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Package 96/319HostnameOS / ArchBUILDCHECKBUILD BIN
flagme 1.0.0
Mark Robinson
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/flagme
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: flagme
Version: 1.0.0
Command: /Library/Frameworks/R.framework/Versions/2.9/Resources/bin/R CMD check --no-vignettes flagme_1.0.0.tar.gz
StartedAt: 2009-10-20 17:29:27 -0700 (Tue, 20 Oct 2009)
EndedAt: 2009-10-20 17:31:02 -0700 (Tue, 20 Oct 2009)
EllapsedTime: 94.6 seconds
RetCode: 0
Status: OK
CheckDir: flagme.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory '/Users/biocbuild/bbs-2.4-bioc/meat/flagme.Rcheck'
* using R version 2.9.2 Patched (2009-08-24 r49420)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'flagme/DESCRIPTION' ... OK
* this is package 'flagme' version '1.0.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'flagme' 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 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

flagme.Rcheck/00install.out:

* Installing *source* package ‘flagme’ ...
** libs
** arch - i386
gcc-4.2 -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  -g -O2 -Wall -c dp.c -o dp.o
dp.c: In function ‘dp’:
dp.c:218: warning: ‘cur_min’ may be used uninitialized in this function
dp.c:217: warning: ‘tb’ may be used uninitialized in this function
gcc-4.2 -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  -g -O2 -Wall -c init.c -o init.o
gcc-4.2 -arch i386 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o flagme.so dp.o init.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
** arch - ppc
gcc-4.2 -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 -Wall -c dp.c -o dp.o
dp.c: In function ‘dp’:
dp.c:218: warning: ‘cur_min’ may be used uninitialized in this function
dp.c:217: warning: ‘tb’ may be used uninitialized in this function
gcc-4.2 -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 -Wall -c init.c -o init.o
gcc-4.2 -arch ppc -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o flagme.so dp.o init.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
** arch - ppc64
gcc-4.2 -arch ppc64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc64  -I/usr/local/include    -fPIC  -g -O2 -Wall -c dp.c -o dp.o
dp.c: In function ‘dp’:
dp.c:218: warning: ‘cur_min’ may be used uninitialized in this function
dp.c:217: warning: ‘tb’ may be used uninitialized in this function
gcc-4.2 -arch ppc64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc64  -I/usr/local/include    -fPIC  -g -O2 -Wall -c init.c -o init.o
gcc-4.2 -arch ppc64 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o flagme.so dp.o init.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
** arch - x86_64
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/x86_64  -I/usr/local/include    -fPIC  -g -O2 -Wall -c dp.c -o dp.o
dp.c: In function ‘dp’:
dp.c:217: warning: ‘tb’ may be used uninitialized in this function
dp.c:218: warning: ‘cur_min’ may be used uninitialized in this function
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/x86_64  -I/usr/local/include    -fPIC  -g -O2 -Wall -c init.c -o init.o
gcc-4.2 -arch x86_64 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o flagme.so dp.o init.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
** R
** inst
** preparing package for lazy loading
Package SparseM (0.80) loaded.  
	   To cite, see citation("SparseM")


Attaching package: 'SparseM'


	The following object(s) are masked from package:stats :

	 model.response 


	The following object(s) are masked from package:base :

	 backsolve,
	 chol 

Warning in namespaceImportFrom(self, asNamespace(ns)) :
  replacing previous import: image
Warning in namespaceImportFrom(self, asNamespace(ns)) :
  replacing previous import: image
Creating a new generic function for "plot" in "flagme"
** help
*** installing help indices
 >>> Building/Updating help pages for package 'flagme'
     Formats: text html latex example 
  addAMDISPeaks                     text    html    latex   example
  addChromaTOFPeaks                 text    html    latex   example
  betweenAlignment                  text    html    latex   example
  calcTimeDiffs                     text    html    latex   example
  clusterAlignment                  text    html    latex   example
  compress                          text    html    latex   example
  dp                                text    html    latex   example
  gatherInfo                        text    html    latex   example
  imputePeaks                       text    html    latex   example
  multipleAlignment                 text    html    latex   example
  normDotProduct                    text    html    latex   example
  parseChromaTOF                    text    html    latex   example
  parseELU                          text    html    latex   example
  peaksAlignment                    text    html    latex   example
  peaksDataset                      text    html    latex   example
  plot                              text    html    latex   example
  plotImage                         text    html    latex   example
  progressiveAlignment              text    html    latex   example
  rmaFitUnit                        text    html    latex   example
** building package indices ...
* DONE (flagme)