simpleaffy 2.16.0
Crispin Miller
| Snapshot Date: 2008-08-08 00:12:03 -0700 (Fri, 08 Aug 2008) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_2/madman/Rpacks/simpleaffy | | Last Changed Rev: 31430 / Revision: 33132 | | Last Changed Date: 2008-04-29 16:50:18 -0700 (Tue, 29 Apr 2008) |
| lamb1 | Linux (SUSE 10.1) / x86_64 | OK | WARNINGS | |
| wilson2 | Linux (openSUSE 10.3) / x86_64 | OK | WARNINGS | |
| wellington | Linux (openSUSE 10.3) / i686 | 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 |
* checking for working pdflatex ... OK
* using log directory 'E:/biocbld/bbs-2.2-bioc/meat/simpleaffy.Rcheck'
* using R version 2.7.1 (2008-06-23)
* using session charset: ISO8859-1
* checking for file 'simpleaffy/DESCRIPTION' ... OK
* this is package 'simpleaffy' version '2.16.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'simpleaffy' 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 ... WARNING
Undocumented S4 methods:
generic 'plot' and siglist 'PairComp,missing'
generic 'plot' and siglist 'PairComp,PairComp'
All user-level objects in a package (including S4 classes and methods)
should have documentation entries.
See the chapter 'Writing R documentation files' in manual 'Writing R
Extensions'.
* 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 simpleaffy-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating simpleaffy-manual.tex ... OK
* checking simpleaffy-manual.tex using pdflatex ... OK
WARNING: There was 1 warning, see
E:/biocbld/bbs-2.2-bioc/meat/simpleaffy.Rcheck/00check.log
for details
installing R.css in E:/biocbld/bbs-2.2-bioc/meat/simpleaffy.Rcheck
---------- Making package simpleaffy ------------
adding build stamp to DESCRIPTION
installing NAMESPACE file and metadata
making DLL ...
making simpleaffy.d from simpleaffy.c
gcc -std=gnu99 -Ie:/biocbld/bbs-2.2-bioc/R/include -O3 -Wall -c simpleaffy.c -o simpleaffy.o
windres --preprocessor="gcc -E -xc -DRC_INVOKED" -I e:/biocbld/bbs-2.2-bioc/R/include -i simpleaffy_res.rc -o simpleaffy_res.o
gcc -std=gnu99 -shared -s -o simpleaffy.dll simpleaffy.def simpleaffy.o simpleaffy_res.o -Le:/biocbld/bbs-2.2-bioc/R/bin -lR
... DLL made
installing DLL
installing R files
installing inst files
installing data files
preparing package simpleaffy 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
Loading required package: preprocessCore
Loading required package: genefilter
Loading required package: survival
Loading required package: splines
Loading required package: gcrma
Loading required package: matchprobes
installing man source files
installing indices
not zipping data
installing help
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>>> Building/Updating help pages for package 'simpleaffy'
Formats: text html latex example chm
PairComp-class text html latex chm
QCStats-class text html latex chm
all.present text html latex example chm
all.present.in.group text html latex example chm
bg.correct.sa text html latex example chm
call.exprs text html latex example chm
detection.p.val text html latex example chm
get.annotation text html latex example chm
get.array.indices text html latex example chm
get.array.subset text html latex example chm
get.array.subset.affy text html latex example chm
get.fold.change.and.t.test text html latex example chm
hmap.colors text html latex example chm
hmap.eset text html latex example chm
hmap.pc text html latex example chm
journalpng text html latex example chm
justMAS text html latex example chm
pairwise.comparison text html latex example chm
pairwise.filter text html latex example chm
plot.pairwise.comparison text html latex example chm
plot.qc.stats text html latex example chm
qc text html latex example chm
qc.affy text html latex example chm
qc.get.alpha1 text html latex example chm
qc.get.array text html latex example chm
qc.get.probes text html latex example chm
qc.get.ratios text html latex example chm
qc.get.spikes text html latex example chm
qc.have.params text html latex example chm
qc.ok text html latex example chm
qc.read.file text html latex example chm
qc.stats text html latex example chm
read.affy text html latex example chm
read.affy.mixed text html latex example chm
setQCEnvironment text html latex example chm
simpleaffy-deprecated text html latex example chm
standard.pearson text html latex example chm
trad.scatter.plot text html latex example chm
Microsoft HTML Help Compiler 4.74.8702
Compiling e:\biocbld\bbs-2.2-bioc\meat\simpleaffy.Rcheck\00_pkg_src\simpleaffy\chm\simpleaffy.chm
Compile time: 0 minutes, 0 seconds
39 Topics
230 Local links
11 Internet links
1 Graphic
Created e:\biocbld\bbs-2.2-bioc\meat\simpleaffy.Rcheck\00_pkg_src\simpleaffy\chm\simpleaffy.chm, 64,679 bytes
Compression decreased file by 97,609 bytes.
adding MD5 sums
* DONE (simpleaffy)