Back to Multiple platform build/check report for BioC 3.6 |
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This page was generated on 2018-04-12 13:44:54 -0400 (Thu, 12 Apr 2018).
Package 1056/1472 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
PPInfer 1.5.1 Dongmin Jung
| malbec1 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | NotNeeded | OK | OK | ![]() | ||||||
tokay1 | Windows Server 2012 R2 Standard / x64 | NotNeeded | OK | OK | OK | ![]() | ||||||
veracruz1 | OS X 10.11.6 El Capitan / x86_64 | NotNeeded | OK | [ OK ] | OK | ![]() |
Package: PPInfer |
Version: 1.5.1 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings PPInfer_1.5.1.tar.gz |
StartedAt: 2018-04-12 07:47:57 -0400 (Thu, 12 Apr 2018) |
EndedAt: 2018-04-12 07:53:29 -0400 (Thu, 12 Apr 2018) |
EllapsedTime: 332.1 seconds |
RetCode: 0 |
Status: OK |
CheckDir: PPInfer.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings PPInfer_1.5.1.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.6-bioc/meat/PPInfer.Rcheck’ * using R version 3.4.4 (2018-03-15) * using platform: x86_64-apple-darwin15.6.0 (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘PPInfer/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘PPInfer’ version ‘1.5.1’ * checking package namespace information ... OK * checking package dependencies ... NOTE Depends: includes the non-default packages: ‘biomaRt’ ‘fgsea’ ‘kernlab’ ‘ggplot2’ ‘igraph’ ‘STRINGdb’ ‘yeastExpData’ Adding so many packages to the search path is excessive and importing selectively is preferable. * 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 ‘PPInfer’ 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 loading without being on the library search path ... 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 ORA: no visible global function definition for ‘txtProgressBar’ ORA: no visible global function definition for ‘fisher.test’ ORA: no visible global function definition for ‘setTxtProgressBar’ ORA: no visible global function definition for ‘p.adjust’ ORA.barplot: no visible global function definition for ‘p.adjust’ enrich.net: no visible global function definition for ‘stack’ enrich.net: no visible global function definition for ‘adjustcolor’ enrich.net : <anonymous>: no visible global function definition for ‘adjustcolor’ enrich.net: no visible binding for global variable ‘legend’ net.infer: no visible global function definition for ‘na.omit’ net.infer.ST: no visible global function definition for ‘na.omit’ ppi.infer.human: no visible global function definition for ‘na.omit’ ppi.infer.mouse: no visible global function definition for ‘na.omit’ Undefined global functions or variables: adjustcolor fisher.test legend na.omit p.adjust setTxtProgressBar stack txtProgressBar Consider adding importFrom("grDevices", "adjustcolor") importFrom("graphics", "legend") importFrom("stats", "fisher.test", "na.omit", "p.adjust") importFrom("utils", "setTxtProgressBar", "stack", "txtProgressBar") to your NAMESPACE file. * 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 sizes of PDF files under ‘inst/doc’ ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU or elapsed time > 5s user system elapsed ppi.infer.human 68.919 2.734 89.625 ppi.infer.mouse 60.405 2.275 77.754 ORA.barplot 2.336 0.040 21.089 ORA 1.438 0.091 20.606 * 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: 2 NOTEs See ‘/Users/biocbuild/bbs-3.6-bioc/meat/PPInfer.Rcheck/00check.log’ for details.
PPInfer.Rcheck/00install.out
* installing *source* package ‘PPInfer’ ... ** R ** inst ** preparing package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded * DONE (PPInfer)
PPInfer.Rcheck/PPInfer-Ex.timings
name | user | system | elapsed | |
GSEA.barplot | 4.006 | 0.093 | 3.990 | |
ORA | 1.438 | 0.091 | 20.606 | |
ORA.barplot | 2.336 | 0.040 | 21.089 | |
enrich.net | 2.860 | 0.145 | 2.642 | |
net.infer | 3.258 | 0.037 | 3.343 | |
net.infer.ST | 0.292 | 0.003 | 0.302 | |
net.kernel | 0.035 | 0.002 | 0.037 | |
ppi.infer.human | 68.919 | 2.734 | 89.625 | |
ppi.infer.mouse | 60.405 | 2.275 | 77.754 | |
self.train.kernel | 0.263 | 0.003 | 0.267 | |