Hendrik Treutler
| Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019) |
| URL: https://git.bioconductor.org/packages/DiffLogo |
| Branch: RELEASE_3_9 |
| Last Commit: b31a93c |
| Last Changed Date: 2019-05-02 11:53:57 -0400 (Thu, 02 May 2019) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-10-16 12:07:26 -0400 (Wed, 16 Oct 2019).
| Package 436/1741 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| DiffLogo 2.8.0 Hendrik Treutler
| 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: DiffLogo |
| Version: 2.8.0 |
| Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:DiffLogo.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings DiffLogo_2.8.0.tar.gz |
| StartedAt: 2019-10-16 01:11:19 -0400 (Wed, 16 Oct 2019) |
| EndedAt: 2019-10-16 01:11:58 -0400 (Wed, 16 Oct 2019) |
| EllapsedTime: 38.9 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: DiffLogo.Rcheck |
| Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:DiffLogo.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings DiffLogo_2.8.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.9-bioc/meat/DiffLogo.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 ‘DiffLogo/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘DiffLogo’ version ‘2.8.0’ * 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 ‘DiffLogo’ 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 files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘testthat.R’ OK * 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
DiffLogo.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL DiffLogo ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/library’ * installing *source* package ‘DiffLogo’ ... ** using staged installation ** R ** 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 (DiffLogo)
DiffLogo.Rcheck/tests/testthat.Rout
R version 3.6.1 (2019-07-05) -- "Action of the Toes" Copyright (C) 2019 The R Foundation for Statistical Computing Platform: x86_64-pc-linux-gnu (64-bit) R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > > proc.time() user system elapsed 0.226 0.032 0.239
DiffLogo.Rcheck/DiffLogo-Ex.timings
| name | user | system | elapsed | |
| ASN | 0.001 | 0.000 | 0.001 | |
| Alphabet | 0.001 | 0.000 | 0.001 | |
| DNA | 0 | 0 | 0 | |
| FULL_ALPHABET | 0.001 | 0.000 | 0.001 | |
| RNA | 0.001 | 0.000 | 0.000 | |
| calculatePvalue | 0.042 | 0.000 | 0.042 | |
| createDiffLogoObject | 0.108 | 0.004 | 0.127 | |
| diffLogo | 0.092 | 0.004 | 0.096 | |
| diffLogoFromPwm | 0.096 | 0.000 | 0.097 | |
| diffLogoTable | 2.185 | 0.032 | 2.216 | |
| diffLogoTableConfiguration | 0.001 | 0.000 | 0.002 | |
| differenceOfICs | 0.405 | 0.008 | 0.414 | |
| drawDiffLogoTable | 2.155 | 0.008 | 2.163 | |
| enrichDiffLogoObjectWithPvalues | 0.279 | 0.000 | 0.279 | |
| enrichDiffLogoTableWithPvalues | 4.242 | 0.000 | 4.247 | |
| extendPwmsFromAlignmentVector | 0.058 | 0.000 | 0.068 | |
| getAlphabetFromCharacters | 0.001 | 0.000 | 0.001 | |
| getAlphabetFromSequences | 0 | 0 | 0 | |
| getPwmFromAlignment | 0.462 | 0.012 | 0.493 | |
| getPwmFromAlignmentFile | 0.009 | 0.000 | 0.009 | |
| getPwmFromFastaFile | 0.016 | 0.003 | 0.019 | |
| getPwmFromFile | 0.004 | 0.000 | 0.006 | |
| getPwmFromHomerFile | 0.002 | 0.000 | 0.002 | |
| getPwmFromPfmOrJasparFile | 0.003 | 0.000 | 0.004 | |
| getPwmFromPwmFile | 0.004 | 0.000 | 0.003 | |
| getSequencesFromAlignmentFile | 0.000 | 0.002 | 0.002 | |
| getSequencesFromFastaFile | 0.001 | 0.000 | 0.003 | |
| informationContent | 0.098 | 0.000 | 0.098 | |
| lossOfAbsICDifferences | 0.069 | 0.000 | 0.068 | |
| multipleLocalPwmsAlignment | 0.067 | 0.000 | 0.068 | |
| normalizePWM | 0.000 | 0.000 | 0.001 | |
| normalizedDifferenceOfProbabilities | 0.056 | 0.000 | 0.057 | |
| prepareDiffLogoTable | 0.960 | 0.008 | 0.968 | |
| probabilities | 0.057 | 0.004 | 0.061 | |
| seqLogo | 0.065 | 0.000 | 0.065 | |
| shannonDivergence | 0.078 | 0.000 | 0.079 | |
| sumOfAbsICDifferences | 0.066 | 0.004 | 0.069 | |
| sumOfAbsProbabilityDifferences | 0.069 | 0.000 | 0.069 | |
| sumProbabilities | 0.055 | 0.000 | 0.055 | |