Stefano de Pretis
| Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020) |
| URL: https://git.bioconductor.org/packages/LowMACA |
| Branch: RELEASE_3_10 |
| Last Commit: cd38d0a |
| Last Changed Date: 2019-10-29 13:09:15 -0400 (Tue, 29 Oct 2019) |
| Back to Multiple platform build/check report for BioC 3.10 |
|
This page was generated on 2020-04-15 12:09:53 -0400 (Wed, 15 Apr 2020).
| Package 922/1823 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| LowMACA 1.16.0 Stefano de Pretis
| malbec1 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | [ OK ] | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: LowMACA |
| Version: 1.16.0 |
| Command: /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:LowMACA.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings LowMACA_1.16.0.tar.gz |
| StartedAt: 2020-04-15 02:54:53 -0400 (Wed, 15 Apr 2020) |
| EndedAt: 2020-04-15 03:05:50 -0400 (Wed, 15 Apr 2020) |
| EllapsedTime: 657.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: LowMACA.Rcheck |
| Warnings: 0 |
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### Running command:
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### /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:LowMACA.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings LowMACA_1.16.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.10-bioc/meat/LowMACA.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 ‘LowMACA/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘LowMACA’ version ‘1.16.0’
* 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 ‘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 169.552 11.708 181.855
lfmSingleSequence 97.560 6.088 104.423
setup 11.852 1.096 32.721
LowMACA-class 11.932 0.524 20.158
LowMACA-package 8.636 0.392 13.353
alignSequences 5.992 0.872 20.866
* 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: ### ### /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD INSTALL LowMACA ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.10-bioc/R/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 | 0.000 | 0.013 | |
| LowMACA-class | 11.932 | 0.524 | 20.158 | |
| LowMACA-package | 8.636 | 0.392 | 13.353 | |
| LowMACA_AML | 0.036 | 0.000 | 0.034 | |
| alignSequences | 5.992 | 0.872 | 20.866 | |
| allPfamAnalysis | 169.552 | 11.708 | 181.855 | |
| bpAll | 1.304 | 0.016 | 1.320 | |
| entropy | 0.928 | 0.000 | 0.929 | |
| getMutations | 1.900 | 0.312 | 3.961 | |
| lfm | 1.724 | 0.032 | 1.757 | |
| lfmSingleSequence | 97.560 | 6.088 | 104.423 | |
| lmAlignment | 0.068 | 0.004 | 0.072 | |
| lmEntropy | 1.188 | 0.000 | 1.188 | |
| lmMutations | 0.040 | 0.004 | 0.043 | |
| lmObj | 0.088 | 0.000 | 0.088 | |
| lmParams | 0.616 | 0.168 | 0.817 | |
| lmPlot | 4.356 | 0.092 | 4.452 | |
| lmPlotSingleSequence | 3.548 | 0.196 | 3.756 | |
| mapMutations | 0.636 | 0.004 | 0.640 | |
| newLowMACA | 3.616 | 0.076 | 3.701 | |
| nullProfile | 1.252 | 0.020 | 1.277 | |
| parallelize | 0.784 | 0.004 | 0.791 | |
| protter | 1.328 | 0.000 | 3.348 | |
| setup | 11.852 | 1.096 | 32.721 | |
| showTumorType | 0.132 | 0.096 | 0.259 | |