BioC 3.3: CHECK report for Risa on windows2.bioconductor.org
This page was generated on 2015-10-27 12:15:06 -0400 (Tue, 27 Oct 2015).
Risa 1.13.0
Alejandra Gonzalez-Beltran
| Snapshot Date: 2015-10-26 20:20:04 -0400 (Mon, 26 Oct 2015) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/Risa | | Last Changed Rev: 109592 / Revision: 109948 | | Last Changed Date: 2015-10-13 15:59:53 -0400 (Tue, 13 Oct 2015) |
| linux2.bioconductor.org | Linux (Ubuntu 14.04.2 LTS) / x86_64 | NotNeeded | OK | OK | |  |
| windows2.bioconductor.org | Windows Server 2012 R2 Enterprise SP1 (64-bit) / x64 | NotNeeded | OK | [ OK ] | OK | |
Summary
| Package: Risa
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| Version: 1.13.0
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| Command: rm -rf Risa.buildbin-libdir Risa.Rcheck && mkdir Risa.buildbin-libdir Risa.Rcheck && c:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=Risa.buildbin-libdir Risa_1.13.0.tar.gz >Risa.Rcheck\00install.out 2>&1 && cp Risa.Rcheck\00install.out Risa-install.out && c:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD check --library=Risa.buildbin-libdir --install="check:Risa-install.out" --force-multiarch --no-vignettes --timings Risa_1.13.0.tar.gz
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| StartedAt: 2015-10-27 05:36:57 -0400 (Tue, 27 Oct 2015)
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| EndedAt: 2015-10-27 05:40:02 -0400 (Tue, 27 Oct 2015)
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| EllapsedTime: 184.9 seconds
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| RetCode: 0
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| Status: OK
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| CheckDir: Risa.Rcheck
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| Warnings: 0
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Command output
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###
### Running command:
###
### rm -rf Risa.buildbin-libdir Risa.Rcheck && mkdir Risa.buildbin-libdir Risa.Rcheck && c:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=Risa.buildbin-libdir Risa_1.13.0.tar.gz >Risa.Rcheck\00install.out 2>&1 && cp Risa.Rcheck\00install.out Risa-install.out && c:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD check --library=Risa.buildbin-libdir --install="check:Risa-install.out" --force-multiarch --no-vignettes --timings Risa_1.13.0.tar.gz
###
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* using log directory 'c:/biocbld/bbs-3.3-bioc/meat/Risa.Rcheck'
* using R Under development (unstable) (2015-09-22 r69418)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'Risa/DESCRIPTION' ... OK
* this is package 'Risa' version '1.13.0'
* 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 whether package 'Risa' 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... [55s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
processAssayXcmsSet.1factor 24.38 1.42 25.80
processAssayXcmsSet 23.55 1.56 25.11
** running examples for arch 'x64' ... [56s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
processAssayXcmsSet.1factor 25.89 1.39 27.29
processAssayXcmsSet 24.00 1.15 25.15
* 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
Risa.Rcheck/00install.out:
install for i386
* installing *source* package 'Risa' ...
** R
** 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 'Risa' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'Risa' as Risa_1.13.0.zip
* DONE (Risa)
Risa.Rcheck/examples_i386/Risa-Ex.timings:
| name | user | system | elapsed
|
| AssayTab-class | 0 | 0 | 0 |
|
| ISAtab-class | 0 | 0 | 0 |
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| Risa-package | 0.14 | 0.00 | 0.96 |
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| getAnnotatedDataFrameAssay | 0.17 | 0.01 | 0.19 |
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| getExpressionSet | 0.10 | 0.00 | 0.09 |
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| getMIAMEMetadata | 0.14 | 0.00 | 0.14 |
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| getMSAssayFilenames | 0.04 | 0.00 | 0.05 |
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| getMicroarrayAssayFilenames | 0.10 | 0.02 | 0.11 |
|
| getStudyFilename | 0.03 | 0.00 | 0.03 |
|
| isMSAssay | 0.05 | 0.00 | 0.05 |
|
| isMicroarrayAssay | 0.07 | 0.02 | 0.09 |
|
| processAssayXcmsSet.1factor | 24.38 | 1.42 | 25.80 |
|
| processAssayXcmsSet | 23.55 | 1.56 | 25.11 |
|
| readISAtab | 0.18 | 0.09 | 0.28 |
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| updateAssayMetadata | 0.11 | 0.02 | 0.12 |
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| write.assay.file | 0.03 | 0.00 | 0.03 |
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| write.investigation.file | 0.05 | 0.00 | 0.05 |
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| write.isatab | 0.03 | 0.03 | 0.06 |
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| write.study.file | 0.03 | 0.00 | 0.03 |
|
Risa.Rcheck/examples_x64/Risa-Ex.timings:
| name | user | system | elapsed
|
| AssayTab-class | 0 | 0 | 0 |
|
| ISAtab-class | 0 | 0 | 0 |
|
| Risa-package | 0.14 | 0.07 | 0.20 |
|
| getAnnotatedDataFrameAssay | 0.14 | 0.00 | 0.14 |
|
| getExpressionSet | 0.06 | 0.01 | 0.08 |
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| getMIAMEMetadata | 0.08 | 0.02 | 0.10 |
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| getMSAssayFilenames | 0.03 | 0.00 | 0.03 |
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| getMicroarrayAssayFilenames | 0.11 | 0.00 | 0.11 |
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| getStudyFilename | 0.05 | 0.00 | 0.04 |
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| isMSAssay | 0.04 | 0.00 | 0.05 |
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| isMicroarrayAssay | 0.10 | 0.00 | 0.09 |
|
| processAssayXcmsSet.1factor | 25.89 | 1.39 | 27.29 |
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| processAssayXcmsSet | 24.00 | 1.15 | 25.15 |
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| readISAtab | 0.05 | 0.10 | 0.14 |
|
| updateAssayMetadata | 0.07 | 0.00 | 0.08 |
|
| write.assay.file | 0.04 | 0.00 | 0.03 |
|
| write.investigation.file | 0.03 | 0.00 | 0.03 |
|
| write.isatab | 0.03 | 0.00 | 0.03 |
|
| write.study.file | 0.03 | 0.00 | 0.04 |
|