Package: Biostrings

Version: 2.0.3

Command: D:\biocbld\1.8d\R\bin\R.exe CMD check Biostrings_2.0.3.tar.gz

RetCode: 0

Time: 75.5 seconds

Status: OK

CheckDir: Biostrings.Rcheck

Warnings: 0

* checking for working latex ... OK
* using log directory 'D:/biocbld/1.8d/Rpacks/Biostrings.Rcheck'
* using Version 2.3.1 (2006-06-01)
* checking for file 'Biostrings/DESCRIPTION' ... OK
* this is package 'Biostrings' version '2.0.3'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'Biostrings' 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 syntax errors ... OK
* checking R files for library.dynam ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking Rd files ... 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
* creating Biostrings-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating Biostrings-manual.tex ... OK
* checking Biostrings-manual.tex ... OK

installing R.css in D:/biocbld/1.8d/Rpacks/Biostrings.Rcheck


---------- Making package Biostrings ------------
  adding build stamp to DESCRIPTION
  installing NAMESPACE file and metadata
  making DLL ...
making R_init_Biostrings.d from R_init_Biostrings.c
making alphabetFrequency.d from alphabetFrequency.c
making bbuf.d from bbuf.c
making ibuf.d from ibuf.c
making reverseComplement.d from reverseComplement.c
making shiftor.d from shiftor.c
making utils.d from utils.c
gcc   -Id:/biocbld/1.8d/R/include -Wall -O2   -c R_init_Biostrings.c -o R_init_Biostrings.o
gcc   -Id:/biocbld/1.8d/R/include -Wall -O2   -c alphabetFrequency.c -o alphabetFrequency.o
gcc   -Id:/biocbld/1.8d/R/include -Wall -O2   -c bbuf.c -o bbuf.o
gcc   -Id:/biocbld/1.8d/R/include -Wall -O2   -c ibuf.c -o ibuf.o
gcc   -Id:/biocbld/1.8d/R/include -Wall -O2   -c reverseComplement.c -o reverseComplement.o
gcc   -Id:/biocbld/1.8d/R/include -Wall -O2   -c shiftor.c -o shiftor.o
shiftor.c: In function `shiftor':
shiftor.c:224: warning: 'index' might be used uninitialized in this function
gcc   -Id:/biocbld/1.8d/R/include -Wall -O2   -c utils.c -o utils.o
utils.c: In function `Biostrings_translate_charcpy_from_subset':
utils.c:261: warning: unused variable `b'
utils.c: In function `Biostrings_translate_charcpy_to_subset':
utils.c:344: warning: unused variable `b'
windres --include-dir d:/biocbld/1.8d/R/include  -i Biostrings_res.rc -o Biostrings_res.o
gcc  -shared -s  -o Biostrings.dll Biostrings.def R_init_Biostrings.o alphabetFrequency.o bbuf.o ibuf.o reverseComplement.o shiftor.o utils.o Biostrings_res.o  -Ld:/biocbld/1.8d/R/bin   -lR
  ... DLL made
  installing DLL
  installing R files
  save image
Creating a new generic function for 'as.integer' in 'Biostrings'
Creating a new generic function for 'toString' in 'Biostrings'
Creating a new generic function for 'nchar' in 'Biostrings'
Creating a new generic function for 'as.matrix' in 'Biostrings'
Creating a new generic function for 'as.list' in 'Biostrings'
Warning message:
in the method signature for function 'BStringViews' no definition for class: "file" in: matchSignature(signature, fdef, where) 
  installing inst files
  installing data files
  installing man source files
  installing indices
  not zipping data
  installing help
 >>> Building/Updating help pages for package 'Biostrings'
     Formats: text html latex example chm 
  BString-class                     text    html    latex   example chm
  BStringViews-class                text    html    latex   example chm
  Biostrings-internals              text    html    latex           chm
  alphabetFrequency                 text    html    latex   example chm
  blosum50                          text    html    latex   example chm
  matchPattern                      text    html    latex   example chm
  needwunsQS                        text    html    latex   example chm
  readFASTA                         text    html    latex   example chm
  reverseComplement                 text    html    latex   example chm
  yeastSEQCHR1                      text    html    latex   example chm
Microsoft HTML Help Compiler 4.74.8702

Compiling d:\biocbld\1.8d\Rpacks\Biostrings.Rcheck\00_pkg_src\Biostrings\chm\Biostrings.chm


Compile time: 0 minutes, 0 seconds
11	Topics
200	Local links
1	Internet link
1	Graphic


Created d:\biocbld\1.8d\Rpacks\Biostrings.Rcheck\00_pkg_src\Biostrings\chm\Biostrings.chm, 31,821 bytes
Compression decreased file by 45,903 bytes.
  adding MD5 sums

* DONE (Biostrings)