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Package 24/389HostnameOS / ArchBUILDCHECKBUILD BIN
annotate 1.26.1
Biocore Team c/o BioC user list
Snapshot Date: 2010-10-04 11:22:20 -0700 (Mon, 04 Oct 2010)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_6/madman/Rpacks/annotate
Last Changed Rev: 47944 / Revision: 49923
Last Changed Date: 2010-07-06 15:40:46 -0700 (Tue, 06 Jul 2010)
wilson1 Linux (openSUSE 11.1) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK [ OK ] OK 
gewurz Windows Server 2008 R2 Enterprise (64-bit) / x64  OK  OK  OK 
pelham Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: annotate
Version: 1.26.1
Command: E:\biocbld\bbs-2.6-bioc\R\bin\R.exe CMD check --no-vignettes --timings annotate_1.26.1.tar.gz
StartedAt: 2010-10-04 16:40:27 -0700 (Mon, 04 Oct 2010)
EndedAt: 2010-10-04 16:43:25 -0700 (Mon, 04 Oct 2010)
EllapsedTime: 178.1 seconds
RetCode: 0
Status:  OK  
CheckDir: annotate.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory 'E:/biocbld/bbs-2.6-bioc/meat/annotate.Rcheck'
* using R version 2.11.1 (2010-05-31)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'annotate/DESCRIPTION' ... OK
* this is package 'annotate' version '1.26.1'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'annotate' can be installed ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level 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 name space can be loaded with stated dependencies ... OK
* checking whether the name space 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 data for non-ASCII characters ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK

annotate.Rcheck/00install.out:

* install options are ' --no-html'

* installing *source* package 'annotate' ...
** R
** data
** inst
** preparing package for lazy loading
Loading required package: Biobase

Welcome to Bioconductor

  Vignettes contain introductory material. To view, type
  'openVignette()'. To cite Bioconductor, see
  'citation("Biobase")' and for packages 'citation(pkgname)'.

** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (annotate)

annotate.Rcheck/annotate-Ex.timings:

nameusersystemelapsed
ACCNUMStats2.640.042.71
GO2heatmap0.210.050.25
GOmnplot0.150.000.15
HTMLPage-class000
LL2homology000
PMIDAmat0.360.020.52
PWAmat4.100.074.19
UniGeneQuery000
accessionToUID0.230.023.85
annPkgName000
aqListGOIDs0.590.031.62
buildChromLocation1.250.021.28
buildPubMedAbst0.090.000.73
chrCats4.880.014.91
chromLocation-class1.230.011.25
compatibleVersions0.130.050.17
dropECode0.110.020.12
entrezGeneByID000
entrezGeneQuery000
filterGOByOntology000
findNeighbors0.000.010.01
genbank0.090.001.25
genelocator000
getAnnMap0.160.020.46
getEvidence0.110.010.12
getGOTerm0.120.000.28
getOntology0.140.000.14
getPMInfo1.030.021.77
getSYMBOL0.250.030.39
getSeq4Acc0.000.000.42
hasGOannote0.050.000.08
hgByChroms0.010.000.01
hgCLengths000
hgu95Achroloc0.060.000.06
hgu95Achrom0.060.000.06
hgu95All0.060.000.07
hgu95Asym0.070.000.06
homoData-class000
htmlpage0.080.000.10
isValidkey000
makeAnchor000
neighborGeneFinder0.020.000.01
organism1.250.001.25
p2LL000
pm.abstGrep12.87 0.0018.10
pm.getabst13.91 0.0117.59
pm.titles14.42 0.0217.79
pmAbst2HTML0.110.011.64
pmid2MIAME000
pmidQuery000
probesByLL2.030.002.03
pubMedAbst-class0.140.000.86
pubmed0.080.002.47
readGEOAnn000
serializeEnv000
setRepository000
updateSymbolsToValidKeys000
usedChromGenes0.070.000.07