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Package 235/609HostnameOS / ArchBUILDCHECKBUILD BIN
GeneNetworkBuilder 1.0.1
Jianhong Ou
Snapshot Date: 2013-03-24 16:21:20 -0700 (Sun, 24 Mar 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_11/madman/Rpacks/GeneNetworkBuilder
Last Changed Rev: 71815 / Revision: 74773
Last Changed Date: 2012-12-11 10:11:24 -0800 (Tue, 11 Dec 2012)
lamb1 Linux (openSUSE 12.1) / x86_64  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
perceval Mac OS X Leopard (10.5.8) / i386  OK [ OK ] OK 

Summary

Package: GeneNetworkBuilder
Version: 1.0.1
Command: /Library/Frameworks/R.framework/Versions/2.15/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch GeneNetworkBuilder_1.0.1.tar.gz
StartedAt: 2013-03-24 23:38:32 -0700 (Sun, 24 Mar 2013)
EndedAt: 2013-03-24 23:39:46 -0700 (Sun, 24 Mar 2013)
EllapsedTime: 73.2 seconds
RetCode: 0
Status:  OK 
CheckDir: GeneNetworkBuilder.Rcheck
Warnings: 0

Command output

* using log directory '/Users/biocbuild/bbs-2.11-bioc/meat/GeneNetworkBuilder.Rcheck'
* using R version 2.15.3 (2013-03-01)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'GeneNetworkBuilder/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'GeneNetworkBuilder' version '1.0.1'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking whether package 'GeneNetworkBuilder' can be installed ... OK
* checking installed package size ... 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 for left-over 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 package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... 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 metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable compilation flags in Makevars ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking compiled code ... OK
* checking sizes of PDF files under 'inst/doc' ... OK
* checking installed files from 'inst/doc' ... OK
* checking examples ... OK
* checking for unstated dependencies in tests ... OK
* checking tests ...
  Running 'runTests.R'
 OK
* checking for unstated dependencies in vignettes ... NOTE
'library' or 'require' call not declared from: 'RBGL'
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignettes ... SKIPPED
* checking PDF version of manual ... OK

NOTE: There was 1 note.
See
  '/Users/biocbuild/bbs-2.11-bioc/meat/GeneNetworkBuilder.Rcheck/00check.log'
for details.

GeneNetworkBuilder.Rcheck/00install.out:

* installing *source* package 'GeneNetworkBuilder' ...
** libs
*** arch - i386
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.15/Resources/library/Rcpp/include"   -fPIC  -g -O2 -Wall -fasm-blocks  -c geneTree.cpp -o geneTree.o
geneTree.cpp: In member function 'void GTree::ChangeTolerance(node*)':
geneTree.cpp:112: warning: comparison between signed and unsigned integer expressions
geneTree.cpp: In member function 'std::vector<node*, std::allocator<node*> > GTree::Travel()':
geneTree.cpp:207: warning: comparison between signed and unsigned integer expressions
geneTree.cpp: In member function 'void GTree::verifyFilter(int)':
geneTree.cpp:275: warning: comparison between signed and unsigned integer expressions
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.15/Resources/library/Rcpp/include"   -fPIC  -g -O2 -Wall -fasm-blocks  -c nodefilter.cpp -o nodefilter.o
nodefilter.cpp: In function 'SEXPREC* filterNodes(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)':
nodefilter.cpp:76: warning: comparison between signed and unsigned integer expressions
nodefilter.cpp:86: warning: comparison between signed and unsigned integer expressions
nodefilter.cpp:94: warning: comparison between signed and unsigned integer expressions
g++ -arch i386 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o GeneNetworkBuilder.so geneTree.o nodefilter.o /Library/Frameworks/R.framework/Versions/2.15/Resources/library/Rcpp/lib/i386/libRcpp.a -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.11-bioc/meat/GeneNetworkBuilder.Rcheck/GeneNetworkBuilder/libs/i386
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   'GeneNetworkBuilder.Rnw' 
** testing if installed package can be loaded

* DONE (GeneNetworkBuilder)

GeneNetworkBuilder.Rcheck/GeneNetworkBuilder-Ex.timings:

nameusersystemelapsed
buildNetwork0.9210.1131.071
ce.IDsMap0.9320.0571.027
ce.interactionmap0.0520.0050.058
ce.mapIDs0.5420.0250.587
ce.miRNA.map0.0040.0010.006
convertID0.9390.0350.983
example.data0.1080.0060.115
filterNetwork3.4360.3003.907
hs.IDsMap0.2240.0060.232
hs.interactionmap0.1150.0120.129
hs.mapIDs0.0790.0020.081
hs.miRNA.map0.0060.0010.006
polishNetwork4.3030.4704.906
uniqueExprsData0.7560.0440.815