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Package 98/319HostnameOS / ArchBUILDCHECKBUILD BIN
flowCore 1.10.0
F. Hahne
Bioconductor Changelog
Snapshot Date: 2009-10-20 11:27:33 -0700 (Tue, 20 Oct 2009)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_4/madman/Rpacks/flowCore
Last Changed Rev: 39013 / Revision: 42512
Last Changed Date: 2009-04-20 16:24:12 -0700 (Mon, 20 Apr 2009)
wilson1 Linux (openSUSE 11.1) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK  OK 
pitt Mac OS X Tiger (10.4.11) / i386  OK [ OK ] OK 
pelham Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 
Package: flowCore
Version: 1.10.0
Command: /Library/Frameworks/R.framework/Versions/2.9/Resources/bin/R CMD check --no-vignettes flowCore_1.10.0.tar.gz
StartedAt: 2009-10-20 17:28:53 -0700 (Tue, 20 Oct 2009)
EndedAt: 2009-10-20 17:33:09 -0700 (Tue, 20 Oct 2009)
EllapsedTime: 256.3 seconds
RetCode: 0
Status: OK
CheckDir: flowCore.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory '/Users/biocbuild/bbs-2.4-bioc/meat/flowCore.Rcheck'
* using R version 2.9.2 Patched (2009-08-24 r49419)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'flowCore/DESCRIPTION' ... OK
* this is package 'flowCore' version '1.10.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'flowCore' 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 non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the name space can be loaded with stated dependencies ... OK
* checking for unstated dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd files against version 2 parser ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking data for non-ASCII characters ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable use of $BLAS_LIBS ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK

flowCore.Rcheck/00install.out:

* Installing *source* package ‘flowCore’ ...
** libs
** arch - i386
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -c biexponential.c -o biexponential.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -c inPolygon.c -o inPolygon.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -c inPolytope.c -o inPolytope.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -c init.c -o init.o
gcc -arch i386 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -mmacosx-version-min=10.4 -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o flowCore.so biexponential.o inPolygon.o inPolytope.o init.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
** arch - ppc
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include    -fPIC  -g -O2 -c biexponential.c -o biexponential.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include    -fPIC  -g -O2 -c inPolygon.c -o inPolygon.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include    -fPIC  -g -O2 -c inPolytope.c -o inPolytope.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include    -fPIC  -g -O2 -c init.c -o init.o
gcc -arch ppc -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -mmacosx-version-min=10.4 -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o flowCore.so biexponential.o inPolygon.o inPolytope.o init.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
** R
** data
** inst
** preparing package for lazy loading

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: robustbase
Loading required package: pcaPP
Loading required package: mvtnorm
pcaPP 0.1-1 loaded
Scalable Robust Estimators with High Breakdown Point (version 1.0-00)
Warning in .checkSubclasses(class1, classDef, class2, classDef2, where1,  :
  Subclass "array" of class "matrix" is not local and cannot be updated for new inheritance information; consider setClassUnion()
Warning in .checkSubclasses(class1, classDef, class2, classDef2, where1,  :
  Subclass "mts" of class "matrix" is not local and cannot be updated for new inheritance information; consider setClassUnion()
Warning in .checkSubclasses(class1, classDef, class2, classDef2, where1,  :
  Subclass "signature" of class "character" is not local and cannot be updated for new inheritance information; consider setClassUnion()
Warning in .checkSubclasses(class1, classDef, class2, classDef2, where1,  :
  Subclass "ObjectsWithPackage" of class "character" is not local and cannot be updated for new inheritance information; consider setClassUnion()
Warning in .checkSubclasses(class1, classDef, class2, classDef2, where1,  :
  Subclass "signature" of class "character" is not local and cannot be updated for new inheritance information; consider setClassUnion()
Warning in .checkSubclasses(class1, classDef, class2, classDef2, where1,  :
  Subclass "ObjectsWithPackage" of class "character" is not local and cannot be updated for new inheritance information; consider setClassUnion()
Warning in .checkSubclasses(class1, classDef, class2, classDef2, where1,  :
  Subclass "signature" of class "character" is not local and cannot be updated for new inheritance information; consider setClassUnion()
Warning in .checkSubclasses(class1, classDef, class2, classDef2, where1,  :
  Subclass "ObjectsWithPackage" of class "character" is not local and cannot be updated for new inheritance information; consider setClassUnion()
Warning in .checkSubclasses(class1, classDef, class2, classDef2, where1,  :
  Subclass "integer" of class "numeric" is not local and cannot be updated for new inheritance information; consider setClassUnion()
Warning in .checkSubclasses(class1, classDef, class2, classDef2, where1,  :
  Subclass "ordered" of class "numeric" is not local and cannot be updated for new inheritance information; consider setClassUnion()
** help
*** installing help indices
 >>> Building/Updating help pages for package 'flowCore'
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** building package indices ...
* DONE (flowCore)