Package: graph

Version: 1.28.0

Command: /home/biocbuild/bbs-2.7-bioc/R/bin/R CMD check --no-vignettes --timings graph_1.28.0.tar.gz

StartedAt: 2011-03-31 06:32:32 -0700 (Thu, 31 Mar 2011)

EndedAt: 2011-03-31 06:33:36 -0700 (Thu, 31 Mar 2011)

EllapsedTime: 63.7 seconds

RetCode: 0

Status:  OK

CheckDir: graph.Rcheck

Warnings: 0

* using log directory ‘/loc/home/biocbuild/bbs-2.7-bioc/meat/graph.Rcheck’
* using R version 2.12.2 (2011-02-25)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘graph/DESCRIPTION’ ... OK
* this is package ‘graph’ version ‘1.28.0’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘graph’ 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 package can be unloaded cleanly ... OK
* checking whether the name space can be loaded with stated dependencies ... OK
* checking whether the name space 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 ... NOTE
'library' or 'require' call not declared from: Rgraphviz
* 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 compilation flags in Makevars ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking examples ... OK
* checking for unstated dependencies in tests ... OK
* checking tests ...
  Running ‘graph_unit_tests.R’
 OK
* checking package vignettes in ‘inst/doc’ ... SKIPPED
* checking PDF version of manual ... OK

* installing *source* package ‘graph’ ...
** libs
gcc -std=gnu99 -I/home/biocbuild/bbs-2.7-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -c graph.c -o graph.o
gcc -std=gnu99 -shared -L/usr/local/lib64 -o graph.so graph.o -L/home/biocbuild/bbs-2.7-bioc/R/lib -lR
mv graph.so BioC_graph.so
installing to /loc/home/biocbuild/bbs-2.7-bioc/meat/graph.Rcheck/graph/libs
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (graph)

name	user	system	elapsed
DFS	0.080	0.000	0.079
IMCA	0.280	0.004	0.284
MAPKsig	0.164	0.008	0.188
MultiGraph-class	0.084	0.000	0.083
acc-methods	0.016	0.000	0.017
addEdge	0.012	0.000	0.015
addNode	0.016	0.000	0.013
adj-methods	0.012	0.000	0.011
apoptosisGraph	0.040	0.004	0.046
attrData-class	0.000	0.000	0.001
aveNumEdges	0.012	0.000	0.015
biocRepos	0.000	0.000	0.002
boundary	0.008	0.000	0.008
buildRepDepGraph	0	0	0
calcProb	0	0	0
calcSumProb	0.012	0.000	0.011
clearNode	0.008	0.000	0.008
clusterGraph-class	0.004	0.000	0.004
clusteringCoefficient-methods	0.012	0.000	0.013
combineNodes	0.052	0.000	0.051
distGraph-class	0.000	0.000	0.001
duplicatedEdges	0	0	0
edgeMatrix	0.016	0.000	0.018
edgeSets	0.020	0.004	0.026
edgeWeights	0.012	0.000	0.010
fromGXL-methods	0.528	0.008	0.537
graph-class	0.008	0.000	0.010
graph2SparseM	0.192	0.008	0.200
graphAM-class	0.088	0.004	0.091
graphBAM-class	0.056	0.004	0.062
graphExamples	0.004	0.000	0.005
graphNEL-class	0.008	0.000	0.007
inEdges	0.004	0.000	0.004
leaves	0.012	0.004	0.013
listEdges	0.012	0.000	0.013
matrix2Graph	0.024	0.004	0.029
mostEdges	0.024	0.000	0.026
numNoEdges	0.008	0.000	0.005
pancrCaIni	0.108	0.000	0.107
randomEGraph	0.012	0.000	0.012
randomGraph	0.008	0.000	0.007
randomNodeGraph	0.008	0.000	0.006
removeEdge	0.016	0.000	0.014
removeNode	0.004	0.000	0.005
renderInfo-class	0.012	0.000	0.012
reverseEdgeDirections	0.008	0.000	0.007
simpleEdge-class	0.004	0.000	0.001
standardLabeling	0.056	0.004	0.060
subGraph	0.000	0.000	0.001
toDotR-methods	0.032	0.000	0.033
ugraph	0.012	0.000	0.011
validGraph	0.000	0.000	0.002