Stefano de Pretis
| Snapshot Date: 2019-04-02 17:01:51 -0400 (Tue, 02 Apr 2019) |
| URL: https://git.bioconductor.org/packages/LowMACA |
| Branch: master |
| Last Commit: 09c46aa |
| Last Changed Date: 2019-03-08 20:56:15 -0400 (Fri, 08 Mar 2019) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-04-03 12:05:44 -0400 (Wed, 03 Apr 2019).
| Package 868/1696 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| LowMACA 1.13.1 Stefano de Pretis
| 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 | | ||||||
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK |
| Package: LowMACA |
| Version: 1.13.1 |
| Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:LowMACA.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings LowMACA_1.13.1.tar.gz |
| StartedAt: 2019-04-03 03:07:59 -0400 (Wed, 03 Apr 2019) |
| EndedAt: 2019-04-03 03:28:40 -0400 (Wed, 03 Apr 2019) |
| EllapsedTime: 1241.2 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: LowMACA.Rcheck |
| Warnings: 0 |
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### Running command:
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### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:LowMACA.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings LowMACA_1.13.1.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.9-bioc/meat/LowMACA.Rcheck’
* using R Under development (unstable) (2019-03-18 r76245)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘LowMACA/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘LowMACA’ version ‘1.13.1’
* 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 ‘LowMACA’ 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 ... 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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
allPfamAnalysis 203.332 12.207 216.370
lfmSingleSequence 106.052 5.641 112.157
setup 27.569 81.397 260.721
alignSequences 23.855 81.107 211.729
LowMACA-class 14.090 3.185 41.556
LowMACA-package 13.717 2.425 31.288
lmPlotSingleSequence 8.030 1.839 10.162
getMutations 1.246 0.139 8.984
* 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: OK
LowMACA.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL LowMACA ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library’ * installing *source* package ‘LowMACA’ ... ** 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 Checking if clustalo is in the PATH... Checking clustalo Version... Checking perl installation... Checking perl modules XML::Simple and LWP... ** testing if installed package can be loaded from final location Checking if clustalo is in the PATH... Checking clustalo Version... Checking perl installation... Checking perl modules XML::Simple and LWP... ** testing if installed package keeps a record of temporary installation path * DONE (LowMACA)
LowMACA.Rcheck/LowMACA-Ex.timings
| name | user | system | elapsed | |
| BLOSUM62 | 0.012 | 0.003 | 0.016 | |
| LowMACA-class | 14.090 | 3.185 | 41.556 | |
| LowMACA-package | 13.717 | 2.425 | 31.288 | |
| LowMACA_AML | 0.039 | 0.016 | 0.055 | |
| alignSequences | 23.855 | 81.107 | 211.729 | |
| allPfamAnalysis | 203.332 | 12.207 | 216.370 | |
| bpAll | 1.611 | 0.093 | 1.705 | |
| entropy | 1.806 | 0.118 | 1.924 | |
| getMutations | 1.246 | 0.139 | 8.984 | |
| lfm | 2.303 | 0.133 | 2.436 | |
| lfmSingleSequence | 106.052 | 5.641 | 112.157 | |
| lmAlignment | 0.056 | 0.019 | 0.075 | |
| lmEntropy | 1.408 | 0.166 | 1.573 | |
| lmMutations | 0.063 | 0.008 | 0.071 | |
| lmObj | 0.196 | 0.017 | 0.214 | |
| lmParams | 0.837 | 0.081 | 0.924 | |
| lmPlot | 2.131 | 0.102 | 2.234 | |
| lmPlotSingleSequence | 8.030 | 1.839 | 10.162 | |
| mapMutations | 0.770 | 0.042 | 0.811 | |
| newLowMACA | 4.037 | 0.217 | 4.254 | |
| nullProfile | 1.602 | 0.078 | 1.681 | |
| parallelize | 0.581 | 0.030 | 0.612 | |
| protter | 1.656 | 0.125 | 4.454 | |
| setup | 27.569 | 81.397 | 260.721 | |
| showTumorType | 0.073 | 0.026 | 0.303 | |