Wessel N. van Wieringen
| Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019) |
| URL: https://git.bioconductor.org/packages/sigaR |
| Branch: RELEASE_3_9 |
| Last Commit: e05f46d |
| Last Changed Date: 2019-05-02 11:53:34 -0400 (Thu, 02 May 2019) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-10-16 12:00:47 -0400 (Wed, 16 Oct 2019).
| Package 1512/1741 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| sigaR 1.32.0 Wessel N. van Wieringen
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | [ OK ] | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||
| celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: sigaR |
| Version: 1.32.0 |
| Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:sigaR.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings sigaR_1.32.0.tar.gz |
| StartedAt: 2019-10-16 05:01:07 -0400 (Wed, 16 Oct 2019) |
| EndedAt: 2019-10-16 05:04:35 -0400 (Wed, 16 Oct 2019) |
| EllapsedTime: 208.4 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: sigaR.Rcheck |
| Warnings: 0 |
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### Running command:
###
### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:sigaR.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings sigaR_1.32.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.9-bioc/meat/sigaR.Rcheck’
* using R version 3.6.1 (2019-07-05)
* 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 ‘1.32.0’
* 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 93.489 0.948 94.597
cisEffectTune 13.896 0.000 13.946
* 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-3.9-bioc/meat/sigaR.Rcheck/00check.log’
for details.
sigaR.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL sigaR ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.9-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)
sigaR.Rcheck/sigaR-Ex.timings
| name | user | system | elapsed | |
| CNGEheatmaps | 1.009 | 0.004 | 1.015 | |
| ExpressionSet2order | 0.008 | 0.004 | 0.012 | |
| ExpressionSet2subset | 0.013 | 0.004 | 0.017 | |
| ExpressionSet2weightedSubset | 0.301 | 0.000 | 0.301 | |
| RCMestimation | 0.705 | 0.035 | 0.744 | |
| RCMrandom | 0.571 | 0.000 | 0.571 | |
| RCMtest | 2.679 | 0.000 | 2.689 | |
| cghCall2cghSeg | 0.056 | 0.000 | 0.056 | |
| cghCall2maximumSubset | 0.317 | 0.000 | 0.317 | |
| cghCall2order | 0.019 | 0.000 | 0.019 | |
| cghCall2subset | 0.047 | 0.004 | 0.051 | |
| cghCall2weightedSubset | 0.346 | 0.000 | 0.347 | |
| cghSeg2order | 0.046 | 0.000 | 0.046 | |
| cghSeg2subset | 0.077 | 0.000 | 0.078 | |
| cghSeg2weightedSubset | 0.339 | 0.000 | 0.338 | |
| cisEffectPlot | 0.072 | 0.000 | 0.072 | |
| cisEffectTable | 1.558 | 0.004 | 1.563 | |
| cisEffectTest | 1.286 | 0.008 | 1.296 | |
| cisEffectTune | 13.896 | 0.000 | 13.946 | |
| cisTest-class | 0.001 | 0.000 | 0.001 | |
| entTest-class | 0.001 | 0.000 | 0.000 | |
| entropyTest | 0.265 | 0.004 | 0.269 | |
| expandMatching2singleIDs | 0.036 | 0.000 | 0.036 | |
| getSegFeatures | 0.005 | 0.004 | 0.009 | |
| hdEntropy | 0.01 | 0.00 | 0.01 | |
| hdMI | 0.736 | 0.000 | 0.738 | |
| matchAnn2Ann | 0.031 | 0.000 | 0.031 | |
| matchCGHcall2ExpressionSet | 0.046 | 0.004 | 0.050 | |
| merge2ExpressionSets | 0.054 | 0.000 | 0.054 | |
| merge2cghCalls | 0.072 | 0.000 | 0.072 | |
| miTest-class | 0.001 | 0.000 | 0.001 | |
| mutInfTest | 93.489 | 0.948 | 94.597 | |
| nBreakpoints | 0.199 | 0.004 | 0.203 | |
| pathway1sample | 0.069 | 0.000 | 0.069 | |
| pathway2sample | 2.392 | 0.232 | 2.623 | |
| pathwayFit-class | 0.000 | 0.000 | 0.001 | |
| pathwayPlot | 0.058 | 0.000 | 0.057 | |
| pollackCN16 | 0.004 | 0.000 | 0.004 | |
| pollackGE16 | 0.002 | 0.000 | 0.002 | |
| profilesPlot | 0.078 | 0.000 | 0.078 | |
| rcmFit-class | 0.000 | 0.000 | 0.001 | |
| rcmTest-class | 0.000 | 0.000 | 0.001 | |
| splitMatchingAtBreakpoints | 0.138 | 0.000 | 0.138 | |
| uniqGenomicInfo | 0.007 | 0.000 | 0.007 | |