Package: RBGL

Version: 1.35.0

Command: /home/biocbuild/bbs-2.12-bioc/R/bin/R CMD check --no-vignettes --timings RBGL_1.35.0.tar.gz

StartedAt: 2013-01-16 05:40:22 -0800 (Wed, 16 Jan 2013)

EndedAt: 2013-01-16 05:43:03 -0800 (Wed, 16 Jan 2013)

EllapsedTime: 161.4 seconds

RetCode: 0

Status:  OK

CheckDir: RBGL.Rcheck

Warnings: 0

* using log directory ‘/loc/home/biocbuild/bbs-2.12-bioc/meat/RBGL.Rcheck’
* using R Under development (unstable) (2012-12-17 r61365)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘RBGL/DESCRIPTION’ ... OK
* this is package ‘RBGL’ version ‘1.35.0’
* 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 for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘RBGL’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 27.9Mb
  sub-directories of 1Mb or more:
    libs  26.9Mb
* checking package directory ... 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 installed files from ‘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

NOTE: There was 1 note.
See
  ‘/loc/home/biocbuild/bbs-2.12-bioc/meat/RBGL.Rcheck/00check.log’
for details.

* installing *source* package ‘RBGL’ ...
untarring boost include tree...
** libs
g++ -I/home/biocbuild/bbs-2.12-bioc/R/include -DNDEBUG  -I/usr/local/include   -Irbgl_trimmed_boost_1_49_0 -fpic  -g -O2  -c bbc.cpp -o bbc.o
g++ -I/home/biocbuild/bbs-2.12-bioc/R/include -DNDEBUG  -I/usr/local/include   -Irbgl_trimmed_boost_1_49_0 -fpic  -g -O2  -c cliques.cpp -o cliques.o
g++ -I/home/biocbuild/bbs-2.12-bioc/R/include -DNDEBUG  -I/usr/local/include   -Irbgl_trimmed_boost_1_49_0 -fpic  -g -O2  -c clusteringCoef.cpp -o clusteringCoef.o
g++ -I/home/biocbuild/bbs-2.12-bioc/R/include -DNDEBUG  -I/usr/local/include   -Irbgl_trimmed_boost_1_49_0 -fpic  -g -O2  -c dominatorTree.cpp -o dominatorTree.o
g++ -I/home/biocbuild/bbs-2.12-bioc/R/include -DNDEBUG  -I/usr/local/include   -Irbgl_trimmed_boost_1_49_0 -fpic  -g -O2  -c edmonds_optimum_branching.cpp -o edmonds_optimum_branching.o
g++ -I/home/biocbuild/bbs-2.12-bioc/R/include -DNDEBUG  -I/usr/local/include   -Irbgl_trimmed_boost_1_49_0 -fpic  -g -O2  -c hcs.cpp -o hcs.o
g++ -I/home/biocbuild/bbs-2.12-bioc/R/include -DNDEBUG  -I/usr/local/include   -Irbgl_trimmed_boost_1_49_0 -fpic  -g -O2  -c incrConnComp.cpp -o incrConnComp.o
g++ -I/home/biocbuild/bbs-2.12-bioc/R/include -DNDEBUG  -I/usr/local/include   -Irbgl_trimmed_boost_1_49_0 -fpic  -g -O2  -c interfaces.cpp -o interfaces.o
g++ -I/home/biocbuild/bbs-2.12-bioc/R/include -DNDEBUG  -I/usr/local/include   -Irbgl_trimmed_boost_1_49_0 -fpic  -g -O2  -c minST.cpp -o minST.o
g++ -I/home/biocbuild/bbs-2.12-bioc/R/include -DNDEBUG  -I/usr/local/include   -Irbgl_trimmed_boost_1_49_0 -fpic  -g -O2  -c mincut.cpp -o mincut.o
g++ -I/home/biocbuild/bbs-2.12-bioc/R/include -DNDEBUG  -I/usr/local/include   -Irbgl_trimmed_boost_1_49_0 -fpic  -g -O2  -c ordering.cpp -o ordering.o
g++ -I/home/biocbuild/bbs-2.12-bioc/R/include -DNDEBUG  -I/usr/local/include   -Irbgl_trimmed_boost_1_49_0 -fpic  -g -O2  -c planar.cpp -o planar.o
g++ -I/home/biocbuild/bbs-2.12-bioc/R/include -DNDEBUG  -I/usr/local/include   -Irbgl_trimmed_boost_1_49_0 -fpic  -g -O2  -c shortestPath.cpp -o shortestPath.o
g++ -I/home/biocbuild/bbs-2.12-bioc/R/include -DNDEBUG  -I/usr/local/include   -Irbgl_trimmed_boost_1_49_0 -fpic  -g -O2  -c sna.cpp -o sna.o
g++ -I/home/biocbuild/bbs-2.12-bioc/R/include -DNDEBUG  -I/usr/local/include   -Irbgl_trimmed_boost_1_49_0 -fpic  -g -O2  -c transitive_closure.cpp -o transitive_closure.o
g++ -I/home/biocbuild/bbs-2.12-bioc/R/include -DNDEBUG  -I/usr/local/include   -Irbgl_trimmed_boost_1_49_0 -fpic  -g -O2  -c wavefront.cpp -o wavefront.o
g++ -shared -L/usr/local/lib64 -o RBGL.so bbc.o cliques.o clusteringCoef.o dominatorTree.o edmonds_optimum_branching.o hcs.o incrConnComp.o interfaces.o minST.o mincut.o ordering.o planar.o shortestPath.o sna.o transitive_closure.o wavefront.o -L/home/biocbuild/bbs-2.12-bioc/R/lib -lR
installing to /loc/home/biocbuild/bbs-2.12-bioc/meat/RBGL.Rcheck/RBGL/libs
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   ‘RBGL.Rnw’ 
** testing if installed package can be loaded

