limma 2.18.3
Gordon Smyth
| 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/limma | | Last Changed Rev: 41423 / Revision: 42512 | | Last Changed Date: 2009-08-31 01:36:40 -0700 (Mon, 31 Aug 2009) |
| wilson1 | Linux (openSUSE 11.1) / x86_64 | OK | WARNINGS | |
| 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/limma.Rcheck'
* using R version 2.9.2 (2009-08-24)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'limma/DESCRIPTION' ... OK
* this is package 'limma' version '2.18.3'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'limma' 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 ... WARNING
Codoc mismatches from documentation object 'removeBatchEffect':
removeBatchEffect
Code: function(x, batch, design = matrix(1, ncol(x), 1))
Docs: function(x, batch, design = NULL)
Mismatches in argument default values:
Name: 'design' Code: matrix(1, ncol(x), 1) Docs: NULL
* checking Rd \usage sections ... 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
* checking examples ... OK
* checking tests ...
Running 'limma-Tests.R'
Comparing 'limma-Tests.Rout' to 'limma-Tests.Rout.save' ... OK
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/limma.Rcheck/00check.log
for details
* Installing *source* package 'limma' ...
** libs
making DLL ...
gcc -I"e:/biocbld/bbs-2.4-bioc/R/include" -O3 -Wall -std=gnu99 -c normexp.c -o normexp.o
gcc -shared -s -o limma.dll tmp.def normexp.o -Le:/biocbld/bbs-2.4-bioc/R/bin -lR
... done
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
>>> Building/Updating help pages for package 'limma'
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Microsoft HTML Help Compiler 4.74.8702
Compiling e:\biocbld\BBS-2~1.4-B\meat\LIMMA~1.RCH\00_PKG~1\limma\chm\limma.chm
Compile time: 0 minutes, 1 second
129 Topics
721 Local links
26 Internet links
1 Graphic
Created e:\biocbld\BBS-2~1.4-B\meat\LIMMA~1.RCH\00_PKG~1\limma\chm\limma.chm, 227,432 bytes
Compression decreased file by 340,499 bytes.
** building package indices ...
** MD5 sums
* DONE (limma)