Francesco Napolitano
| Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019) |
| URL: https://git.bioconductor.org/packages/gep2pep |
| Branch: RELEASE_3_9 |
| Last Commit: e083bac |
| Last Changed Date: 2019-05-02 11:54:09 -0400 (Thu, 02 May 2019) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-10-16 12:40:04 -0400 (Wed, 16 Oct 2019).
| Package 671/1741 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| gep2pep 1.4.0 Francesco Napolitano
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | | ||||||
| celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: gep2pep |
| Version: 1.4.0 |
| Command: C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:gep2pep.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings gep2pep_1.4.0.tar.gz |
| StartedAt: 2019-10-16 04:03:01 -0400 (Wed, 16 Oct 2019) |
| EndedAt: 2019-10-16 04:07:35 -0400 (Wed, 16 Oct 2019) |
| EllapsedTime: 274.8 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: gep2pep.Rcheck |
| Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:gep2pep.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings gep2pep_1.4.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.9-bioc/meat/gep2pep.Rcheck' * using R version 3.6.1 (2019-07-05) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'gep2pep/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'gep2pep' version '1.4.0' * 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 'gep2pep' 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 ... 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 files in 'vignettes' ... OK * checking examples ... ** running examples for arch 'i386' ... OK ** running examples for arch 'x64' ... OK * 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: OK
gep2pep.Rcheck/00install.out
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### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/gep2pep_1.4.0.tar.gz && rm -rf gep2pep.buildbin-libdir && mkdir gep2pep.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=gep2pep.buildbin-libdir gep2pep_1.4.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL gep2pep_1.4.0.zip && rm gep2pep_1.4.0.tar.gz gep2pep_1.4.0.zip
###
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install for i386
* installing *source* package 'gep2pep' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'gep2pep'
finding HTML links ... done
CategorizedCollection-class html
CategorizedCollection html
CondSEA html
PathSEA html
addSingleGeneSets html
as.CategorizedCollection html
buildPEPs html
checkRepository html
clearCache html
createMergedRepository html
createRepository html
exportSEA html
gene2pathways html
gep2pep-package html
getCollections html
getDetails html
getResults html
importFromRawMode html
importMSigDB.xml html
loadCollection html
loadESmatrix html
loadPVmatrix html
loadSampleGEP html
loadSamplePWS html
makeCollectionIDs html
openRepository html
setId2setName 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 'gep2pep' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'gep2pep' as gep2pep_1.4.0.zip
* DONE (gep2pep)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'gep2pep' successfully unpacked and MD5 sums checked
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gep2pep.Rcheck/tests_i386/testthat.Rout
R version 3.6.1 (2019-07-05) -- "Action of the Toes"
Copyright (C) 2019 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(gep2pep)
>
> test_check("gep2pep")
Chunk 1 of 2, 521 bytes (current file size: 4.3 Kb)
Chunk 2 of 2, 668 bytes (current file size: 12.3 Kb)
Chunk 1 of 2, 541 bytes (current file size: 4.3 Kb)
Chunk 2 of 2, 693 bytes (current file size: 12.3 Kb)
Chunk 1 of 2, 551 bytes (current file size: 4.3 Kb)
Chunk 2 of 2, 687 bytes (current file size: 12.3 Kb)
== testthat results ===========================================================
[ OK: 154 | SKIPPED: 1 | WARNINGS: 9 | FAILED: 0 ]
>
> proc.time()
user system elapsed
13.85 1.59 31.23
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gep2pep.Rcheck/tests_x64/testthat.Rout
R version 3.6.1 (2019-07-05) -- "Action of the Toes"
Copyright (C) 2019 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(gep2pep)
>
> test_check("gep2pep")
Chunk 1 of 2, 522 bytes (current file size: 4.3 Kb)
Chunk 2 of 2, 667 bytes (current file size: 12.3 Kb)
Chunk 1 of 2, 541 bytes (current file size: 4.3 Kb)
Chunk 2 of 2, 693 bytes (current file size: 12.3 Kb)
Chunk 1 of 2, 551 bytes (current file size: 4.3 Kb)
Chunk 2 of 2, 687 bytes (current file size: 12.3 Kb)
== testthat results ===========================================================
[ OK: 154 | SKIPPED: 1 | WARNINGS: 9 | FAILED: 0 ]
>
> proc.time()
user system elapsed
12.95 1.40 32.51
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gep2pep.Rcheck/examples_i386/gep2pep-Ex.timings
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gep2pep.Rcheck/examples_x64/gep2pep-Ex.timings
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