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| Package 22/187 | OS | Arch | BUILD | CHECK | BUILD BIN |
beadarray1.1.0Mark Dunning | Linux (SUSE 9.2) | x86_64 | OK | WARNINGS | |
| Linux (SUSE 9.2) | i686 | OK | [ WARNINGS ] | ||
| Solaris 2.9 | sparc | OK | WARNINGS | ||
| Linux (SUSE 10.0) | x86_64 | OK | WARNINGS | ||
| Windows Server 2003 | x86_64 | OK | WARNINGS | OK |
| Package: beadarray |
| Version: 1.1.0 |
| Command: /loc/biocbuild/1.9d/R/bin/R CMD check beadarray_1.1.0.tar.gz |
| RetCode: 0 |
| Time: 393.6 seconds |
| Status: WARNINGS |
| CheckDir: beadarray.Rcheck |
| Warnings: 2 |
* checking for working latex ... OK * using log directory '/extra/loc/biocbuild/1.9d/Rpacks/beadarray.Rcheck' * using R version 2.4.0 Under development (unstable) (2006-06-04 r38279) * checking for file 'beadarray/DESCRIPTION' ... OK * this is package 'beadarray' version '1.1.0' * checking package dependencies ... OK * checking if this is a source package ... OK * checking whether package 'beadarray' 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 syntax errors ... OK * checking R files for non-ASCII characters ... OK * checking R files for library.dynam ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking Rd files ... OK * checking for missing documentation entries ... WARNING Undocumented code objects: findAllOutliersSlow All user-level objects in a package should have documentation entries. See chapter 'Writing R documentation files' in manual 'Writing R Extensions'. * checking for code/documentation mismatches ... WARNING Codoc mismatches from documentation object 'findAllOutliers': findAllOutliers Code: function(BLData, array, log = FALSE, n = 3) Docs: function(BLData, array, log = FALSE, n = 3, ignoreList = NULL) * checking Rd \usage sections ... OK * checking for CRLF line endings in C/C++/Fortran sources/headers ... OK * creating beadarray-Ex.R ... OK * checking examples ... OK * creating beadarray-manual.tex ... OK * checking beadarray-manual.tex ... OK WARNING: There were 2 warnings, see /extra/loc/biocbuild/1.9d/Rpacks/beadarray.Rcheck/00check.log for details
beadarray.Rcheck/00install.out:
* Installing *source* package 'beadarray' ...
** libs
gcc -I/loc/biocbuild/1.9d/R/include -I/loc/biocbuild/1.9d/R/include -I/usr/local/include -fpic -g -O2 -std=gnu99 -Wall -c createBeadSummaryData.c -o createBeadSummaryData.o
gcc -I/loc/biocbuild/1.9d/R/include -I/loc/biocbuild/1.9d/R/include -I/usr/local/include -fpic -g -O2 -std=gnu99 -Wall -c findProbeIndices.c -o findProbeIndices.o
gcc -I/loc/biocbuild/1.9d/R/include -I/loc/biocbuild/1.9d/R/include -I/usr/local/include -fpic -g -O2 -std=gnu99 -Wall -c readBeadImages.c -o readBeadImages.o
readBeadImages.c: In function `readBeadImage':
readBeadImages.c:392: warning: `BeginData' might be used uninitialized in this function
readBeadImages.c:392: warning: `ImageWidth' might be used uninitialized in this function
readBeadImages.c:392: warning: `ImageHeight' might be used uninitialized in this function
readBeadImages.c:392: warning: `StripOffset' might be used uninitialized in this function
readBeadImages.c:393: warning: `offset' might be used uninitialized in this function
readBeadImages.c:393: warning: `records' might be used uninitialized in this function
gcc -shared -L/usr/local/lib -o beadarray.so createBeadSummaryData.o findProbeIndices.o readBeadImages.o
** R
** data
** inst
** preparing package for lazy loading
Loading required package: limma
Loading required package: pixmap
** help
>>> Building/Updating help pages for package 'beadarray'
Formats: text html latex example
BLData text html latex
BSData text html latex
BeadLevelList text html latex
BeadSummaryList text html latex
LargeDataObject text html latex example
backgroundCorrectBeads text html latex example
biotin_controls text html latex
cbind text html latex
checkRandomness text html latex example
createBeadSummaryData text html latex example
cy3_controls text html latex
dim text html latex
dimnames text html latex
displayTIFFImage text html latex example
findAllOutliers text html latex example
findBeadStatus text html latex example
findHighestChis text html latex example
findHighestSD text html latex example
findLowestCounts text html latex example
findMostOutliers text html latex example
getDimensions text html latex example
getMeanIntensities text html latex example
getProbeCoords text html latex example
getProbeIDs text html latex example
getProbeInfo text html latex
getProbeIntensities text html latex example
getUnregisteredBeads text html latex example
histBeadCounts text html latex example
housekeeping_controls text html latex
hs_controls text html latex
labelling_controls text html latex
ls_controls text html latex
matrix.mean text html latex
medianNormalise text html latex example
neg_controls text html latex
other_controls text html latex
pairwiseMA text html latex example
plotArray text html latex
plotBeadIntensities text html latex example
plotBeadLocations text html latex example
plotCluster text html latex
plotDistances text html latex example
plotMA.beads text html latex
plotMAXY text html latex example
plotOnSAM text html latex
plotProbeDistances text html latex example
plotProbeVariation text html latex
plotXY.beads text html latex
probeDiagnostics text html latex example
qsplineNormalise text html latex example
quantileNormalise text html latex example
readBeadImages text html latex example
readBeadSummaryData text html latex example
readBeadSummaryTargets text html latex example
readBeadTargets text html latex example
readNonXYData text html latex
readProbeInfo text html latex
removeArrays text html latex example
subsetting text html latex
** building package indices ...
* DONE (beadarray)