Package: SMAP

Version: 1.2.0

Command: E:\biocbld\bbs-2.1-bioc\R\bin\R.exe CMD check SMAP_1.2.0.tar.gz

RetCode: 0

Time: 105.8 seconds

Status: OK

CheckDir: SMAP.Rcheck

Warnings: 0

* checking for working latex ... OK
* using log directory 'E:/biocbld/bbs-2.1-bioc/meat/SMAP.Rcheck'
* using R version 2.6.0 (2007-10-03)
* checking for file 'SMAP/DESCRIPTION' ... OK
* this is package 'SMAP' version '1.2.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'SMAP' 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 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 SMAP-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating SMAP-manual.tex ... OK
* checking SMAP-manual.tex ... OK

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


---------- Making package SMAP ------------
  adding build stamp to DESCRIPTION
  installing NAMESPACE file and metadata
  making DLL ...
making gradient.d from gradient.c
making init.d from init.c
making overlap.d from overlap.c
making prob.d from prob.c
making viterbi.d from viterbi.c
gcc-sjlj  -std=gnu99  -Ie:/biocbld/bbs-2.1-bioc/R/include    -Wall -O3  -c gradient.c -o gradient.o
gradient.c: In function 'hmm_update':
gradient.c:247: warning: unused variable 'tmp'
gcc-sjlj  -std=gnu99  -Ie:/biocbld/bbs-2.1-bioc/R/include    -Wall -O3  -c init.c -o init.o
gcc-sjlj  -std=gnu99  -Ie:/biocbld/bbs-2.1-bioc/R/include    -Wall -O3  -c overlap.c -o overlap.o
gcc-sjlj  -std=gnu99  -Ie:/biocbld/bbs-2.1-bioc/R/include    -Wall -O3  -c prob.c -o prob.o
gcc-sjlj  -std=gnu99  -Ie:/biocbld/bbs-2.1-bioc/R/include    -Wall -O3  -c viterbi.c -o viterbi.o
windres --preprocessor="gcc-sjlj -E -xc -DRC_INVOKED" -I e:/biocbld/bbs-2.1-bioc/R/include  -i SMAP_res.rc -o SMAP_res.o
gcc-sjlj  -std=gnu99  -shared -s  -o SMAP.dll SMAP.def gradient.o init.o overlap.o prob.o viterbi.o SMAP_res.o  -Le:/biocbld/bbs-2.1-bioc/R/bin    -lR
  ... DLL made
  installing DLL
  installing R files
  installing inst files
  installing data files
  preparing package SMAP for lazy loading
Creating a new generic function for "plot" in "SMAP"
  installing man source files
  installing indices
  not zipping data
  installing help
 >>> Building/Updating help pages for package 'SMAP'
     Formats: text html latex example chm 
  GBM                               text    html    latex   example chm
  SMAP-internal                     text    html    latex           chm
  SMAPHMM-class                     text    html    latex           chm
  SMAPHMM                           text    html    latex           chm
  SMAPObservations-class            text    html    latex           chm
  SMAPObservations                  text    html    latex   example chm
  SMAPProfile-class                 text    html    latex           chm
  SMAPProfiles-class                text    html    latex           chm
  smap                              text    html    latex   example chm
Microsoft HTML Help Compiler 4.74.8702

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


Compile time: 0 minutes, 0 seconds
10	Topics
66	Local links
0	Internet links
1	Graphic


Created e:\biocbld\bbs-2.1-bioc\meat\SMAP.Rcheck\00_pkg_src\SMAP\chm\SMAP.chm, 28,901 bytes
Compression decreased file by 23,567 bytes.
  adding MD5 sums

* DONE (SMAP)