Stefano de Pretis
| Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019) |
| URL: https://git.bioconductor.org/packages/LowMACA |
| Branch: RELEASE_3_9 |
| Last Commit: d7001d5 |
| Last Changed Date: 2019-07-12 13:16:32 -0400 (Fri, 12 Jul 2019) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-10-16 12:55:19 -0400 (Wed, 16 Oct 2019).
| Package 887/1741 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| LowMACA 1.14.1 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 | |
| Package: LowMACA |
| Version: 1.14.1 |
| 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_1.14.1.tar.gz |
| StartedAt: 2019-10-16 04:08:24 -0400 (Wed, 16 Oct 2019) |
| EndedAt: 2019-10-16 04:28:14 -0400 (Wed, 16 Oct 2019) |
| EllapsedTime: 1190.5 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_1.14.1.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.9-bioc/meat/LowMACA.Rcheck’
* using R version 3.6.1 (2019-07-05)
* 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 ‘1.14.1’
* 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 207.805 12.240 219.885
lfmSingleSequence 112.334 6.018 119.113
setup 30.418 77.184 223.990
alignSequences 23.322 79.412 212.356
LowMACA-class 16.387 1.572 25.601
LowMACA-package 10.473 0.713 15.650
lmPlotSingleSequence 5.351 0.186 5.583
lmPlot 5.174 0.132 5.307
* 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 | 0.002 | 0.015 | |
| LowMACA-class | 16.387 | 1.572 | 25.601 | |
| LowMACA-package | 10.473 | 0.713 | 15.650 | |
| LowMACA_AML | 0.025 | 0.004 | 0.029 | |
| alignSequences | 23.322 | 79.412 | 212.356 | |
| allPfamAnalysis | 207.805 | 12.240 | 219.885 | |
| bpAll | 1.673 | 0.092 | 1.766 | |
| entropy | 1.345 | 0.073 | 1.418 | |
| getMutations | 1.897 | 0.114 | 3.527 | |
| lfm | 2.806 | 0.152 | 2.959 | |
| lfmSingleSequence | 112.334 | 6.018 | 119.113 | |
| lmAlignment | 0.09 | 0.02 | 0.11 | |
| lmEntropy | 1.654 | 0.090 | 1.803 | |
| lmMutations | 0.085 | 0.022 | 0.107 | |
| lmObj | 0.166 | 0.025 | 0.191 | |
| lmParams | 0.814 | 0.075 | 0.897 | |
| lmPlot | 5.174 | 0.132 | 5.307 | |
| lmPlotSingleSequence | 5.351 | 0.186 | 5.583 | |
| mapMutations | 0.800 | 0.043 | 0.842 | |
| newLowMACA | 3.652 | 0.171 | 3.823 | |
| nullProfile | 1.704 | 0.088 | 1.792 | |
| parallelize | 0.811 | 0.043 | 0.855 | |
| protter | 1.665 | 0.090 | 4.300 | |
| setup | 30.418 | 77.184 | 223.990 | |
| showTumorType | 0.090 | 0.026 | 0.154 | |