmelSGI’ ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (DmelSGI)

DmelSGI.Rcheck/DmelSGI-Ex.timings:

nameusersystemelapsed
ChromatinSet-package3.8920.0198.414
DPiM0.0160.0000.040
FBgn2anno0.3620.0000.806
Features0.0060.0000.017
Interactions1.9390.0234.138
Intogen0.0110.0000.012
RohnEtAl0.0020.0000.003
SKDdata0.3570.0040.617
SelectedClusters0.0020.0000.002
SelectedClustersComplexes0.0020.0000.001
TID2HUGO0.0070.0000.008
applyDimensionReduction0.0020.0000.014
callInteractions0.0010.0000.001
datamatrix3.8270.0568.783
estimatePairwiseInteractions0.0020.0000.002
fitepistasis0.1810.0080.380
getBaseDir0.0010.0000.001
grid.spider0.0020.0000.002
hrNames0.0000.0000.001
learnCoComplexityFct0.0010.0000.001
mainEffects0.0640.0070.178
myHeatmap0.0020.0000.001
mymedpolish0.0020.0000.001
orderDim0.0000.0000.001
orderSpiderAxis0.0010.0000.019
pimatrix0.5580.0201.280
plot2Phenotypes0.0030.0000.020
plotHairballLabels0.0010.0000.001
qualityControlFeature0.0040.0000.024
qualityControlGene0.0140.0000.018
selectByStability0.0000.0000.002
stabilitySelection0.0750.0040.200
subSampleForStabilitySelection0.0670.0000.227
subSampleForStabilitySelectionFct0.0010.0000.009
toMatrix0.0010.0000.000
toRaster0.0000.0000.001
trsf0.0010.0000.005