BioC 3.3: CHECK report for clipper on windows2.bioconductor.org
This page was generated on 2015-10-27 12:15:11 -0400 (Tue, 27 Oct 2015).
clipper 1.11.0
Paolo Martini
| Snapshot Date: 2015-10-26 20:20:04 -0400 (Mon, 26 Oct 2015) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/clipper | | 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 | OK | OK | OK | |  |
| windows2.bioconductor.org | Windows Server 2012 R2 Enterprise SP1 (64-bit) / x64 | OK | OK | [ OK ] | OK | |
Summary
| Package: clipper
|
| Version: 1.11.0
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| Command: rm -rf clipper.buildbin-libdir clipper.Rcheck && mkdir clipper.buildbin-libdir clipper.Rcheck && c:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=clipper.buildbin-libdir clipper_1.11.0.tar.gz >clipper.Rcheck\00install.out 2>&1 && cp clipper.Rcheck\00install.out clipper-install.out && c:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD check --library=clipper.buildbin-libdir --install="check:clipper-install.out" --force-multiarch --no-vignettes --timings clipper_1.11.0.tar.gz
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| StartedAt: 2015-10-27 01:23:47 -0400 (Tue, 27 Oct 2015)
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| EndedAt: 2015-10-27 01:29:10 -0400 (Tue, 27 Oct 2015)
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| EllapsedTime: 323.6 seconds
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| RetCode: 0
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| Status: OK
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| CheckDir: clipper.Rcheck
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| Warnings: 0
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Command output
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### Running command:
###
### rm -rf clipper.buildbin-libdir clipper.Rcheck && mkdir clipper.buildbin-libdir clipper.Rcheck && c:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=clipper.buildbin-libdir clipper_1.11.0.tar.gz >clipper.Rcheck\00install.out 2>&1 && cp clipper.Rcheck\00install.out clipper-install.out && c:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD check --library=clipper.buildbin-libdir --install="check:clipper-install.out" --force-multiarch --no-vignettes --timings clipper_1.11.0.tar.gz
###
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* using log directory 'c:/biocbld/bbs-3.3-bioc/meat/clipper.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 'clipper/DESCRIPTION' ... OK
* this is package 'clipper' version '1.11.0'
* 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 'clipper' 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' ... [44s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
clipperAllRoots 9.72 0.03 9.75
pathwayTest 7.28 0.14 7.42
clipper 5.02 0.08 5.13
** running examples for arch 'x64' ... [44s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
clipperAllRoots 10.33 0.05 10.37
pathwayTest 7.61 0.03 7.64
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
Running 'runTests.R' [10s]
[11s] OK
** running tests for arch 'x64' ...
Running 'runTests.R' [13s]
[13s] 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
clipper.Rcheck/00install.out:
install for i386
* installing *source* package 'clipper' ...
** 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 'clipper' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'clipper' as clipper_1.11.0.zip
* DONE (clipper)
clipper.Rcheck/examples_i386/clipper-Ex.timings:
| name | user | system | elapsed
|
| clipper | 5.02 | 0.08 | 5.13 |
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| clipperAllRoots | 9.72 | 0.03 | 9.75 |
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| cliqueMeanTest | 2.49 | 0.09 | 2.58 |
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| cliqueMixedTest | 2.95 | 0.11 | 3.06 |
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| cliquePairedTest | 2.98 | 0.06 | 3.05 |
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| cliqueVarianceTest | 2.86 | 0.07 | 2.93 |
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| deleteEdge | 0.18 | 0.04 | 0.24 |
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| easyClip | 2.88 | 0.03 | 2.90 |
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| getGraphEntryGenes | 0.17 | 0.00 | 0.17 |
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| getJunctionTreePaths | 0.17 | 0.02 | 0.19 |
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| nameCliques | 0 | 0 | 0 |
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| pathwayTest | 7.28 | 0.14 | 7.42 |
|
| plotInCytoscape | 0 | 0 | 0 |
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| prunePaths | 0 | 0 | 0 |
|
clipper.Rcheck/examples_x64/clipper-Ex.timings:
| name | user | system | elapsed
|
| clipper | 4.72 | 0.03 | 4.75 |
|
| clipperAllRoots | 10.33 | 0.05 | 10.37 |
|
| cliqueMeanTest | 2.56 | 0.05 | 2.61 |
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| cliqueMixedTest | 2.58 | 0.03 | 2.61 |
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| cliquePairedTest | 2.88 | 0.00 | 2.87 |
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| cliqueVarianceTest | 2.53 | 0.02 | 2.55 |
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| deleteEdge | 0.17 | 0.00 | 0.17 |
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| easyClip | 2.47 | 0.00 | 2.47 |
|
| getGraphEntryGenes | 0.21 | 0.00 | 0.21 |
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| getJunctionTreePaths | 0.18 | 0.00 | 0.18 |
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| nameCliques | 0.00 | 0.00 | 0.02 |
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| pathwayTest | 7.61 | 0.03 | 7.64 |
|
| plotInCytoscape | 0 | 0 | 0 |
|
| prunePaths | 0 | 0 | 0 |
|