Package: Harshlight

Version: 1.4.0

Command: /loc/biocbuild/bbs-2.0-bioc/R/bin/R CMD check Harshlight_1.4.0.tar.gz

RetCode: 0

Time: 90.7 seconds

Status: WARNINGS

CheckDir: Harshlight.Rcheck

Warnings: 1

* checking for working latex ... OK
* using log directory '/extra/loc/biocbuild/bbs-2.0-bioc/meat/Harshlight.Rcheck'
* using R version 2.5.1 (2007-06-27)
* checking for file 'Harshlight/DESCRIPTION' ... OK
* this is package 'Harshlight' version '1.4.0'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'Harshlight' can be installed ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... 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 ... WARNING
Data sets with usage in documentation object 'sim' but not in code:
  sim_n4_534 sim_n4_640 sim_n4_712 sim_n8_534 sim_n8_640 sim_n8_712
  sim_4_534 sim_4_640 sim_4_712 sim_8_534 sim_8_640 sim_8_712

* checking Rd \usage sections ... OK
* checking data for non-ASCII characters ... OK
* checking for CRLF line endings in C/C++/Fortran sources/headers ... OK
* checking for portable use of $BLAS_LIBS ... OK
* creating Harshlight-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating Harshlight-manual.tex ... OK
* checking Harshlight-manual.tex ... OK

WARNING: There was 1 warning, see
  /extra/loc/biocbuild/bbs-2.0-bioc/meat/Harshlight.Rcheck/00check.log
for details

* Installing *source* package 'Harshlight' ...
** libs
gcc -std=gnu99 -I/loc/biocbuild/bbs-2.0-bioc/R/include -I/loc/biocbuild/bbs-2.0-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c Harshlight.c -o Harshlight.o
gcc -std=gnu99 -shared -L/usr/local/lib -o Harshlight.so Harshlight.o   -L/loc/biocbuild/bbs-2.0-bioc/R/lib -lR
** R
** data
** inst
** preparing package for lazy loading
Loading required package: affy
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: affyio
** help
 >>> Building/Updating help pages for package 'Harshlight'
     Formats: text html latex example 
  HarshComp                         text    html    latex
  HarshExt                          text    html    latex
  Harshlight                        text    html    latex   example
  sim                               text    html    latex
** building package indices ...
* DONE (Harshlight)