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 167/553HostnameOS / ArchBUILDCHECKBUILD BIN
eisa 1.8.2
Gabor Csardi
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/eisa
Last Changed Rev: 66832 / Revision: 69725
Last Changed Date: 2012-06-19 13:54:23 -0700 (Tue, 19 Jun 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: eisa
Version: 1.8.2
Command: /Library/Frameworks/R.framework/Versions/2.15/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch eisa_1.8.2.tar.gz
StartedAt: 2012-09-23 23:59:38 -0700 (Sun, 23 Sep 2012)
EndedAt: 2012-09-24 00:06:01 -0700 (Mon, 24 Sep 2012)
EllapsedTime: 382.4 seconds
RetCode: 0
Status:  OK 
CheckDir: eisa.Rcheck
Warnings: 0

Command output

* using log directory '/Users/biocbuild/bbs-2.10-bioc/meat/eisa.Rcheck'
* using R version 2.15.1 (2012-06-22)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'eisa/DESCRIPTION' ... OK
* this is package 'eisa' version '1.8.2'
* 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 'eisa' 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
expPlot: warning in matrix(c(5, 2, 4, 6, 1, 3, 7, 8, 9), nc = 3, byrow
  = TRUE): partial argument match of 'nc' to 'ncol'
expPlot: warning in axis(1, at = at1, label = label1, cex.axis = 2):
  partial argument match of 'label' to 'labels'
expPlot: warning in axis(2, at = at2, label = label2, cex.axis = 2,
  tick = FALSE): partial argument match of 'label' to 'labels'
expPlot: warning in matrix(c(0, 0, 0, 0), nr = 1, nc = 1): partial
  argument match of 'nr' to 'nrow'
expPlot: warning in matrix(c(0, 0, 0, 0), nr = 1, nc = 1): partial
  argument match of 'nc' to 'ncol'
expPlot: warning in axis(2, at = c(-1, 0, 1), label = c(-1, 0, 1),
  cex.axis = 2): partial argument match of 'label' to 'labels'
expPlot: warning in axis(4, at = c(-1, 0, 1), label = c(-1, 0, 1),
  cex.axis = 2): partial argument match of 'label' to 'labels'
expPlot: warning in axis(4, at = at3, label = label2, cex.axis = 2):
  partial argument match of 'label' to 'labels'
expPlotColbar: warning in matrix((-30):30, nc = 1): partial argument
  match of 'nc' to 'ncol'
expPlotColbar: warning in axis(3, at = at, label = label, tick = FALSE,
  line = -1, cex.axis = 1.5): partial argument match of 'label' to
  'labels'
isa.autogen.module: warning in png(file = paste(sep = "", target.dir,
  "/expression-", m, ".png"), width = ep$width, height = ep$height):
  partial argument match of 'file' to 'filename'
isa.autogen.module: warning in png(file = paste(sep = "", target.dir,
  "/expcolbar-", m, ".png"), width = 840, height = 56): partial
  argument match of 'file' to 'filename'
isa.autogen.module : gp: warning in png(file = filename, width =
  gop$width * 4, height = gop$height * 4): partial argument match of
  'file' to 'filename'
isa.autogen.module: warning in png(file = paste(sep = "", target.dir,
  "/condplot-", m, ".png"), width = 1200, height = 400): partial
  argument match of 'file' to 'filename'
overlap: warning in graph.empty(n = nrow(B), dir = FALSE): partial
  argument match of 'dir' to 'directed'
annotate: no visible binding for global variable 'ALL'
* 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 examples ... OK
* checking for unstated dependencies in vignettes ... NOTE
'library' or 'require' call not declared from: 'affy'
* 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 2 notes.
See
  '/Users/biocbuild/bbs-2.10-bioc/meat/eisa.Rcheck/00check.log'
for details.

eisa.Rcheck/00install.out:

* installing *source* package 'eisa' ...
** R
** data
** inst
** preparing package for lazy loading
in method for 'coerce' with signature '"Biclust","ISAModules"': no definition for class "Biclust"
in method for 'coerce' with signature '"ISAModules","Biclust"': no definition for class "Biclust"
** help
*** installing help indices
** building package indices
** installing vignettes
   'EISA_biclust.Rnw' 
   'EISA_tutorial.Rnw' 
** testing if installed package can be loaded

* DONE (eisa)

eisa.Rcheck/eisa-Ex.timings:

nameusersystemelapsed
ALLModules0.0250.0040.030
ISA.CHR1.6530.0941.748
ISA.GO7.8720.6228.522
ISA.KEGG4.5230.1604.760
ISA29.905 4.31934.433
ISA.html26 228
ISA.iterate7.71.18.9
ISA.miRNA1.320.111.44
ISA.normalize5.320.635.98
ISA.sweep14.0 2.816.9
ISA.unique7.71.29.0
ISA2heatmap1.7140.0981.829
ISAExpressionSet4.90.65.5
ISAModules-class0.0130.0020.016
ListHyperGParams-class6.210.426.65
ListHyperGResult-class7.800.478.29
cond.plot2.350.182.53
eisa.biclust5.31.56.9
enrichment0.6870.0390.725
exp.plot2.290.182.48
gograph7.550.678.23
mnplot2.50.22.7
overlap0.800.481.30
profilePlot1.9350.0982.038
robustness2.960.323.34