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| Package 185/208 | OS | Arch | BUILD | CHECK | BUILD BIN |
simpleaffy2.9.1Crispin Miller | Linux (SUSE 9.2) | x86_64 | OK | WARNINGS | |
| Linux (SUSE 10.1) | x86_64 | OK | WARNINGS | ||
| Linux (SUSE 9.2) | i686 | OK | [ WARNINGS ] | ||
| Solaris 2.9 | sparc | OK | WARNINGS | ||
| Windows Server 2003 | x86_64 | OK | WARNINGS | OK | |
| Windows Server 2003 | NA | OK | ERROR | OK | |
| Mac OS X (10.4.6) | i686 | OK | WARNINGS |
| Package: simpleaffy |
| Version: 2.9.1 |
| Command: /loc/biocbuild/2.0d/R/bin/R CMD check simpleaffy_2.9.1.tar.gz |
| RetCode: 0 |
| Time: 111.8 seconds |
| Status: WARNINGS |
| CheckDir: simpleaffy.Rcheck |
| Warnings: 3 |
* checking for working latex ... OK * using log directory '/extra/loc/biocbuild/2.0d/Rpacks/simpleaffy.Rcheck' * using R version 2.5.0 Under development (unstable) (2006-12-05 r40126) * checking for file 'simpleaffy/DESCRIPTION' ... OK * this is package 'simpleaffy' version '2.9.1' * checking package dependencies ... WARNING 'library' or 'require' calls not declared from: cdfname methods package 'methods' is used but not declared See the information on DESCRIPTION files in the chapter 'Creating R packages' of the 'Writing R Extensions' manual. * checking if this is a source package ... OK * checking whether package 'simpleaffy' can be installed ... WARNING Found the following significant warnings: Warning: The exprSet class is deprecated, use ExpressionSet instead See '/extra/loc/biocbuild/2.0d/Rpacks/simpleaffy.Rcheck/00install.out' for details. * 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 syntax errors ... OK * checking R files for non-ASCII characters ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... 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,ANY' generic 'plot' and siglist 'QCStats,ANY' 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 for CRLF line endings in C/C++/Fortran sources/headers ... 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 ... OK WARNING: There were 3 warnings, see /extra/loc/biocbuild/2.0d/Rpacks/simpleaffy.Rcheck/00check.log for details
simpleaffy.Rcheck/00install.out:
* Installing *source* package 'simpleaffy' ...
** libs
gcc -std=gnu99 -I/loc/biocbuild/2.0d/R/include -I/loc/biocbuild/2.0d/R/include -I/usr/local/include -fpic -g -O2 -Wall -c simpleaffy.c -o simpleaffy.o
gcc -std=gnu99 -shared -L/usr/local/lib -o simpleaffy.so simpleaffy.o
** 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()' or start with 'help(Biobase)'. For details
on reading vignettes, see the openVignette help page.
Loading required package: affyio
Loading required package: genefilter
Loading required package: survival
Loading required package: splines
Warning: The exprSet class is deprecated, use ExpressionSet instead
** help
>>> Building/Updating help pages for package 'simpleaffy'
Formats: text html latex example
PairComp-class text html latex
QCStats-accessor text html latex
QCStats-class text html latex
all.present text html latex example
all.present.in.group text html latex example
alpha text html latex
bg.correct.sa text html latex example
call.exprs text html latex example
detection.p.val text html latex example
get.annotation text html latex example
get.array.indices text html latex example
get.array.subset text html latex example
get.array.subset.affy text html latex example
get.fold.change.and.t.test text html latex example
getActin3 text html latex example
getActin5 text html latex example
getActinM text html latex example
getAllQCProbes text html latex example
getAllSpikeProbes text html latex example
getAlpha1 text html latex example
getAlpha2 text html latex example
getBioB text html latex example
getBioC text html latex example
getBioD text html latex example
getCreX text html latex example
getGapdh3 text html latex example
getGapdh5 text html latex example
getGapdhM text html latex example
getQCParams-methods text html latex
getTao text html latex example
haveQCParams text html latex example
hmap.colors text html latex example
hmap.eset text html latex example
hmap.pc text html latex example
journalpng text html latex example
justMAS text html latex example
pairwise.comparison text html latex example
pairwise.filter text html latex example
plot.pairwise.comparison text html latex example
plot.qc.stats text html latex example
qc text html latex example
qc.affy text html latex example
qc.probes text html latex
read.affy text html latex example
read.affy.mixed text html latex example
spikes text html latex
standard.pearson text html latex example
trad.scatter.plot text html latex example
** building package indices ...
* DONE (simpleaffy)