Back to Multiple platform build/check report for BioC 3.11 |
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This page was generated on 2020-10-17 11:55:47 -0400 (Sat, 17 Oct 2020).
TO THE DEVELOPERS/MAINTAINERS OF THE SMITE PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 1687/1905 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
SMITE 1.16.0 Neil Ari Wijetunga
| malbec2 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | [ OK ] | |||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | NA | |||||||
machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK |
Package: SMITE |
Version: 1.16.0 |
Command: /home/biocbuild/bbs-3.11-bioc/R/bin/R CMD check --install=check:SMITE.install-out.txt --library=/home/biocbuild/bbs-3.11-bioc/R/library --no-vignettes --timings SMITE_1.16.0.tar.gz |
StartedAt: 2020-10-17 05:38:21 -0400 (Sat, 17 Oct 2020) |
EndedAt: 2020-10-17 05:44:29 -0400 (Sat, 17 Oct 2020) |
EllapsedTime: 367.1 seconds |
RetCode: 0 |
Status: OK |
CheckDir: SMITE.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.11-bioc/R/bin/R CMD check --install=check:SMITE.install-out.txt --library=/home/biocbuild/bbs-3.11-bioc/R/library --no-vignettes --timings SMITE_1.16.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.11-bioc/meat/SMITE.Rcheck’ * using R version 4.0.3 (2020-10-10) * using platform: x86_64-pc-linux-gnu (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 ‘1.16.0’ * 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 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: ### ### /home/biocbuild/bbs-3.11-bioc/R/bin/R CMD INSTALL SMITE ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.11-bioc/R/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 | 0.103 | 0.004 | 0.108 | |
SMITE-package | 0.348 | 0.008 | 0.355 | |
addShadowText | 0.003 | 0.000 | 0.004 | |
annotateExpression | 0.256 | 0.004 | 0.259 | |
annotateModification | 0.001 | 0.000 | 0.000 | |
convertGeneIds | 2.343 | 0.088 | 2.431 | |
curated_expression | 0.062 | 0.004 | 0.065 | |
extractExpression | 0.166 | 0.000 | 0.166 | |
extractGOseq | 0.035 | 0.000 | 0.034 | |
extractModification | 0.881 | 0.024 | 0.905 | |
extractModules | 0.034 | 0.000 | 0.035 | |
extractScores | 0.059 | 0.000 | 0.058 | |
genes_for_conversiontest | 0.644 | 0.004 | 0.648 | |
hg19_gene_bed | 0.125 | 0.000 | 0.126 | |
highScores | 0.034 | 0.000 | 0.034 | |
histone_h3k4me1 | 0.067 | 0.000 | 0.068 | |
makePvalueAnnotation | 1.065 | 0.012 | 1.077 | |
makePvalueObject | 0.092 | 0.000 | 0.093 | |
methylationdata | 0.089 | 0.000 | 0.088 | |
normalizePval | 0.054 | 0.000 | 0.055 | |
plotCompareScores | 0.538 | 0.004 | 0.542 | |
plotDensityPval | 0.106 | 0.000 | 0.106 | |
plotModule | 0.051 | 0.004 | 0.054 | |
removeModification | 0.137 | 0.004 | 0.141 | |
runBioNet | 0.050 | 0.004 | 0.055 | |
runGOseq | 0.059 | 0.004 | 0.063 | |
runSpinglass | 0.481 | 0.004 | 0.486 | |
scorePval | 0.033 | 0.000 | 0.032 | |
stoufferTest | 0.002 | 0.000 | 0.001 | |
test_annotation_score_data | 0.065 | 0.000 | 0.064 | |