BSgenome 1.12.5
H. Pages
| Bioconductor Changelog | | Snapshot Date: 2009-10-20 11:27:33 -0700 (Tue, 20 Oct 2009) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_4/madman/Rpacks/BSgenome | | Last Changed Rev: 42410 / Revision: 42512 | | Last Changed Date: 2009-10-15 10:46:38 -0700 (Thu, 15 Oct 2009) |
| wilson1 | Linux (openSUSE 11.1) / x86_64 | ERROR | skipped | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | [ WARNINGS ] | OK |
| pitt | Mac OS X Tiger (10.4.11) / i386 | OK | WARNINGS | OK |
| pelham | Mac OS X Leopard (10.5.8) / i386 | OK | WARNINGS | OK |
* checking for working pdflatex ... OK
* using log directory 'E:/biocbld/bbs-2.4-bioc/meat/BSgenome.Rcheck'
* using R version 2.9.2 (2009-08-24)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'BSgenome/DESCRIPTION' ... OK
* this is package 'BSgenome' version '1.12.5'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'BSgenome' 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 files against version 2 parser ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... WARNING
Undocumented arguments in documentation object 'getSeq'
...
Functions with \usage entries need to have the appropriate \alias entries,
and all their arguments documented.
The \usage entries must correspond to syntactically valid R code.
See the chapter 'Writing R documentation files' in manual 'Writing R
Extensions'.
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK
WARNING: There was 1 warning, see
E:/biocbld/bbs-2.4-bioc/meat/BSgenome.Rcheck/00check.log
for details
* Installing *source* package 'BSgenome' ...
** R
** inst
** preparing package for lazy loading
Attaching package: 'IRanges'
The following object(s) are masked from package:base :
cbind,
duplicated,
order,
pmax,
pmax.int,
pmin,
pmin.int,
rank,
rbind,
rep.int,
sapply,
sort,
table,
unique
** help
*** installing help indices
>>> Building/Updating help pages for package 'BSgenome'
Formats: text html latex example chm
BSParams-class text html latex chm
BSgenome-class text html latex example chm
BSgenomeForge text html latex example chm
GenomeData-class text html latex example chm
GenomeDataList-class text html latex example chm
GenomeDescription-class text html latex example chm
available.genomes text html latex example chm
bsapply text html latex example chm
gdapply text html latex chm
getSeq text html latex example chm
injectSNPs text html latex example chm
strand text html latex example chm
Microsoft HTML Help Compiler 4.74.8702
Compiling e:\biocbld\BBS-2~1.4-B\meat\BSGENO~1.RCH\00_PKG~1\BSgenome\chm\BSgenome.chm
Compile time: 0 minutes, 0 seconds
13 Topics
129 Local links
0 Internet links
1 Graphic
Created e:\biocbld\BBS-2~1.4-B\meat\BSGENO~1.RCH\00_PKG~1\BSgenome\chm\BSgenome.chm, 42,737 bytes
Compression decreased file by 42,061 bytes.
** building package indices ...
** MD5 sums
* DONE (BSgenome)