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Package 189/233HostnameOS / ArchBUILDCHECKBUILD BIN
RMAGEML 2.12.0
Steffen Durinck
Snapshot Date: 2008-04-09 12:13:20 -0700 (Wed, 09 Apr 2008)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_1/madman/Rpacks/RMAGEML
Last Changed Rev: 28558 / Revision: 30966
Last Changed Date: 2007-11-07 23:08:50 -0800 (Wed, 07 Nov 2007)
lamb1 Linux (SUSE 10.1) / x86_64 [ OK ] OK 
wilson2 Linux (openSUSE 10.3) / x86_64  OK  OK 
wellington Linux (openSUSE 10.3) / i686  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64 N O T   S U P P O R T E D
lemming Windows Server 2003 (32-bit) / x64 N O T   S U P P O R T E D
pitt Mac OS X Tiger (10.4.11) / i386 N O T   S U P P O R T E D
Package: RMAGEML
Version: 2.12.0
Command: /home/biocbuild/bbs-2.1-bioc/R/bin/R CMD build RMAGEML
StartedAt: 2008-04-09 13:55:54 -0700 (Wed, 09 Apr 2008)
EndedAt: 2008-04-09 13:56:11 -0700 (Wed, 09 Apr 2008)
EllapsedTime: 16.5 seconds
RetCode: 0
Status: OK
PackageFile: RMAGEML_2.12.0.tar.gz
PackageFileSize: 4.686 MiB

Command output

* checking for file 'RMAGEML/DESCRIPTION' ... OK
* preparing 'RMAGEML':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* checking whether 'INDEX' is up-to-date ... NO
* use '--force' to overwrite the existing 'INDEX'
* installing the package to re-build vignettes
* Installing *source* package 'RMAGEML' ...
configure: creating ./config.status
config.status: creating src/Makevars
** libs
gcc -std=gnu99 -I/home/biocbuild/bbs-2.1-bioc/R/include -I/home/biocbuild/bbs-2.1-bioc/R/include -I/usr/lib64/jvm/java/include -I/usr/lib64/jvm/java/include/linux  -I/usr/local/include    -fpic  -g -O2 -Wall -c rmageml.c -o rmageml.o
rmageml.c: In function 'arji_createJVM':
rmageml.c:65: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function 'destroyOM':
rmageml.c:92: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function 'newRMAGESTK':
rmageml.c:109: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function 'importFeatures':
rmageml.c:134: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function 'getGridDimensions':
rmageml.c:169: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function 'selectQTypesDeriv':
rmageml.c:211: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function 'getSizeDED':
rmageml.c:245: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function 'selectQTypes':
rmageml.c:295: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function 'getExternalData':
rmageml.c:349: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function 'getQuantitationTypes':
rmageml.c:394: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function 'getQTypeDescription':
rmageml.c:432: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function 'createNewQTDim':
rmageml.c:464: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function 'addQuantitationTypeInfo':
rmageml.c:490: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function 'createNewMBASet':
rmageml.c:525: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function 'setMBA':
rmageml.c:549: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function 'updateMAGEML':
rmageml.c:582: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c:599: warning: cast from pointer to integer of different size
rmageml.c: In function 'writeMAGEML':
rmageml.c:629: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function 'getVoidArrayInt':
rmageml.c:659: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function 'getVoidArrayStr':
rmageml.c:694: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function 'getVoidStr':
rmageml.c:728: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function 'getVoidVoid':
rmageml.c:751: warning: dereferencing type-punned pointer will break strict-aliasing rules
rmageml.c: In function 'destroyOM':
rmageml.c:95: 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 -std=gnu99 -shared -L/usr/local/lib64 -o RMAGEML.so rmageml.o -L/usr/lib64/jvm/java/jre/lib/amd64 -L/usr/lib64/jvm/java/jre/lib/i386 -ljava -L/usr/lib64/jvm/java/jre/lib/amd64/server -L/usr/lib64/jvm/java/jre/lib/i386/client -ljvm  -L/home/biocbuild/bbs-2.1-bioc/R/lib -lR
** R
** inst
** preparing package for lazy loading
Loading required package: marray
Loading required package: limma
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)'.

** 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)
* creating vignettes ... OK
* cleaning src
* removing junk files
* checking for LF line-endings in source and make files
* checking for empty or unneeded directories
* building 'RMAGEML_2.12.0.tar.gz'