Package: SAGx

Version: 1.10.0

Command: D:\biocbld\bbs-2.0-bioc\R\bin\R.exe CMD check SAGx_1.10.0.tar.gz

RetCode: 0

Time: 125.4 seconds

Status: OK

CheckDir: SAGx.Rcheck

Warnings: 0

* checking for working latex ... OK
* using log directory 'D:/biocbld/bbs-2.0-bioc/meat/SAGx.Rcheck'
* using R version 2.5.0 (2007-04-23)
* checking for file 'SAGx/DESCRIPTION' ... OK
* this is package 'SAGx' version '1.10.0'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'SAGx' 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 whether the name space 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 for CRLF line endings in C/C++/Fortran sources/headers ... OK
* checking for portable use of $BLAS_LIBS ... OK
* creating SAGx-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating SAGx-manual.tex ... OK
* checking SAGx-manual.tex ... OK

installing R.css in D:/biocbld/bbs-2.0-bioc/meat/SAGx.Rcheck


---------- Making package SAGx ------------
  adding build stamp to DESCRIPTION
  installing NAMESPACE file and metadata
  making DLL ...
making minigsea.d from minigsea.c
making newboot.d from newboot.c
making samrocNboot.d from samrocNboot.c
gcc   -Id:/biocbld/bbs-2.0-bioc/R/include  -Wall -O3 -std=gnu99   -c minigsea.c -o minigsea.o
gcc   -Id:/biocbld/bbs-2.0-bioc/R/include  -Wall -O3 -std=gnu99   -c newboot.c -o newboot.o
gcc   -Id:/biocbld/bbs-2.0-bioc/R/include  -Wall -O3 -std=gnu99   -c samrocNboot.c -o samrocNboot.o
windres -I d:/biocbld/bbs-2.0-bioc/R/include  -i SAGx_res.rc -o SAGx_res.o
gcc  -shared -s  -o SAGx.dll SAGx.def minigsea.o newboot.o samrocNboot.o SAGx_res.o  -Ld:/biocbld/bbs-2.0-bioc/R/bin    -lR
  ... DLL made
  installing DLL
  installing R files
  installing inst files
  installing man source files
  installing indices
  installing help
 >>> Building/Updating help pages for package 'SAGx'
     Formats: text html latex example chm 
  Fstat                             text    html    latex   example chm
  GSEA.mean.t                       text    html    latex           chm
  JT.test                           text    html    latex   example chm
  R2BASE                            text    html    latex           chm
  R2mim                             text    html    latex           chm
  Xprep                             text    html    latex           chm
  Xprep.resid                       text    html    latex           chm
  clin2mim                          text    html    latex           chm
  cluster.q                         text    html    latex           chm
  estimatep0                        text    html    latex           chm
  fetchSignal                       text    html    latex   example chm
  firstpass                         text    html    latex   example chm
  fom                               text    html    latex           chm
  fp.fn                             text    html    latex           chm
  gap                               text    html    latex   example chm
  list.experiments                  text    html    latex   example chm
  list.intersection.p               text    html    latex           chm
  mat2TeX                           text    html    latex           chm
  myclus                            text    html    latex   example chm
  normalise                         text    html    latex           chm
  one.probeset.per.gene             text    html    latex           chm
  outlier                           text    html    latex   example chm
  p0.mom                            text    html    latex           chm
  pava.fdr                          text    html    latex           chm
  pava                              text    html    latex   example chm
  rank.genes                        text    html    latex           chm
  rank.trend                        text    html    latex   example chm
  rsd.test                          text    html    latex           chm
  samroc.result-class               text    html    latex           chm
  samrocn                           text    html    latex           chm
  samrocnboot                       text    html    latex   example chm
  union.of.pways                    text    html    latex   example chm
Microsoft HTML Help Compiler 4.74.8702

Compiling d:\biocbld\bbs-2.0-bioc\meat\SAGx.Rcheck\00_pkg_src\SAGx\chm\SAGx.chm


Compile time: 0 minutes, 0 seconds
33	Topics
68	Local links
6	Internet links
1	Graphic


Created d:\biocbld\bbs-2.0-bioc\meat\SAGx.Rcheck\00_pkg_src\SAGx\chm\SAGx.chm, 53,137 bytes
Compression decreased file by 38,418 bytes.
  preparing package SAGx for lazy loading
Loading required package: multtest
Loading required package: Biobase
Loading required package: tools

Welcome to Bioconductor

  Vignettes contain introductory material. To view, type
  'openVignette()'. To cite Bioconductor, see
  'citation("Biobase")' and for packages 'citation(pkgname)'.

Loading required package: survival
Loading required package: splines
  adding MD5 sums

* DONE (SAGx)