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This page was generated on 2021-10-15 15:06:10 -0400 (Fri, 15 Oct 2021).
To the developers/maintainers of the MAGeCKFlute package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/MAGeCKFlute.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 1023/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
MAGeCKFlute 1.12.0 (landing page) Wubing Zhang
| nebbiolo1 | Linux (Ubuntu 20.04.2 LTS) / x86_64 | OK | OK | OK | |||||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||||
machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |||||||||
Package: MAGeCKFlute |
Version: 1.12.0 |
Command: C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:MAGeCKFlute.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings MAGeCKFlute_1.12.0.tar.gz |
StartedAt: 2021-10-15 01:17:30 -0400 (Fri, 15 Oct 2021) |
EndedAt: 2021-10-15 01:22:04 -0400 (Fri, 15 Oct 2021) |
EllapsedTime: 274.0 seconds |
RetCode: 0 |
Status: OK |
CheckDir: MAGeCKFlute.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:MAGeCKFlute.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings MAGeCKFlute_1.12.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.13-bioc/meat/MAGeCKFlute.Rcheck' * using R version 4.1.1 (2021-08-10) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'MAGeCKFlute/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'MAGeCKFlute' version '1.12.0' * package encoding: UTF-8 * 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 ... NOTE Found the following hidden files and directories: .travis.yml These were most likely included in error. See section 'Package structure' in the 'Writing R Extensions' manual. * checking for portable file names ... OK * checking whether package 'MAGeCKFlute' can be installed ... OK * checking installed package size ... NOTE installed size is 14.2Mb sub-directories of 1Mb or more: extdata 13.5Mb * 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 * loading checks for arch 'i386' ** 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 * loading checks for arch 'x64' ** 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 'library' or 'require' call to 'pathview' in package code. Please use :: or requireNamespace() instead. See section 'Suggested packages' in the 'Writing R Extensions' manual. * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... NOTE arrangePathview: no visible global function definition for 'pathview' Undefined global functions or variables: pathview * 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 ... ** running examples for arch 'i386' ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed enrich.ORT 6.18 0.05 6.5 ** running examples for arch 'x64' ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed TransGeneID 5.36 0.08 5.44 enrich.ORT 4.93 0.11 5.03 * 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: 4 NOTEs See 'C:/Users/biocbuild/bbs-3.13-bioc/meat/MAGeCKFlute.Rcheck/00check.log' for details.
MAGeCKFlute.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/MAGeCKFlute_1.12.0.tar.gz && rm -rf MAGeCKFlute.buildbin-libdir && mkdir MAGeCKFlute.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=MAGeCKFlute.buildbin-libdir MAGeCKFlute_1.12.0.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL MAGeCKFlute_1.12.0.zip && rm MAGeCKFlute_1.12.0.tar.gz MAGeCKFlute_1.12.0.zip ### ############################################################################## ############################################################################## % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 13 9886k 13 1293k 0 0 2033k 0 0:00:04 --:--:-- 0:00:04 2033k 48 9886k 48 4782k 0 0 2922k 0 0:00:03 0:00:01 0:00:02 2923k 92 9886k 92 9186k 0 0 3472k 0 0:00:02 0:00:02 --:--:-- 3471k 100 9886k 100 9886k 0 0 3573k 0 0:00:02 0:00:02 --:--:-- 3572k install for i386 * installing *source* package 'MAGeCKFlute' ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'MAGeCKFlute' finding HTML links ... done BarView html BatchRemove html ConsistencyView html CutoffCalling html DensityDiffView html DensityView html EnrichAB html EnrichAnalyzer html EnrichSquare html EnrichedFilter html EnrichedGeneView html EnrichedView html FluteMLE html REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.13-bioc/meat/MAGeCKFlute.buildbin-libdir/00LOCK-MAGeCKFlute/00new/MAGeCKFlute/help/flutemle.html FluteRRA html HeatmapView html IdentBarView html IncorporateDepmap html MAView html MapRatesView html NormalizeBeta html REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.13-bioc/meat/MAGeCKFlute.buildbin-libdir/00LOCK-MAGeCKFlute/00new/MAGeCKFlute/help/normalizebeta.html OmitCommonEssential html RankView html REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.13-bioc/meat/MAGeCKFlute.buildbin-libdir/00LOCK-MAGeCKFlute/00new/MAGeCKFlute/help/rankview.html ReadBeta html REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.13-bioc/meat/MAGeCKFlute.buildbin-libdir/00LOCK-MAGeCKFlute/00new/MAGeCKFlute/help/readbeta.html ReadGMT html ReadRRA html REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.13-bioc/meat/MAGeCKFlute.buildbin-libdir/00LOCK-MAGeCKFlute/00new/MAGeCKFlute/help/readrra.html ReadsgRRA html ResembleDepmap html ScatterView html Selector html SquareView html REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.13-bioc/meat/MAGeCKFlute.buildbin-libdir/00LOCK-MAGeCKFlute/00new/MAGeCKFlute/help/squareview.html TransGeneID html REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.13-bioc/meat/MAGeCKFlute.buildbin-libdir/00LOCK-MAGeCKFlute/00new/MAGeCKFlute/help/transGeneID.html ViolinView html REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.13-bioc/meat/MAGeCKFlute.buildbin-libdir/00LOCK-MAGeCKFlute/00new/MAGeCKFlute/help/violinview.html VolcanoView html arrangePathview html enrich.GSE html enrich.HGT html enrich.ORT html getCols html getGeneAnn html getOrg html getOrtAnn html gsGetter html hclustView html noEnrichPlot html normalize.loess html reexports html retrieve_gs html sgRankView html ** 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 install for x64 * installing *source* package 'MAGeCKFlute' ... ** testing if installed package can be loaded * MD5 sums packaged installation of 'MAGeCKFlute' as MAGeCKFlute_1.12.0.zip * DONE (MAGeCKFlute) * installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library' package 'MAGeCKFlute' successfully unpacked and MD5 sums checked
MAGeCKFlute.Rcheck/examples_i386/MAGeCKFlute-Ex.timings
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MAGeCKFlute.Rcheck/examples_x64/MAGeCKFlute-Ex.timings
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