BioC 2.14: CHECK report for ddgraph on zin2

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### Running command:
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###   /home/biocbuild/bbs-2.14-bioc/R/bin/R CMD check --no-vignettes --timings ddgraph_1.8.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-2.14-bioc/meat/ddgraph.Rcheck’
* using R version 3.1.1 (2014-07-10)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘ddgraph/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘ddgraph’ version ‘1.8.0’
* 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 ‘ddgraph’ can be installed ... [9s/9s] OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ 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 loading without being on the library search path ... OK
* checking 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 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 files in ‘vignettes’ ... OK
* checking examples ... [29s/30s] OK
Examples with CPU or elapsed time > 5s
                 user system elapsed
plotPCalg      18.397  0.004  18.474
calcDependence  6.632  0.016   6.660
* checking for unstated dependencies in tests ... OK
* checking tests ...
  Running ‘test-all.R’ [52s/52s]
 [52s/52s] 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 vignette outputs ... SKIPPED
* checking PDF version of manual ... OK

* installing *source* package ‘ddgraph’ ...
** libs
g++ -I/home/biocbuild/bbs-2.14-bioc/R/include -DNDEBUG  -I/usr/local/include -I"/home/biocbuild/bbs-2.14-bioc/R/library/Rcpp/include"   -fpic  -g -O2  -Wall -c mcX2cloop.cpp -o mcX2cloop.o
mcX2cloop.cpp: In function ‘SEXPREC* mcX2CLoopC(SEXP, SEXP, SEXP, SEXP)’:
mcX2cloop.cpp:14:2: warning: label ‘Rcpp’ defined but not used [-Wunused-label]
g++ -shared -L/usr/local/lib -o ddgraph.so mcX2cloop.o -L/home/biocbuild/bbs-2.14-bioc/R/lib -lR
installing to /home/biocbuild/bbs-2.14-bioc/meat/ddgraph.Rcheck/ddgraph/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 (ddgraph)

name	user	system	elapsed
biased-dot-bn-dot-fit	0.016	0.000	0.029
biased-dot-graph	0.064	0.000	0.068
calcDependence	6.632	0.016	6.660
ciTest-comma-DDDataSet-dash-method	0.024	0.000	0.023
combinationsTest	0.024	0.000	0.023
convertPvalueToColorIndex	0.000	0.000	0.001
convertToFactor	0.008	0.000	0.005
estimateNetworkDistribution	0.076	0.000	0.077
formulaFalseNeg	0.000	0.000	0.001
independent-dot-contributions-dot-formula-dot-mul	0.004	0.000	0.002
independent-dot-contributions-dot-formula	0.000	0.000	0.002
is-dot-binary	0.004	0.000	0.001
logseq	0.000	0.000	0.001
makeDDDataSet	0.004	0.000	0.002
mapEnrichmentToColorsDual	0	0	0
mcMITest	0.008	0.000	0.008
mcX2Test	0.008	0.000	0.010
mcX2TestB50k	0.276	0.004	0.283
mesoBin	0.004	0.000	0.003
mesoCont	0.004	0.000	0.003
ncpc	1.868	0.004	1.875
ncpcResampling	0.000	0.000	0.001
plot-comma-DDGraph-comma-missing-dash-method	0.000	0.000	0.001
plotBNLearn	0.272	0.004	0.278
plotPCalg	18.397	0.004	18.474
prob-dot-distr-dot-norm	0	0	0
prob-dot-distr-dot-unif	0.004	0.000	0.001
random-dot-bn-dot-fit	0.004	0.000	0.004
readFurlongData	0.024	0.012	0.034
recalculateSVMparams	0.000	0.000	0.001
toDDDataSet-comma-FurlongDataSet-dash-method	0.096	0.004	0.098
toyExample	0.068	0.000	0.068

BioC 2.14: CHECK report for ddgraph on zin2

Summary

Command output