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 2/553HostnameOS / ArchBUILDCHECKBUILD BIN
a4Base 1.4.1
Tobias Verbeke
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/a4Base
Last Changed Rev: 64885 / Revision: 69725
Last Changed Date: 2012-04-05 01:22:31 -0700 (Thu, 05 Apr 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: a4Base
Version: 1.4.1
Command: /home/biocbuild/bbs-2.10-bioc/R/bin/R CMD check --no-vignettes --timings a4Base_1.4.1.tar.gz
StartedAt: 2012-09-23 22:54:34 -0700 (Sun, 23 Sep 2012)
EndedAt: 2012-09-23 23:00:20 -0700 (Sun, 23 Sep 2012)
EllapsedTime: 346.1 seconds
RetCode: 0
Status:  OK 
CheckDir: a4Base.Rcheck
Warnings: 0

Command output

* using log directory ‘/loc/home/biocbuild/bbs-2.10-bioc/meat/a4Base.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 ‘a4Base/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘a4Base’ version ‘1.4.1’
* checking package namespace information ... OK
* checking package dependencies ... NOTE
Packages which this enhances but not available for checking:
  ‘gridSVG’ ‘JavaGD’
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking whether package ‘a4Base’ 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
a4palette: warning in rgb(9, 53, 122, alpha = alpha, max = 255):
  partial argument match of 'max' to 'maxColorValue'
a4palette: warning in rgb(42, 142, 191, alpha = alpha, max = 255):
  partial argument match of 'max' to 'maxColorValue'
a4palette: warning in rgb(148, 198, 223, alpha = alpha, max = 255):
  partial argument match of 'max' to 'maxColorValue'
a4palette: warning in rgb(35, 125, 38, alpha = alpha, max = 255):
  partial argument match of 'max' to 'maxColorValue'
a4palette: warning in rgb(127, 195, 28, alpha = alpha, max = 255):
  partial argument match of 'max' to 'maxColorValue'
a4palette: warning in rgb(191, 225, 141, alpha = alpha, max = 255):
  partial argument match of 'max' to 'maxColorValue'
heatmap.expressionSet: warning in grid.layout(nrow = heatmap.grid.nrow,
  ncol = heatmap.grid.ncol, width = grid.layout.col.widths, heights =
  grid.layout.row.heights): partial argument match of 'width' to
  'widths'
heatmap.expressionSet: warning in grid.layout(nrow = 1, ncol = 5, width
  = unit(c(1, 1, 30, legend.width[1], 1), c("null", "grobwidth",
  "points", attr(legend.width, "unit"), "null"), c(vector(mode =
  "list", length = 1), list(title.toplot.grob), vector(mode = "list",
  length = 3)))): partial argument match of 'width' to 'widths'
plotLogRatio: warning in viewport(x = 0, y = 0, w = 1, h = 1, just =
  c("left", "bottom"), layout = grid.layout(nrow = nr + 14, ncol = 1)):
  partial argument match of 'w' to 'width'
plotLogRatio: warning in viewport(x = 0, y = 0, w = 1, h = 1, just =
  c("left", "bottom"), layout = grid.layout(nrow = nr + 14, ncol = 1)):
  partial argument match of 'h' to 'height'
replicates: warning in vector("numeric", len = length(x)): partial
  argument match of 'len' to 'length'
plotLogRatio: no visible global function definition for ‘JavaGD’
plotLogRatio: no visible global function definition for ‘grid.garnish’
plotLogRatio: no visible global function definition for
  ‘grid.hyperlink’
plotLogRatio: no visible global function definition for ‘grid.script’
plotLogRatio: no visible global function definition for ‘gridToSVG’
* 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 examples ... OK
* checking PDF version of manual ... OK

NOTE: There were 2 notes.
See
  ‘/loc/home/biocbuild/bbs-2.10-bioc/meat/a4Base.Rcheck/00check.log’
for details.

a4Base.Rcheck/00install.out:

* installing *source* package ‘a4Base’ ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded

* DONE (a4Base)

a4Base.Rcheck/a4Base-Ex.timings:

nameusersystemelapsed
a4palette0.020.000.02
addQuantilesColors3.9440.1244.068
boxPlot3.3050.1363.472
combineTwoExpressionSet0.0000.0000.001
computeLogRatio17.573 0.29618.772
createExpressionSet0.0920.0000.101
filterVarInt2.6760.0602.823
heatmap.expressionSet0.0000.0000.001
histPvalue3.1520.0403.301
histpvalueplotter2.8840.0522.961
lassoReg2.9960.0563.063
logReg000
nlcvTT000
plot1gene3.2810.1203.534
plotComb2Samples3.5200.0603.622
plotCombMultSamples4.6000.0524.689
plotCombination2genes3.0280.0363.070
plotLogRatio15.441 0.22416.472
probabilitiesPlot000
probe2gene2.7520.0722.910
profilesPlot2.3970.0642.500
propdegenescalculation3.3480.0563.413
replicates0.0000.0040.003
spectralMap34.454 0.68835.701
tTest3.5800.0603.668
volcanoPlot3.6680.0283.789