| Back to Multiple platform build/check report for BioC 3.15 |
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This page was generated on 2022-10-19 13:23:45 -0400 (Wed, 19 Oct 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | 4.2.1 (2022-06-23) -- "Funny-Looking Kid" | 4386 |
| palomino3 | Windows Server 2022 Datacenter | x64 | 4.2.1 (2022-06-23 ucrt) -- "Funny-Looking Kid" | 4138 |
| merida1 | macOS 10.14.6 Mojave | x86_64 | 4.2.1 (2022-06-23) -- "Funny-Looking Kid" | 4205 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
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To the developers/maintainers of the SMITE package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/SMITE.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1871/2140 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| SMITE 1.24.0 (landing page) Neil Ari Wijetunga
| nebbiolo1 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | OK | OK | OK | |||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
| merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |||||||||
| Package: SMITE |
| Version: 1.24.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:SMITE.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings SMITE_1.24.0.tar.gz |
| StartedAt: 2022-10-19 08:13:48 -0400 (Wed, 19 Oct 2022) |
| EndedAt: 2022-10-19 08:21:41 -0400 (Wed, 19 Oct 2022) |
| EllapsedTime: 472.7 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: SMITE.Rcheck |
| Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:SMITE.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings SMITE_1.24.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.15-bioc/meat/SMITE.Rcheck’ * using R version 4.2.1 (2022-06-23) * using platform: x86_64-apple-darwin17.0 (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘SMITE/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘SMITE’ version ‘1.24.0’ * 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 ‘SMITE’ 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 sizes of PDF files under ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... 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
SMITE.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL SMITE ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.2/Resources/library’ * installing *source* package ‘SMITE’ ... ** 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 ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (SMITE)
SMITE.Rcheck/SMITE-Ex.timings
| name | user | system | elapsed | |
| Reactome.Symbol.Igraph | 0.151 | 0.009 | 0.160 | |
| SMITE-package | 0.732 | 0.019 | 0.753 | |
| addShadowText | 0.005 | 0.001 | 0.006 | |
| annotateExpression | 0.355 | 0.008 | 0.383 | |
| annotateModification | 0.000 | 0.001 | 0.000 | |
| convertGeneIds | 3.674 | 0.169 | 3.853 | |
| curated_expression | 0.068 | 0.002 | 0.069 | |
| extractExpression | 0.337 | 0.007 | 0.344 | |
| extractGOseq | 0.129 | 0.004 | 0.133 | |
| extractModification | 1.572 | 0.024 | 1.598 | |
| extractModules | 0.121 | 0.003 | 0.125 | |
| extractScores | 0.126 | 0.003 | 0.130 | |
| genes_for_conversiontest | 1.466 | 0.011 | 1.481 | |
| hg19_gene_bed | 0.207 | 0.003 | 0.210 | |
| highScores | 0.118 | 0.003 | 0.122 | |
| histone_h3k4me1 | 0.111 | 0.003 | 0.113 | |
| makePvalueAnnotation | 1.256 | 0.019 | 1.277 | |
| makePvalueObject | 0.093 | 0.004 | 0.098 | |
| methylationdata | 0.091 | 0.003 | 0.093 | |
| normalizePval | 0.118 | 0.004 | 0.134 | |
| plotCompareScores | 0.784 | 0.018 | 0.803 | |
| plotDensityPval | 0.186 | 0.006 | 0.193 | |
| plotModule | 0.125 | 0.003 | 0.128 | |
| removeModification | 0.094 | 0.004 | 0.099 | |
| runBioNet | 0.124 | 0.004 | 0.128 | |
| runGOseq | 0.187 | 0.006 | 0.193 | |
| runSpinglass | 0.925 | 0.038 | 0.965 | |
| scorePval | 0.123 | 0.003 | 0.126 | |
| stoufferTest | 0.002 | 0.001 | 0.002 | |
| test_annotation_score_data | 0.167 | 0.005 | 0.172 | |