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BioC 2.12: CHECK report for graph on petty

This page was generated on 2013-10-09 09:39:21 -0700 (Wed, 09 Oct 2013).

Package 294/671HostnameOS / ArchBUILDCHECKBUILD BIN
graph 1.38.3
Bioconductor Package Maintainer
Snapshot Date: 2013-10-08 17:00:48 -0700 (Tue, 08 Oct 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_12/madman/Rpacks/graph
Last Changed Rev: 78684 / Revision: 81334
Last Changed Date: 2013-07-18 06:34:25 -0700 (Thu, 18 Jul 2013)
george2 Linux (Ubuntu 12.04.1 LTS) / x86_64  OK  OK 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  OK [ OK ] OK 

Summary

Package: graph
Version: 1.38.3
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch graph_1.38.3.tar.gz
StartedAt: 2013-10-08 22:39:24 -0700 (Tue, 08 Oct 2013)
EndedAt: 2013-10-08 22:41:47 -0700 (Tue, 08 Oct 2013)
EllapsedTime: 142.9 seconds
RetCode: 0
Status:  OK 
CheckDir: graph.Rcheck
Warnings: 0

Command output

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/graph.Rcheck'
* using R version 3.0.1 (2013-05-16)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'graph/DESCRIPTION' ... OK
* this is package 'graph' version '1.38.3'
* 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 'graph' can be installed ... [9s/11s] OK
* checking installed package size ... OK
* 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 sizes of PDF files under 'inst/doc' ... OK
* checking installed files from 'inst/doc' ... OK
* checking examples ... [7s/7s] OK
* checking for unstated dependencies in tests ... OK
* checking tests ...
  Running 'graph_unit_tests.R' [29s/29s]
 [30s/30s] 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

graph.Rcheck/00install.out:

* installing *source* package 'graph' ...
** libs
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2  -c graph.c -o graph.o
llvm-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 -L/usr/local/lib -o graph.so graph.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
mv graph.so BioC_graph.so
installing to /Users/biocbuild/bbs-2.12-bioc/meat/graph.Rcheck/graph/libs
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (graph)

graph.Rcheck/graph-Ex.timings:

nameusersystemelapsed
DFS0.0670.0040.071
IMCA0.3280.0110.340
MAPKsig0.2440.0070.251
MultiGraph-class0.2040.0060.211
acc-methods0.0470.0020.049
addEdge0.0440.0010.045
addNode0.0380.0010.040
adj-methods0.0200.0010.021
apoptosisGraph0.0610.0030.066
attrData-class0.0200.0010.021
aveNumEdges0.0270.0010.027
biocRepos0.0090.0010.010
boundary0.0220.0000.022
calcProb0.0060.0000.006
calcSumProb0.0230.0010.024
clearNode0.0250.0010.027
clusterGraph-class0.0230.0010.023
clusteringCoefficient-methods0.0310.0010.031
combineNodes0.0850.0000.086
distGraph-class0.0190.0010.019
duplicatedEdges0.0090.0000.009
edgeMatrix0.0340.0010.036
edgeSets0.0750.0160.090
edgeWeights0.0330.0010.034
fromGXL-methods0.6460.0220.670
graph-class0.0790.0020.081
graph2SparseM0.4080.0090.419
graphAM-class0.0470.0020.048
graphBAM-class0.1440.0040.150
graphExamples0.1420.0010.145
graphNEL-class0.0210.0000.022
inEdges0.0150.0000.016
leaves0.0300.0020.031
listEdges0.0300.0020.033
matrix2Graph0.0750.0030.078
mostEdges0.0490.0010.050
numNoEdges0.0210.0010.021
pancrCaIni0.2450.0100.256
randomEGraph0.0320.0010.033
randomGraph0.0240.0000.024
randomNodeGraph0.0190.0000.021
removeEdge0.0430.0000.043
removeNode0.0270.0000.027
renderInfo-class0.1560.0010.157
reverseEdgeDirections0.0240.0010.024
simpleEdge-class0.0070.0000.008
standardLabeling0.1080.0050.112
subGraph0.0180.0010.020
toDotR-methods0.0620.0040.066
ugraph0.0340.0010.035
validGraph0.0180.0010.020