Package: DNAcopy

Version: 1.12.0

Command: E:\biocbld\bbs-2.1-bioc\R\bin\R.exe CMD check DNAcopy_1.12.0.tar.gz

RetCode: 0

Time: 53.2 seconds

Status: OK

CheckDir: DNAcopy.Rcheck

Warnings: 0

* checking for working latex ... OK
* using log directory 'E:/biocbld/bbs-2.1-bioc/meat/DNAcopy.Rcheck'
* using R version 2.6.0 (2007-10-03)
* checking for file 'DNAcopy/DESCRIPTION' ... OK
* this is package 'DNAcopy' version '1.12.0'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'DNAcopy' can be installed ... OK
* checking package directory ... OK
* checking for portable file names ... 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 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 ... OK
* checking Rd files ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking data for non-ASCII characters ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable use of $BLAS_LIBS ... OK
* creating DNAcopy-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating DNAcopy-manual.tex ... OK
* checking DNAcopy-manual.tex ... OK

installing R.css in E:/biocbld/bbs-2.1-bioc/meat/DNAcopy.Rcheck


---------- Making package DNAcopy ------------
  adding build stamp to DESCRIPTION
  making DLL ...
making flchoose.d from flchoose.c
making fphyper.d from fphyper.c
making fpnorm.d from fpnorm.c
making rshared.d from rshared.c
gcc-sjlj  -std=gnu99  -Ie:/biocbld/bbs-2.1-bioc/R/include    -Wall -O3  -c flchoose.c -o flchoose.o
gcc-sjlj  -std=gnu99  -Ie:/biocbld/bbs-2.1-bioc/R/include    -Wall -O3  -c fphyper.c -o fphyper.o
gcc-sjlj  -std=gnu99  -Ie:/biocbld/bbs-2.1-bioc/R/include    -Wall -O3  -c fpnorm.c -o fpnorm.o
gcc-sjlj  -std=gnu99  -Ie:/biocbld/bbs-2.1-bioc/R/include    -Wall -O3  -c rshared.c -o rshared.o
gfortran-sjlj  -O3 -Wall  -c changepoints.f -o changepoints.o
changepoints.f: In function 'tmax1':
changepoints.f:175: warning: 'wtmxi' may be used uninitialized in this function
changepoints.f:175: warning: 'wtmxj' may be used uninitialized in this function
changepoints.f:175: warning: 'sxmxi' may be used uninitialized in this function
gfortran-sjlj  -O3 -Wall  -c getbdry.f -o getbdry.o
gfortran-sjlj  -O3 -Wall  -c hybcpt.f -o hybcpt.o
gfortran-sjlj  -O3 -Wall  -c prune.f -o prune.o
gfortran-sjlj  -O3 -Wall  -c segmentp.f -o segmentp.o
windres --preprocessor="gcc-sjlj -E -xc -DRC_INVOKED" -I e:/biocbld/bbs-2.1-bioc/R/include  -i DNAcopy_res.rc -o DNAcopy_res.o
gcc-sjlj  -std=gnu99  -shared -s  -o DNAcopy.dll DNAcopy.def flchoose.o fphyper.o fpnorm.o rshared.o changepoints.o getbdry.o hybcpt.o prune.o segmentp.o DNAcopy_res.o  -Le:/biocbld/bbs-2.1-bioc/R/bin   -lgfortran -lR
  ... DLL made
  installing DLL
  installing R files
  installing demos
  installing inst files
  installing data files
  preparing package DNAcopy for lazy data loading
  installing man source files
  installing indices
  installing help
 >>> Building/Updating help pages for package 'DNAcopy'
     Formats: text html latex example chm 
  CNA                               text    html    latex   example chm
  DNAcopy-internal                  text    html    latex           chm
  DNAcopy                           text    html    latex           chm
  coriell                           text    html    latex           chm
  cytoBand                          text    html    latex           chm
  getbdry                           text    html    latex           chm
  plot.DNAcopy                      text    html    latex   example chm
  segment                           text    html    latex   example chm
  segments.p                        text    html    latex   example chm
  smooth.CNA                        text    html    latex   example chm
  subset.CNA                        text    html    latex   example chm
  subset.DNAcopy                    text    html    latex           chm
Microsoft HTML Help Compiler 4.74.8702

Compiling e:\biocbld\bbs-2.1-bioc\meat\DNAcopy.Rcheck\00_pkg_src\DNAcopy\chm\DNAcopy.chm


Compile time: 0 minutes, 0 seconds
13	Topics
26	Local links
1	Internet link
1	Graphic


Created e:\biocbld\bbs-2.1-bioc\meat\DNAcopy.Rcheck\00_pkg_src\DNAcopy\chm\DNAcopy.chm, 32,878 bytes
Compression decreased file by 11,769 bytes.
  adding MD5 sums

* DONE (DNAcopy)