Back to the "Multiple platform build/check report"
| NOTES: (1) a maintainance reboot of lemming prevented these builds to complete on this machine (2) these are the last builds with R 2.6.0 (2007-06-03 r41797) on lamb1 and lemming, next builds will be with R 2.6.0 (2007-06-10 r41908) configured with --enable-strict-barrier |
| Package 151/238 | Hostname | OS | Arch | BUILD | CHECK | BUILD BIN |
oligo1.1.1Benilton CarvalhoLast Changed Date: 2007-06-10 10:22:32 -0700 Last Changed Rev: 25301 | lamb1 | Linux (SUSE 10.1) | x86_64 | ERROR | skipped | |
| wellington | Linux (SUSE 9.2) | i686 | ERROR | skipped | ||
| churchill | Solaris 2.9 | sparc | ERROR | skipped | ||
| lemming | Windows Server 2003 (32-bit) | x64 | [ ERROR ] | skipped | skipped |
| Package: oligo |
| Version: 1.1.1 |
| Command: D:\biocbld\bbs-2.1-bioc\R\bin\R.exe CMD build oligo |
| RetCode: 1 |
| Time: 25.5 seconds |
| Status: ERROR |
| PackageFile: None |
* checking for file 'oligo/DESCRIPTION' ... OK
* preparing 'oligo':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to re-build vignettes
installing R.css in D:/biocbld/bbs-2.1-bioc/tmpdir/Rinst768034698
---------- Making package oligo ------------
adding build stamp to DESCRIPTION
installing NAMESPACE file and metadata
making DLL ...
making baseProfile.d from baseProfile.c
making basecontent.d from basecontent.c
making rma2.d from rma2.c
making rma_background2.d from rma_background2.c
making rma_common.d from rma_common.c
making trimmed.d from trimmed.c
gcc -Id:/biocbld/bbs-2.1-bioc/R/src/extra/zlib -DHAVE_ZLIB -Id:/biocbld/bbs-2.1-bioc/R/include -I"d:/biocbld/bbs-2.1-bioc/R/library/preprocessCore/include" -Wall -O3 -std=gnu99 -c baseProfile.c -o baseProfile.o
gcc -Id:/biocbld/bbs-2.1-bioc/R/src/extra/zlib -DHAVE_ZLIB -Id:/biocbld/bbs-2.1-bioc/R/include -I"d:/biocbld/bbs-2.1-bioc/R/library/preprocessCore/include" -Wall -O3 -std=gnu99 -c basecontent.c -o basecontent.o
gcc -Id:/biocbld/bbs-2.1-bioc/R/src/extra/zlib -DHAVE_ZLIB -Id:/biocbld/bbs-2.1-bioc/R/include -I"d:/biocbld/bbs-2.1-bioc/R/library/preprocessCore/include" -Wall -O3 -std=gnu99 -c rma2.c -o rma2.o
gcc -Id:/biocbld/bbs-2.1-bioc/R/src/extra/zlib -DHAVE_ZLIB -Id:/biocbld/bbs-2.1-bioc/R/include -I"d:/biocbld/bbs-2.1-bioc/R/library/preprocessCore/include" -Wall -O3 -std=gnu99 -c rma_background2.c -o rma_background2.o
gcc -Id:/biocbld/bbs-2.1-bioc/R/src/extra/zlib -DHAVE_ZLIB -Id:/biocbld/bbs-2.1-bioc/R/include -I"d:/biocbld/bbs-2.1-bioc/R/library/preprocessCore/include" -Wall -O3 -std=gnu99 -c rma_common.c -o rma_common.o
gcc -Id:/biocbld/bbs-2.1-bioc/R/src/extra/zlib -DHAVE_ZLIB -Id:/biocbld/bbs-2.1-bioc/R/include -I"d:/biocbld/bbs-2.1-bioc/R/library/preprocessCore/include" -Wall -O3 -std=gnu99 -c trimmed.c -o trimmed.o
windres -I d:/biocbld/bbs-2.1-bioc/R/include -i oligo_res.rc -o oligo_res.o
gcc -shared -s -o oligo.dll oligo.def baseProfile.o basecontent.o rma2.o rma_background2.o rma_common.o trimmed.o oligo_res.o -Ld:/biocbld/bbs-2.1-bioc/R/bin -lR
... DLL made
installing DLL
installing R files
preparing package oligo for lazy loading
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: splines
Loading required package: RSQLite
Loading required package: DBI
Loading required package: BufferedMatrix
Loading required package: BufferedMatrixMethods
Loading required package: preprocessCore
installing inst files
installing man source files
installing indices
installing help
>>> Building/Updating help pages for package 'oligo'
Formats: text html latex example chm
DBPDInfo-class text html latex example chm
FeatureSet-class text html latex example chm
missing link(s): eSet-class VersionedBiobase-class Versioned-class eSet-class VersionedBiobase-class Versioned-class
FeatureSetExtensions-class text html latex example chm
missing link(s): eSet-class VersionedBiobase-class Versioned-class eSet-class VersionedBiobase-class Versioned-class
Index-methods text html latex example chm
IntensityMatrix-methods text html latex example chm
PDInfo-class text html latex example chm
PDInfo-methods text html latex example chm
Sequences-methods text html latex example chm
SnpCallSet-methods text html latex example chm
SnpCopyNumberSet-methods text html latex example chm
SnpQSet-class text html latex example chm
missing link(s): eSet-class VersionedBiobase-class Versioned-class eSet-class VersionedBiobase-class Versioned-class
SnpQSet-methods text html latex example chm
SnpSetExtensions-class text html latex example chm
missing link(s): eSet-class VersionedBiobase-class Versioned-class eSet-class VersionedBiobase-class Versioned-class
basecontent text html latex example chm
boxplot text html latex example chm
chromosome text html latex example chm
crlmm text html latex example chm
featureIndex text html latex example chm
genomeBuild text html latex example chm
getPlatformDesign text html latex example chm
hist text html latex example chm
image text html latex example chm
internals text html latex example chm
kind text html latex example chm
list.celfiles text html latex example chm
manufacturer text html latex example chm
nProbes text html latex example chm
ncol text html latex example chm
oligo-package text html latex example chm
platform text html latex example chm
platformDesign-class text html latex example chm
plotDensity text html latex example chm
pmAllele text html latex example chm
pmPosition text html latex example chm
pmStrand text html latex example chm
probeNames text html latex example chm
read.celfiles text html latex example chm
read.xysfiles text html latex example chm
rma text html latex example chm
sequenceDesignMatrix text html latex example chm
snprma text html latex example chm
snprmaSummaries text html latex example chm
Microsoft HTML Help Compiler 4.74.8702
Compiling d:\biocbld\bbs-2.1-bioc\meat\oligo\chm\oligo.chm
Compile time: 0 minutes, 0 seconds
43 Topics
215 Local links
0 Internet links
1 Graphic
Created d:\biocbld\bbs-2.1-bioc\meat\oligo\chm\oligo.chm, 41,630 bytes
Compression decreased file by 89,619 bytes.
adding MD5 sums
* DONE (oligo)
* creating vignettes ... ERROR
Loading required package: Biobase
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: splines
Loading required package: RSQLite
Loading required package: DBI
Loading required package: BufferedMatrix
Loading required package: BufferedMatrixMethods
Loading required package: preprocessCore
This is the oligo package
Error: processing vignette 'oligo.Rnw' failed with diagnostics:
chunk 2 (label=getRawData)
Error in library(hapmap100kxba) :
there is no package called 'hapmap100kxba'
Execution halted