Back to Multiple platform build/check report for BioC 3.13 |
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This page was generated on 2021-10-15 15:06:04 -0400 (Fri, 15 Oct 2021).
To the developers/maintainers of the enrichTF package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/enrichTF.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 575/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
enrichTF 1.8.0 (landing page) Zheng Wei
| 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: enrichTF |
Version: 1.8.0 |
Command: C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:enrichTF.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings enrichTF_1.8.0.tar.gz |
StartedAt: 2021-10-14 22:44:40 -0400 (Thu, 14 Oct 2021) |
EndedAt: 2021-10-14 22:56:17 -0400 (Thu, 14 Oct 2021) |
EllapsedTime: 697.3 seconds |
RetCode: 0 |
Status: OK |
CheckDir: enrichTF.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:enrichTF.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings enrichTF_1.8.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.13-bioc/meat/enrichTF.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 'enrichTF/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'enrichTF' version '1.8.0' * 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 'enrichTF' 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 ... NOTE Warning in options(stringsAsFactors = TRUE) : 'options(stringsAsFactors = TRUE)' is deprecated and will be disabled A namespace must be able to be loaded with just the base namespace loaded: otherwise if the namespace gets loaded by a saved object, the session will be unable to start. Probably some imports need to be declared in the NAMESPACE file. ** 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 ... NOTE Warning in options(stringsAsFactors = TRUE) : 'options(stringsAsFactors = TRUE)' is deprecated and will be disabled A namespace must be able to be loaded with just the base namespace loaded: otherwise if the namespace gets loaded by a saved object, the session will be unable to start. Probably some imports need to be declared in the NAMESPACE file. ** 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 ... NOTE processing,TissueOpennessConserve: no visible binding for global variable 'X2' Undefined global functions or variables: X2 * 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 GeneOntology 19.18 2.09 21.35 TissueOpennessSpecificity 16.96 0.08 17.15 GenBackground 5.73 1.58 24.66 Pipelines 1.84 0.20 18.33 MotifsInRegions 1.72 0.10 19.16 ** running examples for arch 'x64' ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed TissueOpennessSpecificity 21.31 0.05 21.38 GeneOntology 15.12 0.95 16.10 GenBackground 5.59 1.29 13.50 Pipelines 1.72 0.17 18.16 MotifsInRegions 1.36 0.11 19.48 * 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: 3 NOTEs See 'C:/Users/biocbuild/bbs-3.13-bioc/meat/enrichTF.Rcheck/00check.log' for details.
enrichTF.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/enrichTF_1.8.0.tar.gz && rm -rf enrichTF.buildbin-libdir && mkdir enrichTF.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=enrichTF.buildbin-libdir enrichTF_1.8.0.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL enrichTF_1.8.0.zip && rm enrichTF_1.8.0.tar.gz enrichTF_1.8.0.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 28 1005k 28 290k 0 0 907k 0 0:00:01 --:--:-- 0:00:01 909k 100 1005k 100 1005k 0 0 1461k 0 --:--:-- --:--:-- --:--:-- 1461k install for i386 * installing *source* package 'enrichTF' ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'enrichTF' finding HTML links ... done EnrichStep-class html GenBackground html REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.13-bioc/meat/enrichTF.buildbin-libdir/00LOCK-enrichTF/00new/enrichTF/help/genBackground.html finding level-2 HTML links ... done GeneOntology html REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.13-bioc/meat/enrichTF.buildbin-libdir/00LOCK-enrichTF/00new/enrichTF/help/geneOntology.html