Multiple platform build/check report for BioC 3.10 - CHECK report for sigaR on malbec1

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### Running command:
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###   /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:sigaR.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings sigaR_1.34.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.10-bioc/meat/sigaR.Rcheck’
* using R version 3.6.3 (2020-02-29)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘sigaR/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘sigaR’ version ‘1.34.0’
* 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 ‘sigaR’ can be installed ... 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 dependencies in R code ... NOTE
There are ::: calls to the package's namespace in its code. A package
  almost never needs to use ::: for its own objects:
  ‘.alphabivariate’ ‘.alphaest’ ‘.pretest’
* 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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                user system elapsed
mutInfTest    80.096  1.112  83.279
cisEffectTune  9.488  0.000   9.499
* 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
* DONE

Status: 1 NOTE
See
  ‘/home/biocbuild/bbs-3.10-bioc/meat/sigaR.Rcheck/00check.log’
for details.

Installation output

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### Running command:
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###   /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD INSTALL sigaR
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* installing to library ‘/home/biocbuild/bbs-3.10-bioc/R/library’
* installing *source* package ‘sigaR’ ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (sigaR)

Tests output

Example timings

name	user	system	elapsed
CNGEheatmaps	0.688	0.028	0.716
ExpressionSet2order	0.008	0.000	0.009
ExpressionSet2subset	0.012	0.000	0.011
ExpressionSet2weightedSubset	0.26	0.00	0.26
RCMestimation	0.628	0.032	0.662
RCMrandom	0.520	0.000	1.109
RCMtest	1.976	0.008	2.661
cghCall2cghSeg	0.052	0.000	0.049
cghCall2maximumSubset	0.272	0.000	0.875
cghCall2order	0.016	0.000	0.014
cghCall2subset	0.036	0.000	0.035
cghCall2weightedSubset	0.264	0.000	0.264
cghSeg2order	0.032	0.000	0.029
cghSeg2subset	0.040	0.004	0.044
cghSeg2weightedSubset	0.224	0.000	0.227
cisEffectPlot	0.04	0.00	0.04
cisEffectTable	1.076	0.008	1.085
cisEffectTest	1.108	0.004	1.114
cisEffectTune	9.488	0.000	9.499
cisTest-class	0	0	0
entTest-class	0	0	0
entropyTest	0.208	0.004	0.209
expandMatching2singleIDs	0.012	0.008	0.019
getSegFeatures	0.000	0.004	0.005
hdEntropy	0.008	0.000	0.006
hdMI	0.484	0.000	0.487
matchAnn2Ann	0.016	0.000	0.015
matchCGHcall2ExpressionSet	0.024	0.000	0.024
merge2ExpressionSets	0.024	0.000	0.027
merge2cghCalls	0.032	0.000	0.035
miTest-class	0	0	0
mutInfTest	80.096	1.112	83.279
nBreakpoints	0.104	0.004	0.108
pathway1sample	0.072	0.004	0.126
pathway2sample	2.552	0.276	2.829
pathwayFit-class	0.000	0.000	0.001
pathwayPlot	0.092	0.000	0.091
pollackCN16	0.008	0.000	0.006
pollackGE16	0.000	0.004	0.003
profilesPlot	0.108	0.000	0.107
rcmFit-class	0	0	0
rcmTest-class	0	0	0
splitMatchingAtBreakpoints	0.108	0.000	0.110
uniqGenomicInfo	0.004	0.000	0.004

CHECK report for sigaR on malbec1

Summary

Command output

Installation output

Tests output

Example timings