* DONE (RBGL)

name	user	system	elapsed
FileDep	0.720	0.032	0.877
astarSearch	0.024	0.000	0.023
bandwidth	0.040	0.000	0.041
bccluster	0.036	0.000	0.037
bellman.ford.sp	0.148	0.000	0.147
betweenness	0.040	0.004	0.044
bfs	0.044	0.004	0.065
biConnComp	0.020	0.000	0.033
chrobakPayneStraightLineDrawing	0.032	0.000	0.058
clusteringCoef	0.024	0.000	0.034
clusteringCoefAppr	0.028	0.004	0.027
coloring	0.016	0.000	0.019
connectedComp	0.032	0.004	0.066
dag.sp	0.136	0.000	0.137
dijkstra.sp	0.044	0.000	0.046
dominatorTree	0.020	0.004	0.025
edgeConn	0.020	0.000	0.023
edmondsMaxCardinalityMatching	0.072	0.004	0.078
edmondsOptimumBranching	0.028	0.000	0.028
extractPath	0.008	0.004	0.016
floyd.warshall.all.pairs.sp	0.024	0.000	0.027
gprofile	0.024	0.000	0.022
graphGenerator	0.008	0.004	0.012
highlyConnSG	0.136	0.004	0.140
incrConnComp	0.024	0.000	0.025
is.triangulated	0.036	0.000	0.035
isKuratowskiSubgraph	0.032	0.004	0.039
isStraightLineDrawing	0.040	0.004	0.044
isomorphism	0.028	0.004	0.033
johnson.all.pairs.sp	0.024	0.004	0.026
kCliques	0.024	0.000	0.024
kCores	0.076	0.000	0.084
lambdaSets	0.028	0.000	0.027
layout	0.012	0.000	0.012
makeBiconnectedPlanar	0.04	0.00	0.04
makeConnected	0.024	0.004	0.028
makeMaximalPlanar	0.028	0.004	0.034
maxClique	0.032	0.012	0.040
maxFlow	0.044	0.000	0.042
minCut	0.020	0.004	0.022
mstree.kruskal	0.168	0.000	0.168
mstree.prim	0.016	0.004	0.023
ordering	0.032	0.000	0.031
planarCanonicalOrdering	0.032	0.004	0.037
planarFaceTraversal	0.032	0.004	0.036
removeSelfLoops	0.032	0.000	0.031
separates	0.024	0.004	0.029
sp.between	0.056	0.000	0.056
strongComp	0.028	0.004	0.030
transClosure	0.020	0.004	0.022
transitivity	0.016	0.000	0.021
tsort	0.020	0.004	0.021
wavefront	0.016	0.012	0.026