MotifsInRegions html REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.13-bioc/meat/enrichTF.buildbin-libdir/00LOCK-enrichTF/00new/enrichTF/help/motifsInRegions.html Pipelines html RegionConnectTargetGene html REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.13-bioc/meat/enrichTF.buildbin-libdir/00LOCK-enrichTF/00new/enrichTF/help/regionConnectTargetGene.html SingleSampleReport html TFsEnrichInRegions html REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.13-bioc/meat/enrichTF.buildbin-libdir/00LOCK-enrichTF/00new/enrichTF/help/tfsEnrichInRegions.html TissueOpennessConserve html REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.13-bioc/meat/enrichTF.buildbin-libdir/00LOCK-enrichTF/00new/enrichTF/help/tissueOpennessConserve.html TissueOpennessSpecificity html REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.13-bioc/meat/enrichTF.buildbin-libdir/00LOCK-enrichTF/00new/enrichTF/help/tissueOpennessSpecificity.html UnzipAndMergeBed html REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.13-bioc/meat/enrichTF.buildbin-libdir/00LOCK-enrichTF/00new/enrichTF/help/unzipAndMergeBed.html ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location Warning in options(stringsAsFactors = TRUE) : 'options(stringsAsFactors = TRUE)' is deprecated and will be disabled ** testing if installed package can be loaded from final location Warning in options(stringsAsFactors = TRUE) : 'options(stringsAsFactors = TRUE)' is deprecated and will be disabled ** testing if installed package keeps a record of temporary installation path install for x64 * installing *source* package 'enrichTF' ... ** testing if installed package can be loaded Warning in options(stringsAsFactors = TRUE) : 'options(stringsAsFactors = TRUE)' is deprecated and will be disabled * MD5 sums packaged installation of 'enrichTF' as enrichTF_1.8.0.zip * DONE (enrichTF) * installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library' package 'enrichTF' successfully unpacked and MD5 sums checked
enrichTF.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(enrichTF) Loading required package: pipeFrame Warning message: In options(stringsAsFactors = TRUE) : 'options(stringsAsFactors = TRUE)' is deprecated and will be disabled > > test_check("enrichTF") [1] "2021-10-14 22:55:01 EDT" [1] "2021-10-14 22:55:01 EDT" [1] "2021-10-14 22:55:01 EDT" [1] "2021-10-14 22:55:01 EDT" [1] "2021-10-14 22:55:01 EDT" [1] "2021-10-14 22:55:01 EDT" [1] "2021-10-14 22:55:03 EDT" [1] "2021-10-14 22:55:03 EDT" [1] "2021-10-14 22:55:03 EDT" [1] "2021-10-14 22:55:03 EDT" [1] "2021-10-14 22:55:03 EDT" [1] "2021-10-14 22:55:03 EDT" [1] "2021-10-14 22:55:19 EDT" [1] "2021-10-14 22:55:19 EDT" [1] "2021-10-14 22:55:19 EDT" [1] "2021-10-14 22:55:19 EDT" [1] "2021-10-14 22:55:19 EDT" [1] "2021-10-14 22:55:19 EDT" [ FAIL 0 | WARN 0 | SKIP 0 | PASS 9 ] > > proc.time() user system elapsed 22.06 3.25 72.53 |
enrichTF.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(enrichTF) Loading required package: pipeFrame Warning message: In options(stringsAsFactors = TRUE) : 'options(stringsAsFactors = TRUE)' is deprecated and will be disabled > > test_check("enrichTF") [1] "2021-10-14 22:55:48 EDT" [1] "2021-10-14 22:55:48 EDT" [1] "2021-10-14 22:55:48 EDT" [1] "2021-10-14 22:55:48 EDT" [1] "2021-10-14 22:55:48 EDT" [1] "2021-10-14 22:55:48 EDT" [1] "2021-10-14 22:55:50 EDT" [1] "2021-10-14 22:55:50 EDT" [1] "2021-10-14 22:55:50 EDT" [1] "2021-10-14 22:55:50 EDT" [1] "2021-10-14 22:55:50 EDT" [1] "2021-10-14 22:55:50 EDT" [1] "2021-10-14 22:56:10 EDT" [1] "2021-10-14 22:56:10 EDT" [1] "2021-10-14 22:56:10 EDT" [1] "2021-10-14 22:56:10 EDT" [1] "2021-10-14 22:56:10 EDT" [1] "2021-10-14 22:56:10 EDT" [ FAIL 0 | WARN 0 | SKIP 0 | PASS 9 ] > > proc.time() user system elapsed 22.01 2.03 50.12 |
enrichTF.Rcheck/examples_i386/enrichTF-Ex.timings
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enrichTF.Rcheck/examples_x64/enrichTF-Ex.timings
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