Back to the "Multiple platform build/check report" A  B  C  D  E  F  G [H] I  J  K  L  M  N  O  P  Q  R  S  T  U  V  W  X  Y  Z 

BioC 2.13: CHECK report for HTSanalyzeR on moscato1

This page was generated on 2014-04-05 09:50:08 -0700 (Sat, 05 Apr 2014).

Package 351/750HostnameOS / ArchBUILDCHECKBUILD BIN
HTSanalyzeR 2.14.0
Xin Wang
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/HTSanalyzeR
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: HTSanalyzeR
Version: 2.14.0
Command: rm -rf HTSanalyzeR.buildbin-libdir && mkdir HTSanalyzeR.buildbin-libdir && D:\biocbld\bbs-2.13-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=HTSanalyzeR.buildbin-libdir HTSanalyzeR_2.14.0.tar.gz >HTSanalyzeR-install.out 2>&1 && D:\biocbld\bbs-2.13-bioc\R\bin\R.exe CMD check --library=HTSanalyzeR.buildbin-libdir --install="check:HTSanalyzeR-install.out" --force-multiarch --no-vignettes --timings HTSanalyzeR_2.14.0.tar.gz && mv HTSanalyzeR.buildbin-libdir/* HTSanalyzeR.Rcheck/ && rmdir HTSanalyzeR.buildbin-libdir
StartedAt: 2014-04-05 04:35:38 -0700 (Sat, 05 Apr 2014)
EndedAt: 2014-04-05 04:42:36 -0700 (Sat, 05 Apr 2014)
EllapsedTime: 417.9 seconds
RetCode: 0
Status:  OK  
CheckDir: HTSanalyzeR.Rcheck
Warnings: 0

Command output

* using log directory 'D:/biocbld/bbs-2.13-bioc/meat/HTSanalyzeR.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 'HTSanalyzeR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'HTSanalyzeR' version '2.14.0'
* 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 'HTSanalyzeR' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Package listed in more than one of Depends, Imports, Suggests, Enhances:
  'igraph'
A package should be listed in only one of these fields.
* 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
Package in Depends field not imported from: 'methods'
  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 ... NOTE
File 'HTSanalyzeR/R/zzz.R':
  .onLoad calls:
    packageStartupMessage("/////////////////////////////////////////////////////////////////////////////\n\n//------------------    Thanks for using HTSanalyzeR    -------------------//\n \n//------------please use function changes() to see new changes-------------//\n\n//------------please report any bug to xinwang2hms@gmail.com---------------//\n\n/////////////////////////////////////////////////////////////////////////////\n",     appendLF = FALSE)

See section 'Good practice' in '?.onAttach'.
* 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':
  'HTSanalyzeR-Vignette.Rnw'
A 'vignettes' directory will be required as from R 3.1.0
* checking examples ...
** running examples for arch 'i386' ... [44s] OK
Examples with CPU or elapsed time > 5s
                       user system elapsed
celAnnotationConvertor 2.54   0.09    5.02
** running examples for arch 'x64' ... [37s] 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 4 notes.
See
  'D:/biocbld/bbs-2.13-bioc/meat/HTSanalyzeR.Rcheck/00check.log'
for details.

HTSanalyzeR.Rcheck/00install.out:


install for i386

* installing *source* package 'HTSanalyzeR' ...
** 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 'HTSanalyzeR' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'HTSanalyzeR' as HTSanalyzeR_2.14.0.zip
* DONE (HTSanalyzeR)

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

nameusersystemelapsed
FDRcollectionGsea0.850.010.86
GOGeneSets2.410.114.46
GSCA-class0.000.020.01
HTSanalyzeR4cellHTS20.020.000.02
KeggGeneSets3.320.033.40
NWA-class0.010.000.01
aggregatePvals0.020.000.02
analyze0.020.000.01
analyzeGeneSetCollections000
annotationConvertor1.230.001.99
appendGSTerms0.020.000.02
biogridDataDownload000
celAnnotationConvertor2.540.095.02
cellHTS2OutputStatTests0.020.000.01
changes0.020.000.01
collectionGsea1.170.001.17
data-KcViab1.610.021.72
drosoAnnotationConvertor1.730.001.73
duplicateRemover0.020.000.01
getTopGeneSets0.050.000.05
gseaPlots0.020.000.01
gseaScores0.080.000.08
hyperGeoTest3.850.013.87
interactome0.030.000.03
mammalAnnotationConvertor2.140.022.16
multiHyperGeoTest0.050.000.04
networkAnalysis0.020.000.01
networkPlot0.030.000.04
pairwiseGsea1.530.001.52
pairwiseGseaPlot0.020.000.02
pairwisePhenoMannWhit0.030.000.03
permutationPvalueCollectionGsea0.480.000.49
plotEnrichMap0.020.000.01
plotGSEA0.060.000.06
plotSubNet0.050.000.04
preprocess0.050.000.05
report0.040.000.05
reportAll0.030.000.04
summarize0.040.000.03
viewEnrichMap0.030.000.03
viewGSEA0.010.000.01
viewSubNet0.010.000.01
writeReportHTSA0.020.000.01

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

nameusersystemelapsed
FDRcollectionGsea0.890.020.91
GOGeneSets3.600.113.81
GSCA-class0.000.010.01
HTSanalyzeR4cellHTS20.020.000.02
KeggGeneSets4.150.024.16
NWA-class0.030.000.03
aggregatePvals0.020.000.02
analyze0.020.000.03
analyzeGeneSetCollections0.020.000.02
annotationConvertor1.300.011.31
appendGSTerms000
biogridDataDownload000
celAnnotationConvertor2.120.032.15
cellHTS2OutputStatTests000
changes000
collectionGsea0.280.000.28
data-KcViab0.930.020.95
drosoAnnotationConvertor1.570.011.59
duplicateRemover0.030.000.03
getTopGeneSets0.030.020.05
gseaPlots0.020.020.03
gseaScores0.090.000.10
hyperGeoTest4.560.034.58
interactome0.010.000.02
mammalAnnotationConvertor3.110.033.14
multiHyperGeoTest0.030.000.03
networkAnalysis0.030.000.03
networkPlot0.030.000.03
pairwiseGsea0.750.010.77
pairwiseGseaPlot0.020.000.01
pairwisePhenoMannWhit0.030.000.03
permutationPvalueCollectionGsea0.390.000.39
plotEnrichMap0.020.000.01
plotGSEA0.020.000.02
plotSubNet0.020.000.02
preprocess0.020.010.03
report0.020.000.02
reportAll0.030.000.03
summarize0.020.000.02
viewEnrichMap0.010.000.01
viewGSEA0.020.000.02
viewSubNet000
writeReportHTSA0.020.000.02