Back to Multiple platform build/check report for BioC 3.13 |
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This page was generated on 2021-10-15 15:06:18 -0400 (Fri, 15 Oct 2021).
To the developers/maintainers of the rcellminer package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/rcellminer.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 1517/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
rcellminer 2.14.0 (landing page) Augustin Luna
| 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: rcellminer |
Version: 2.14.0 |
Command: C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:rcellminer.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings rcellminer_2.14.0.tar.gz |
StartedAt: 2021-10-15 04:10:18 -0400 (Fri, 15 Oct 2021) |
EndedAt: 2021-10-15 04:15:11 -0400 (Fri, 15 Oct 2021) |
EllapsedTime: 292.9 seconds |
RetCode: 0 |
Status: OK |
CheckDir: rcellminer.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:rcellminer.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings rcellminer_2.14.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.13-bioc/meat/rcellminer.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 'rcellminer/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'rcellminer' version '2.14.0' * 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 ... OK * checking for portable file names ... OK * checking whether package 'rcellminer' 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 * 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 Namespace in Imports field not imported from: 'shiny' All declared Imports should be used. * 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 LazyData ... OK * checking data for ASCII and uncompressed saves ... 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 getFeatureDataFromMatList 3.41 0.46 14.36 ** running examples for arch 'x64' ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed getFeatureDataFromMatList 3.98 0.59 8.22 plotDrugActivityRepeats 1.27 0.09 10.50 * checking for unstated dependencies in 'tests' ... OK * checking tests ... ** running tests for arch 'i386' ... Running 'testthat.R' OK ** running tests for arch 'x64' ... 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: 1 NOTE See 'C:/Users/biocbuild/bbs-3.13-bioc/meat/rcellminer.Rcheck/00check.log' for details.
rcellminer.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/rcellminer_2.14.0.tar.gz && rm -rf rcellminer.buildbin-libdir && mkdir rcellminer.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=rcellminer.buildbin-libdir rcellminer_2.14.0.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL rcellminer_2.14.0.zip && rm rcellminer_2.14.0.tar.gz rcellminer_2.14.0.zip ### ############################################################################## ############################################################################## % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 81884 100 81884 0 0 522k 0 --:--:-- --:--:-- --:--:-- 526k install for i386 * installing *source* package 'rcellminer' ... ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'rcellminer' finding HTML links ... done DrugData-class html DrugData-eSet-eSet-MIAxE-method html DrugData html Drug_MOA_Key html MolData-class html MolData-list-MIAxE-method html MolData html cmVersion html crossCors html crossCorsSpearman html dot-onAttach html dot-onLoad html drugDB html elNetMolDataNCI60 html fingerprintList html getAct-DrugData-method html getAct html getActivityRangeStats html getAllFeatureData-MolData-method html getAllFeatureData html getBinaryMutationData html getColumnQuantiles html getDrugActivityData html getDrugActivityRange html getDrugActivityRepeatData html getDrugMoaList html getDrugName html getESetList-MolData-method html getESetList html getFeatureAnnot-DrugData-method html getFeatureAnnot-MolData-method html getFeatureAnnot html getFeatureDataFromMatList html getMedSenLineActivity html getMinDrugActivityRepeatCor html getMoaStr html getMoaToCompounds html getMolDataMatrices html getMolDataType html getNumDrugActivityRepeats html getNumMissingLines html getRepeatAct-DrugData-method html getRepeatAct html getRsd html getSampleData-DrugData-method html getSampleData-MolData-method html getSampleData html getSmiles html hasMoa html initialize-DrugData-method html initialize-MolData-method html isPublic html loadCellminerPlotInfo html loadNciColorSet html parCorPatternComparison html patternComparison html plotCellMiner html plotCellMiner2D html plotDrugActivityRepeats html plotDrugSets html removeMolDataType html restrictFeatureMat html rowCors html searchForNscs html selectCorrelatedRows html selectCorrelatedRowsFromMatrices html sub-sub-MolData-method html sub-subset-MolData-method 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 'rcellminer' ... ** testing if installed package can be loaded * MD5 sums packaged installation of 'rcellminer' as rcellminer_2.14.0.zip * DONE (rcellminer) * installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library' package 'rcellminer' successfully unpacked and MD5 sums checked
rcellminer.Rcheck/tests_i386/testthat.Rout R version 4.1.1 (2021-08-10) -- "Kick Things" Copyright (C) 2021 The R Foundation for Statistical Computing Platform: i386-w64-mingw32/i386 (32-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. > library(testthat) > library(rcellminer) Loading required package: Biobase Loading required package: BiocGenerics Loading required package: parallel Attaching package: 'BiocGenerics' The following objects are masked from 'package:parallel': clusterApply, clusterApplyLB, clusterCall, clusterEvalQ, clusterExport, clusterMap, parApply, parCapply, parLapply, parLapplyLB, parRapply, parSapply, parSapplyLB The following objects are masked from 'package:stats': IQR, mad, sd, var, xtabs The following objects are masked from 'package:base': Filter, Find, Map, Position, Reduce, anyDuplicated, append, as.data.frame, basename, cbind, colnames, dirname, do.call, duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted, lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table, tapply, union, unique, unsplit, which.max, which.min Welcome to Bioconductor Vignettes contain introductory material; view with 'browseVignettes()'. To cite Bioconductor, see 'citation("Biobase")', and for packages 'citation("pkgname")'. Loading required package: rcellminerData Consider citing this package: Luna A, et al. rcellminer: exploring molecular profiles and drug response of the NCI-60 cell lines in R. PMID: 26635141; citation("rcellminer") > > #test_package("rcellminer") > test_check("rcellminer") == Skipped tests =============================================================== * empty test (1) [ FAIL 0 | WARN 2 | SKIP 1 | PASS 226 ] > > proc.time() user system elapsed 68.62 6.32 77.78 |
rcellminer.Rcheck/tests_x64/testthat.Rout R version 4.1.1 (2021-08-10) -- "Kick Things" Copyright (C) 2021 The R Foundation for Statistical Computing Platform: x86_64-w64-mingw32/x64 (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. > library(testthat) > library(rcellminer) Loading required package: Biobase Loading required package: BiocGenerics Loading required package: parallel Attaching package: 'BiocGenerics' The following objects are masked from 'package:parallel': clusterApply, clusterApplyLB, clusterCall, clusterEvalQ, clusterExport, clusterMap, parApply, parCapply, parLapply, parLapplyLB, parRapply, parSapply, parSapplyLB The following objects are masked from 'package:stats': IQR, mad, sd, var, xtabs The following objects are masked from 'package:base': Filter, Find, Map, Position, Reduce, anyDuplicated, append, as.data.frame, basename, cbind, colnames, dirname, do.call, duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted, lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table, tapply, union, unique, unsplit, which.max, which.min Welcome to Bioconductor Vignettes contain introductory material; view with 'browseVignettes()'. To cite Bioconductor, see 'citation("Biobase")', and for packages 'citation("pkgname")'. Loading required package: rcellminerData Consider citing this package: Luna A, et al. rcellminer: exploring molecular profiles and drug response of the NCI-60 cell lines in R. PMID: 26635141; citation("rcellminer") > > #test_package("rcellminer") > test_check("rcellminer") == Skipped tests =============================================================== * empty test (1) [ FAIL 0 | WARN 2 | SKIP 1 | PASS 226 ] > > proc.time() user system elapsed 62.20 4.60 67.09 |
rcellminer.Rcheck/examples_i386/rcellminer-Ex.timings
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rcellminer.Rcheck/examples_x64/rcellminer-Ex.timings
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