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 

Package 29/553HostnameOS / ArchBUILDCHECKBUILD BIN
Agi4x44PreProcess 1.16.0
Pedro Lopez-Romero
Snapshot Date: 2012-09-23 17:01:39 -0700 (Sun, 23 Sep 2012)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_10/madman/Rpacks/Agi4x44PreProcess
Last Changed Rev: 64678 / Revision: 69725
Last Changed Date: 2012-03-30 15:05:02 -0700 (Fri, 30 Mar 2012)
lamb2 Linux (openSUSE 11.4) / x86_64  OK [ OK ]
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
petty Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: Agi4x44PreProcess
Version: 1.16.0
Command: /home/biocbuild/bbs-2.10-bioc/R/bin/R CMD check --no-vignettes --timings Agi4x44PreProcess_1.16.0.tar.gz
StartedAt: 2012-09-23 23:11:32 -0700 (Sun, 23 Sep 2012)
EndedAt: 2012-09-23 23:13:51 -0700 (Sun, 23 Sep 2012)
EllapsedTime: 139.1 seconds
RetCode: 0
Status:  OK 
CheckDir: Agi4x44PreProcess.Rcheck
Warnings: 0

Command output

* using log directory ‘/loc/home/biocbuild/bbs-2.10-bioc/meat/Agi4x44PreProcess.Rcheck’
* using R version 2.15.1 (2012-06-22)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘Agi4x44PreProcess/DESCRIPTION’ ... OK
* this is package ‘Agi4x44PreProcess’ version ‘1.16.0’
* 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 ‘Agi4x44PreProcess’ can be installed ... OK
* checking installed package size ... OK
* 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 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
HeatMap: warning in heatmap.2(DD.s, labCol = samples, labRow = names,
  scale = "none", col = rbg, margin = c(10, 10), tracecol = "cyan"):
  partial argument match of 'margin' to 'margins'
filter.probes: warning in .packages(all = TRUE): partial argument match
  of 'all' to 'all.available'
genes.rpt.agi: warning in ensembl.htmlpage(PROBE_ID, probe.chr,
  filename, annotation.package, title, table.head = head, table.center
  = TRUE, other = list(unlist(GENE_ID), unlist(gene.sym),
  unlist(probe.chr))): partial argument match of 'other' to
  'othernames'
write.eset: warning in .packages(all = TRUE): partial argument match of
  'all' to 'all.available'
* 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
* 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 vignettes ... SKIPPED
* checking PDF version of manual ... OK

NOTE: There was 1 note.
See
  ‘/loc/home/biocbuild/bbs-2.10-bioc/meat/Agi4x44PreProcess.Rcheck/00check.log’
for details.

Agi4x44PreProcess.Rcheck/00install.out:

* installing *source* package ‘Agi4x44PreProcess’ ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   ‘Agi4x44PreProcess.Rnw’ using ‘latin1’ 
** testing if installed package can be loaded

* DONE (Agi4x44PreProcess)

Agi4x44PreProcess.Rcheck/Agi4x44PreProcess-Ex.timings:

nameusersystemelapsed
Agi4x44PreProcess-package0.0000.0000.001
BGandNorm000
BoxPlot0.0000.0000.001
CV.rep.probes000
HeatMap000
MVAplotMED0.0000.0040.000
MVAplotMEDctrl2.6000.0562.659
PCAplot000
RLE000
boxplotNegCtrl000
build.eset000
build.mappings000
dd000
ensembl.htmlpage000
filter.NonUnifOL0.0000.0000.001
filter.PopnOL0.0000.0000.001
filter.control000
filter.isfound000
filter.probes000
filter.saturated0.0040.0000.000
filter.wellaboveBG000
filter.wellaboveNEG000
genes.rpt.agi5.1560.0685.235
gsea.files0.0000.0000.001
hierclus0.0000.0040.000
plotDensity000
read.AgilentFE0.1760.0120.187
read.targets0.0040.0000.002
summarize.probe000
targets000
write.eset000