BioC 3.5: CHECK report for OncoScore on tokay2
This page was generated on 2017-10-18 14:25:49 -0400 (Wed, 18 Oct 2017).
OncoScore 1.4.2 Daniele Ramazzotti
Snapshot Date: 2017-10-17 17:00:52 -0400 (Tue, 17 Oct 2017) | URL: https://git.bioconductor.org/packages/OncoScore | Branch: RELEASE_3_5 | Last Commit: 0b426fa | Last Changed Date: 2017-09-29 04:40:45 -0400 (Fri, 29 Sep 2017) |
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | NotNeeded | OK | OK | | |
tokay2 | Windows Server 2012 R2 Standard / x64 | NotNeeded | OK | [ OK ] | OK | |
veracruz2 | OS X 10.11.6 El Capitan / x86_64 | NotNeeded | OK | OK | OK | |
Summary
Package: OncoScore
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Version: 1.4.2
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Command: rm -rf OncoScore.buildbin-libdir OncoScore.Rcheck && mkdir OncoScore.buildbin-libdir OncoScore.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=OncoScore.buildbin-libdir OncoScore_1.4.2.tar.gz >OncoScore.Rcheck\00install.out 2>&1 && cp OncoScore.Rcheck\00install.out OncoScore-install.out && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=OncoScore.buildbin-libdir --install="check:OncoScore-install.out" --force-multiarch --no-vignettes --timings OncoScore_1.4.2.tar.gz
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StartedAt: 2017-10-18 01:48:15 -0400 (Wed, 18 Oct 2017)
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EndedAt: 2017-10-18 01:50:17 -0400 (Wed, 18 Oct 2017)
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EllapsedTime: 122.0 seconds
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RetCode: 0
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Status: OK
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CheckDir: OncoScore.Rcheck
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Warnings: 0
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Command output
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### Running command:
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### rm -rf OncoScore.buildbin-libdir OncoScore.Rcheck && mkdir OncoScore.buildbin-libdir OncoScore.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=OncoScore.buildbin-libdir OncoScore_1.4.2.tar.gz >OncoScore.Rcheck\00install.out 2>&1 && cp OncoScore.Rcheck\00install.out OncoScore-install.out && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=OncoScore.buildbin-libdir --install="check:OncoScore-install.out" --force-multiarch --no-vignettes --timings OncoScore_1.4.2.tar.gz
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* using log directory 'C:/Users/biocbuild/bbs-3.5-bioc/meat/OncoScore.Rcheck'
* using R version 3.4.2 Patched (2017-10-07 r73498)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'OncoScore/DESCRIPTION' ... OK
* this is package 'OncoScore' version '1.4.2'
* 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 'OncoScore' 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
** checking loading without being on the library search path ... 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 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 ... 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 installed files from 'inst/doc' ... 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
OncoScore.Rcheck/00install.out:
install for i386
* installing *source* package 'OncoScore' ...
** R
** data
*** moving datasets to lazyload DB
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
install for x64
* installing *source* package 'OncoScore' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'OncoScore' as OncoScore_1.4.2.zip
* DONE (OncoScore)
OncoScore.Rcheck/examples_i386/OncoScore-Ex.timings:
name | user | system | elapsed
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combine.query.results | 0.01 | 0.02 | 0.03 |
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compute.oncoscore | 0 | 0 | 0 |
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compute.oncoscore.from.region | 0 | 0 | 0 |
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compute.oncoscore.timeseries | 0.11 | 0.00 | 0.11 |
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get.genes.from.biomart | 0 | 0 | 0 |
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perform.query | 0 | 0 | 0 |
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perform.query.from.region | 0 | 0 | 0 |
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perform.query.timeseries | 0.00 | 0.02 | 0.01 |
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plot.oncoscore | 0 | 0 | 0 |
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plot.oncoscore.timeseries | 0.02 | 0.01 | 0.04 |
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OncoScore.Rcheck/examples_x64/OncoScore-Ex.timings:
name | user | system | elapsed
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combine.query.results | 0.20 | 0.00 | 0.21 |
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compute.oncoscore | 0.00 | 0.02 | 0.01 |
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compute.oncoscore.from.region | 0 | 0 | 0 |
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compute.oncoscore.timeseries | 0.12 | 0.00 | 0.12 |
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get.genes.from.biomart | 0 | 0 | 0 |
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perform.query | 0 | 0 | 0 |
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perform.query.from.region | 0 | 0 | 0 |
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perform.query.timeseries | 0.00 | 0.02 | 0.02 |
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plot.oncoscore | 0 | 0 | 0 |
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plot.oncoscore.timeseries | 0.03 | 0.00 | 0.03 |
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