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Package 356/467HostnameOS / ArchBUILDCHECKBUILD BIN
qpgraph 1.8.2
Robert Castelo
Snapshot Date: 2011-10-20 07:20:33 -0700 (Thu, 20 Oct 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_8/madman/Rpacks/qpgraph
Last Changed Rev: 58824 / Revision: 59457
Last Changed Date: 2011-10-06 03:32:46 -0700 (Thu, 06 Oct 2011)
lamb1 Linux (openSUSE 11.3) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK  OK 
gewurz Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  WARNINGS  OK 
pelham Mac OS X Leopard (10.5.8) / i386  OK [ OK ] OK 

Summary

Package: qpgraph
Version: 1.8.2
Command: /Library/Frameworks/R.framework/Versions/2.13/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch qpgraph_1.8.2.tar.gz
StartedAt: 2011-10-20 16:45:05 -0700 (Thu, 20 Oct 2011)
EndedAt: 2011-10-20 16:50:32 -0700 (Thu, 20 Oct 2011)
EllapsedTime: 327.3 seconds
RetCode: 0
Status:  OK 
CheckDir: qpgraph.Rcheck
Warnings: 0

Command output

* using log directory '/Users/biocbuild/bbs-2.8-bioc/meat/qpgraph.Rcheck'
* using R version 2.13.2 (2011-09-30)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'qpgraph/DESCRIPTION' ... OK
* this is package 'qpgraph' version '1.8.2'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'qpgraph' 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 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 ... NOTE
.qpFastNrrIdenticalQsPar: no visible global function definition for
  'getClusterOption'
.qpFastNrrIdenticalQsPar: no visible binding for global variable
  'defaultClusterOptions'
.qpFastNrrPar: no visible global function definition for
  'getClusterOption'
.qpFastNrrPar: no visible binding for global variable
  'defaultClusterOptions'
* 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 sizes of PDF files under inst/doc ... OK
* checking examples ... OK
* checking for unstated dependencies in vignettes ... OK
* 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

qpgraph.Rcheck/00install.out:

* installing *source* package 'qpgraph' ...
checking for gcc... gcc
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables... 
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ANSI C... none needed
checking build system type... i686-apple-darwin9.8.0
checking host system type... i686-apple-darwin9.8.0
configure: creating ./config.status
config.status: creating src/Makevars
** libs
*** arch - i386
gcc-4.2 -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include/i386 -I/usr/local/include -I/usr/local/include   -g -O2 -Wall -pedantic -Wall -pedantic -fPIC  -g -O2 -Wall -pedantic -c cliquer.c -o cliquer.o
gcc-4.2 -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include/i386 -I/usr/local/include -I/usr/local/include   -g -O2 -Wall -pedantic -Wall -pedantic -fPIC  -g -O2 -Wall -pedantic -c graph.c -o graph.o
gcc-4.2 -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include/i386 -I/usr/local/include -I/usr/local/include   -g -O2 -Wall -pedantic -Wall -pedantic -fPIC  -g -O2 -Wall -pedantic -c qpgraph.c -o qpgraph.o
qpgraph.c: In function 'qp_ci_test_hmgm':
qpgraph.c:2089: warning: unused variable 'm'
qpgraph.c: In function 'ssd_A':
qpgraph.c:4703: warning: unused variable 'k'
gcc-4.2 -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include/i386 -I/usr/local/include -I/usr/local/include   -g -O2 -Wall -pedantic -Wall -pedantic -fPIC  -g -O2 -Wall -pedantic -c reorder.c -o reorder.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 qpgraph.so cliquer.o graph.o qpgraph.o reorder.o -L/Library/Frameworks/R.framework/Versions/2.13/Resources/lib/i386 -lRblas -L/Library/Frameworks/R.framework/Versions/2.13/Resources/lib/i386 -lRlapack -lgfortran -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.8-bioc/meat/qpgraph.Rcheck/qpgraph/libs/i386
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (qpgraph)

qpgraph.Rcheck/qpgraph-Ex.timings:

nameusersystemelapsed
EcoliOxygen0.1260.0050.132
qpAnyGraph0.7100.1770.923
qpAvgNrr3.7300.1033.929
qpCItest0.0560.0040.059
qpClique1.3860.1431.697
qpCliqueNumber0.1910.0060.196
qpCov0.3080.1620.481
qpEdgeNrr0.0530.0030.057
qpFunctionalCoherence76.388 3.48083.636
qpG2Sigma0.0390.0010.040
qpGenNrr 9.976 0.33810.453
qpGetCliques0.6120.0090.647
qpGraph1.3030.1531.597
qpGraphDensity1.1980.1321.392
qpHist1.1670.1631.361
qpIPF0.4790.3150.808
qpK2ParCor0.0800.0020.084
qpNrr25.647 0.28026.260
qpPAC1.7380.2612.026
qpPCC0.3680.1740.585
qpPRscoreThreshold0.7570.1430.914
qpPlotNetwork0.4970.0200.569
qpPrecisionRecall0.9660.1321.112
qpRndGraph0.2920.0250.321
qpRndHMGM0.0980.0010.100
qpRndWishart0.0150.0010.016
qpSampleFromHMGM0.1060.0030.108
qpTopPairs0.0070.0000.007
qpUnifRndAssociation0.0080.0010.010
qpUpdateCliquesRemoving23.991 0.64426.741