Back to the "Multiple platform build/check report"
| Package 25/205 | OS | Arch | BUILD | CHECK | BUILD BIN |
beadarray1.1.6Mark Dunning | Linux (SUSE 9.2) | x86_64 | OK | WARNINGS | |
| Linux (SUSE 9.2) | i686 | OK | WARNINGS | ||
| Solaris 2.9 | sparc | OK | [ ERROR ] | ||
| Linux (SUSE 10.0) | x86_64 | OK | WARNINGS | ||
| Windows Server 2003 | x86_64 | OK | WARNINGS | OK | |
| Windows XP | i686 | OK | WARNINGS | skipped | |
| Mac OS X (10.4.6) | i686 | OK | WARNINGS |
| Package: beadarray |
| Version: 1.1.6 |
| Command: /loc/biocbuild/1.9d/R/bin/R CMD check beadarray_1.1.6.tar.gz |
| RetCode: 1 |
| Time: 107.1 seconds |
| Status: ERROR |
| CheckDir: beadarray.Rcheck |
| Warnings: NA |
* checking for working latex ... OK
* using log directory '/loc/biocbuild/1.9d/Rpacks/beadarray.Rcheck'
* using R version 2.4.0 Under development (unstable) (2006-07-18 r38641)
* checking for file 'beadarray/DESCRIPTION' ... OK
* this is package 'beadarray' version '1.1.6'
* 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 S3 generic/method consistency ... WARNING
Error: .First.lib failed for 'beadarray'
Call sequence:
2: stop(gettextf(".First.lib failed for '%s'", libraryPkgName(package)),
domain = NA)
1: library(package, lib.loc = lib.loc, character.only = TRUE, verbose = FALSE)
Execution halted
See section 'Generic functions and methods' of the 'Writing R Extensions'
manual.
* checking replacement functions ... WARNING
Error: .First.lib failed for 'beadarray'
Call sequence:
2: stop(gettextf(".First.lib failed for '%s'", libraryPkgName(package)),
domain = NA)
1: library(package, lib.loc = lib.loc, character.only = TRUE, verbose = FALSE)
Execution halted
In R, the argument of a replacement function which corresponds to the right
hand side must be named 'value'.
* checking foreign function calls ... WARNING
Error: .First.lib failed for 'beadarray'
Call sequence:
2: stop(gettextf(".First.lib failed for '%s'", libraryPkgName(package)),
domain = NA)
1: library(package, lib.loc = lib.loc, character.only = TRUE, verbose = FALSE)
Execution halted
See section 'System and foreign language interfaces' of the 'Writing R
Extensions' manual.
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... ERROR
Error: .First.lib failed for 'beadarray'
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 -c BLImagePlot.c -o BLImagePlot.o
BLImagePlot.c: In function 'BLImagePlot':
BLImagePlot.c:17: warning: implicit declaration of function 'log2'
BLImagePlot.c:17: warning: incompatible implicit declaration of built-in function 'log2'
gcc -I/loc/biocbuild/1.9d/R/include -I/loc/biocbuild/1.9d/R/include -I/usr/local/include -fPIC -g -O2 -std=gnu99 -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 -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 -c readBeadImages.c -o readBeadImages.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 -c returnTIFF.c -o returnTIFF.o
returnTIFF.c: In function 'readTIFF':
returnTIFF.c:101: warning: implicit declaration of function 'getPixelIntensities'
gcc -G -L/usr/local/lib -o beadarray.so BLImagePlot.o createBeadSummaryData.o findProbeIndices.o readBeadImages.o returnTIFF.o
** R
** data
** inst
** preparing package for lazy loading
Loading required package: limma
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: affy
Loading required package: affyio
** help
>>> Building/Updating help pages for package 'beadarray'
Formats: text html latex example
BLData text html latex
BLImagePlot text html latex
BSData text html latex
BeadLevelList text html latex
BeadLevelNormalise text html latex
BeadSummaryList text html latex
DiffScore text html latex
LargeDataObject text html latex example
QC text html latex
backgroundCorrectBeads text html latex example
backgroundNormalise text html latex example
cbind text html latex
checkRandomness text html latex example
class.ExpressionSetIllumina text html latex
createBeadSummaryData text html latex example
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
getProbeCoords text html latex example
getProbeIntensities text html latex example
histBeadCounts text html latex example
interactivePlots text html latex
medianNormalise text html latex example
plotArray text html latex
plotBeadIntensities text html latex example
plotBeadLocations text html latex example
plotMA.beads text html latex
plotMAXY text html latex example
plotOnSAM text html latex
plotXY.beads text html latex
rankInvariantNormalise text html latex example
readBeadLevelData text html latex example
readBeadSummaryData text html latex example
readBeadSummaryTargets text html latex example
readBeadTargets text html latex example
readQC text html latex example
removeArrays text html latex example
subsetting text html latex
** building package indices ...
* DONE (beadarray)