* checking for file 'cghMCR/DESCRIPTION' ... OK
* preparing 'cghMCR':
* checking DESCRIPTION meta-information ... OK
* installing the package to re-build vignettes
installing R.css in D:/biocbld/1.9d/tmpdir/Rinst380485314
---------- Making package cghMCR ------------
adding build stamp to DESCRIPTION
installing NAMESPACE file and metadata
installing R files
save image
Loading required package: DNAcopy
Loading required package: marray
Loading required package: limma
Loading required package: arrayQuality
Loading required package: convert
Loading required package: Biobase
Loading required package: tools
Welcome to Bioconductor
Vignettes contain introductory material. To view, type
'openVignette()' or start with 'help(Biobase)'. For details
on reading vignettes, see the openVignette help page.
Loading required package: hexbin
Loading required package: grid
Loading required package: lattice
Loading required package: colorspace
Creating a new generic function for 'plot' in 'colorspace'
Attaching package: 'colorspace'
The following object(s) are masked from package:grDevices :
hcl
Loading required package: gridBase
Loading required package: RColorBrewer
Creating a new generic function for 'print' in 'cghMCR'
installing inst files
installing data files
installing man source files
installing indices
not zipping data
installing help
>>> Building/Updating help pages for package 'cghMCR'
Formats: text html latex example chm
cghMCR-class text html latex example chm
cghMCR text html latex example chm
mergeMCRProbes text html latex example chm
plot.DNAcopy text html latex example chm
Microsoft HTML Help Compiler 4.74.8702
Compiling d:\biocbld\1.9d\Rpacks\cghMCR\chm\cghMCR.chm
Compile time: 0 minutes, 0 seconds
5 Topics
27 Local links
0 Internet links
1 Graphic
Created d:\biocbld\1.9d\Rpacks\cghMCR\chm\cghMCR.chm, 22,021 bytes
Compression increased file by 502 bytes.
adding MD5 sums
* DONE (cghMCR)
* creating vignettes ... ERROR
Loading required package: cghMCR
Loading required package: DNAcopy
Loading required package: marray
Loading required package: limma
Loading required package: arrayQuality
Loading required package: convert
Loading required package: Biobase
Welcome to Bioconductor
Vignettes contain introductory material. To view, type
'openVignette()' or start with 'help(Biobase)'. For details
on reading vignettes, see the openVignette help page.
Loading required package: hexbin
Loading required package: grid
Loading required package: lattice
Loading required package: colorspace
Creating a new generic function for 'plot' in 'colorspace'
Attaching package: 'colorspace'
The following object(s) are masked from package:grDevices :
hcl
Loading required package: gridBase
Loading required package: RColorBrewer
Attaching package: 'cghMCR'
The following object(s) are masked from package:DNAcopy :
plot.DNAcopy
findMCR.tex:35: Extra }, or forgotten segplot.png
texi2dvi: pdflatex exited with bad status, quitting.
texi2dvi: see "findMCR.log" for errors.
Error in texi2dvi(file = bft, pdf = TRUE, clean = FALSE, quiet = quiet) :
running texi2dvi on 'findMCR.tex' failed
In addition: Warning message:
array has repeated maploc positions
in: CNA(matrix(as.numeric(log2Ratio), ncol = ncol(log2Ratio), byrow = FALSE),
Execution halted