Back to the "Multiple platform build/check report"
| Package 141/172 | OS | Arch | BUILD | CHECK | BUILD BIN |
RMAGEML2.6.0Steffen Durinck | Linux (SUSE 9.2) | x86_64 | OK | [ OK ] | |
| Linux (SUSE 9.2) | i686 | OK | OK | ||
| Solaris 2.9 | sparc | ERROR | skipped | ||
| Linux (SUSE 10.0) | x86_64 | OK | OK | ||
| Windows Server 2003 | x86_64 | ERROR | skipped | skipped |
| Package: RMAGEML |
| Version: 2.6.0 |
| Command: /loc/biocbuild/1.8d/R/bin/R CMD check RMAGEML_2.6.0.tar.gz |
| RetCode: 0 |
| Time: 73.9 seconds |
| Status: OK |
| CheckDir: RMAGEML.Rcheck |
| Warnings: 0 |
* checking for working latex ... OK * using log directory '/loc/biocbuild/1.8d/Rpacks/RMAGEML.Rcheck' * using Version 2.3.1 (2006-06-01) * checking for file 'RMAGEML/DESCRIPTION' ... OK * this is package 'RMAGEML' version '2.6.0' * checking package dependencies ... OK * checking if this is a source package ... OK * checking whether package 'RMAGEML' 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 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 ... OK * 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 compilation flags in Makevars ... OK * creating RMAGEML-Ex.R ... OK * checking examples ... OK * checking package vignettes in 'inst/doc' ...sh: line 1: 24389 Segmentation fault '/loc/biocbuild/1.8d/R/bin/R' --vanilla --quiet /tmp/Rout2234301445 2>&1 OK * creating RMAGEML-manual.tex ... OK * checking RMAGEML-manual.tex ... OK
RMAGEML.Rcheck/00install.out:
* Installing *source* package 'RMAGEML' ...
configure: creating ./config.status
config.status: creating src/Makevars
** libs
gcc -I/loc/biocbuild/1.8d/R/include -I/loc/biocbuild/1.8d/R/include -I/usr/lib/jvm/jre/include -I/usr/lib/jvm/jre/include/linux -I/usr/local/include -fpic -g -O2 -std=gnu99 -Wall -c rmageml.c -o rmageml.o
rmageml.c: In function `arji_createJVM':
rmageml.c:61: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function `destroyOM':
rmageml.c:88: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function `newRMAGESTK':
rmageml.c:105: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function `importFeatures':
rmageml.c:130: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function `getGridDimensions':
rmageml.c:165: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function `selectQTypesDeriv':
rmageml.c:207: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function `getSizeDED':
rmageml.c:241: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function `selectQTypes':
rmageml.c:291: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function `getExternalData':
rmageml.c:345: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function `getQuantitationTypes':
rmageml.c:390: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function `getQTypeDescription':
rmageml.c:428: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function `createNewQTDim':
rmageml.c:460: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function `addQuantitationTypeInfo':
rmageml.c:486: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function `createNewMBASet':
rmageml.c:521: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function `setMBA':
rmageml.c:545: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function `updateMAGEML':
rmageml.c:578: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c:595: warning: cast from pointer to integer of different size
rmageml.c: In function `writeMAGEML':
rmageml.c:625: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function `getVoidArrayInt':
rmageml.c:655: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function `getVoidArrayStr':
rmageml.c:690: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function `getVoidStr':
rmageml.c:724: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function `getVoidVoid':
rmageml.c:747: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function `destroyOM':
rmageml.c:91: warning: control reaches end of non-void function
rmageml.c: At top level:
rmageml.c:17: warning: `JavaMethod_type_tag' defined but not used
gcc -shared -L/usr/local/lib64 -o RMAGEML.so rmageml.o -L/usr/lib/jvm/jre/jre/lib/amd64 -L/usr/lib/jvm/jre/jre/lib/i386 -ljava -L/usr/lib/jvm/jre/jre/lib/amd64/server -L/usr/lib/jvm/jre/jre/lib/i386/client -ljvm
** R
** inst
** preparing package for lazy loading
Loading required package: marray
Loading required package: limma
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.
** help
>>> Building/Updating help pages for package 'RMAGEML'
Formats: text html latex example
JavaVMRef-class text html latex
MEXP14 text html latex
addDerivedData text html latex example
addNormToMAGEML text html latex example
getArrayID text html latex example
getArrayLayout text html latex example
getArrayLayoutLimma text html latex example
getGnames text html latex example
getNumberOfFeatures text html latex example
getOrganization text html latex example
getQTDimensions text html latex example
getQTypeDescription text html latex example
getQuantitationTypes text html latex example
getSubmitterAddress text html latex example
importMAGEML text html latex example
importMAGEOM text html latex example
makeEset text html latex example
makeMarrayRaw text html latex example
makeRG text html latex example
reset text html latex example
writeMAGEML text html latex example
** building package indices ...
* DONE (RMAGEML)