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Package 96/609HostnameOS / ArchBUILDCHECKBUILD BIN
cellHTS2 2.22.0
Joseph Barry
Snapshot Date: 2013-03-24 16:21:20 -0700 (Sun, 24 Mar 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_11/madman/Rpacks/cellHTS2
Last Changed Rev: 70186 / Revision: 74773
Last Changed Date: 2012-10-04 04:17:13 -0700 (Thu, 04 Oct 2012)
lamb1 Linux (openSUSE 12.1) / x86_64  OK [ OK ]
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
perceval Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: cellHTS2
Version: 2.22.0
Command: /home/biocbuild/bbs-2.11-bioc/R/bin/R CMD check --no-vignettes --timings cellHTS2_2.22.0.tar.gz
StartedAt: 2013-03-24 23:56:23 -0700 (Sun, 24 Mar 2013)
EndedAt: 2013-03-25 00:02:20 -0700 (Mon, 25 Mar 2013)
EllapsedTime: 356.9 seconds
RetCode: 0
Status:  OK 
CheckDir: cellHTS2.Rcheck
Warnings: 0

Command output

* using log directory ‘/loc/home/biocbuild/bbs-2.11-bioc/meat/cellHTS2.Rcheck’
* using R version 2.15.3 (2013-03-01)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘cellHTS2/DESCRIPTION’ ... OK
* this is package ‘cellHTS2’ version ‘2.22.0’
* 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 whether package ‘cellHTS2’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is  5.7Mb
  sub-directories of 1Mb or more:
    KcViab   2.0Mb
    doc      1.7Mb
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... 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 ... OK
* checking R code for possible problems ... NOTE
annotate,cellHTS: warning in read.table(file.path(path, file), sep =
  "\t", header = TRUE, stringsAsFactors = FALSE, na.string = "", quote
  = "", fill = FALSE): partial argument match of 'na.string' to
  'na.strings'
* 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 examples ... OK
Examples with CPU or elapsed time > 5s
        user system elapsed
Bscore 4.856  0.056   5.211
* checking for unstated dependencies in tests ... OK
* checking tests ...
  Running ‘test.R’
 OK
* checking for unstated dependencies in vignettes ... NOTE
‘library’ or ‘require’ calls not declared from:
  ‘GO.db’ ‘KEGG.db’
* 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 were 3 notes.
See
  ‘/loc/home/biocbuild/bbs-2.11-bioc/meat/cellHTS2.Rcheck/00check.log’
for details.

cellHTS2.Rcheck/00install.out:

* installing *source* package ‘cellHTS2’ ...
** R
** data
** inst
** preparing package for lazy loading
Creating a generic function for ‘lines’ from package ‘graphics’ in package ‘cellHTS2’
** help
*** installing help indices
** building package indices
** installing vignettes
   ‘cellhts2.Rnw’ 
   ‘cellhts2Complete.Rnw’ 
   ‘twoChannels.Rnw’ 
   ‘twoWay.Rnw’ 
** testing if installed package can be loaded

* DONE (cellHTS2)

cellHTS2.Rcheck/cellHTS2-Ex.timings:

nameusersystemelapsed
Bscore4.8560.0565.211
ROC-class0.3680.0000.369
ROC1.3320.0041.345
annotate1.9690.0161.986
bdgpbiomart0.1760.0040.181
buildCellHTS20.3680.0040.370
cellHTS-class3.2080.0483.257
configurationAsScreenPlot3.0680.0163.086
configure1.1200.0001.126
convertOldCellHTS1.4440.0201.523
convertWellCoordinates000
data-KcViab0.1480.0040.154
data-KcViabSmall0.0160.0000.027
data-dualCh0.0120.0040.014
data-oldKcViabSmall0.0120.0000.013
getAlphaNumeric0.0040.0000.000
getDynamicRange0.8760.0120.966
getEnVisionRawData0.0480.0040.050
getMeasureRepAgreement0.7760.0000.825
getTopTable2.0040.0202.260
getZfactor0.4040.0240.665
imageScreen1.1570.0161.269
normalizePlates1.5320.0001.607
oneRowPerId0.0040.0000.004
plotSpatialEffects3.1480.0003.169
readHTAnalystData1.2880.0001.443
readPlateList1.0800.0041.141
rsa0.9960.0001.247
scoreReplicates1.0080.0001.111
scores2calls1.0920.0001.135
setSettings0.0080.0000.006
spatialNormalization1.6040.0041.679
summarizeChannels1.8240.0001.825
summarizeReplicates1.100.001.12
templateDescriptionFile0.0000.0000.001
updateCellHTS0.1800.0040.193
write.tabdel0.0960.0000.155
writeReport0.0120.0000.013
writeTab0.0240.0000.037