David Jimenez-Morales
| Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019) |
| URL: https://git.bioconductor.org/packages/artMS |
| Branch: RELEASE_3_9 |
| Last Commit: 6399484 |
| Last Changed Date: 2019-10-15 02:09:49 -0400 (Tue, 15 Oct 2019) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-10-16 12:42:48 -0400 (Wed, 16 Oct 2019).
| Package 82/1741 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| artMS 1.2.7 David Jimenez-Morales
| 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: artMS |
| Version: 1.2.7 |
| Command: C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:artMS.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings artMS_1.2.7.tar.gz |
| StartedAt: 2019-10-16 01:58:50 -0400 (Wed, 16 Oct 2019) |
| EndedAt: 2019-10-16 02:03:19 -0400 (Wed, 16 Oct 2019) |
| EllapsedTime: 269.0 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: artMS.Rcheck |
| Warnings: 0 |
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### Running command:
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### C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:artMS.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings artMS_1.2.7.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.9-bioc/meat/artMS.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 'artMS/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'artMS' version '1.2.7'
* 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 'artMS' 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 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 ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
artmsEnrichLog2fc 0.99 0.4 5.36
** 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
artMS.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/artMS_1.2.7.tar.gz && rm -rf artMS.buildbin-libdir && mkdir artMS.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=artMS.buildbin-libdir artMS_1.2.7.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL artMS_1.2.7.zip && rm artMS_1.2.7.tar.gz artMS_1.2.7.zip
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100 2493k 100 2493k 0 0 18.4M 0 --:--:-- --:--:-- --:--:-- 19.6M
install for i386
* installing *source* package 'artMS' ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
Warning: replacing previous import 'MASS::select' by 'dplyr::select' when loading 'MSstats'
** help
*** installing help indices
converting help for package 'artMS'
finding HTML links ... done
artmsAnalysisQuantifications html
artmsAnnotateSpecie html
artmsAnnotationUniprot html
artmsAvgIntensityRT html
artmsChangeColumnName html
artmsConvertMetabolomics html
artmsDataPlots html
artmsEnrichLog2fc html
artmsEnrichProfiler html
artmsEvidenceToSAINTq html
artmsEvidenceToSaintExpress html
artmsFilterEvidenceContaminants html
artmsGeneratePhSiteExtended html
artmsIsEvidenceNewVersion html
artmsIsSpeciesSupported html
artmsLeaveOnlyUniprotEntryID html
artmsMapUniprot2Entrez html
artmsMergeEvidenceAndKeys html
artmsMsstatsSummary html
artmsPhosfateOutput html
artmsPhotonOutput html
artmsPlotHeatmapQuant html
artmsProtein2SiteConversion html
artmsQualityControlEvidenceBasic html
artmsQualityControlEvidenceExtended html
artmsQualityControlMetabolomics html
artmsQualityControlSummaryExtended html
artmsQuantification html
artmsResultsWide html
artmsSILACtoLong html
artmsSpectralCounts html
artmsVolcanoPlot html
artmsWriteConfigYamlFile html
artms_config html
artms_data_corum_mito_database html
artms_data_pathogen_LPN html
artms_data_pathogen_TB html
artms_data_ph_evidence html
artms_data_ph_keys html
artms_data_ph_msstats_results html
artms_data_randomDF html
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
Warning: replacing previous import 'MASS::select' by 'dplyr::select' when loading 'MSstats'
** testing if installed package can be loaded from final location
Warning: replacing previous import 'MASS::select' by 'dplyr::select' when loading 'MSstats'
** testing if installed package keeps a record of temporary installation path
install for x64
* installing *source* package 'artMS' ...
** testing if installed package can be loaded
Warning: replacing previous import 'MASS::select' by 'dplyr::select' when loading 'MSstats'
* MD5 sums
packaged installation of 'artMS' as artMS_1.2.7.zip
* DONE (artMS)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'artMS' successfully unpacked and MD5 sums checked
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artMS.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(artMS)
Warning message:
replacing previous import 'MASS::select' by 'dplyr::select' when loading 'MSstats'
>
> test_check("artMS")
== testthat results ===========================================================
[ OK: 2 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 0 ]
>
> proc.time()
user system elapsed
6.56 0.59 7.14
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artMS.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(artMS)
Warning message:
replacing previous import 'MASS::select' by 'dplyr::select' when loading 'MSstats'
>
> test_check("artMS")
== testthat results ===========================================================
[ OK: 2 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 0 ]
>
> proc.time()
user system elapsed
6.79 0.48 7.29
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artMS.Rcheck/examples_i386/artMS-Ex.timings
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artMS.Rcheck/examples_x64/artMS-Ex.timings
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