BioC experimental data: CHECK report for DeSousa2013 on windows1.bioconductor.org
This page was generated on 2015-10-24 18:52:52 -0400 (Sat, 24 Oct 2015).
DeSousa2013 1.6.0
Xin Wang
| Snapshot Date: 2015-10-24 12:50:03 -0400 (Sat, 24 Oct 2015) | | URL: https://hedgehog.fhcrc.org/bioc-data/branches/RELEASE_3_2/experiment/pkgs/DeSousa2013 | | Last Changed Rev: 3460 / Revision: 3473 | | Last Changed Date: 2015-10-13 16:14:23 -0400 (Tue, 13 Oct 2015) |
| linux1.bioconductor.org | Linux (Ubuntu 14.04.2 LTS) / x86_64 | NotNeeded | OK | OK | |  |
| windows1.bioconductor.org | Windows Server 2012 R2 Enterprise SP1 (64-bit) / x64 | NotNeeded | OK | [ OK ] | OK | |
Summary
| Package: DeSousa2013
|
| Version: 1.6.0
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| Command: rm -rf DeSousa2013.buildbin-libdir DeSousa2013.Rcheck && mkdir DeSousa2013.buildbin-libdir DeSousa2013.Rcheck && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=DeSousa2013.buildbin-libdir DeSousa2013_1.6.0.tar.gz >DeSousa2013.Rcheck\00install.out 2>&1 && cp DeSousa2013.Rcheck\00install.out DeSousa2013-install.out && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=DeSousa2013.buildbin-libdir --install="check:DeSousa2013-install.out" --force-multiarch --no-vignettes --timings DeSousa2013_1.6.0.tar.gz
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| StartedAt: 2015-10-24 14:41:26 -0400 (Sat, 24 Oct 2015)
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| EndedAt: 2015-10-24 14:46:40 -0400 (Sat, 24 Oct 2015)
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| EllapsedTime: 313.8 seconds
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| RetCode: 0
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| Status: OK
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| CheckDir: DeSousa2013.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 DeSousa2013.buildbin-libdir DeSousa2013.Rcheck && mkdir DeSousa2013.buildbin-libdir DeSousa2013.Rcheck && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=DeSousa2013.buildbin-libdir DeSousa2013_1.6.0.tar.gz >DeSousa2013.Rcheck\00install.out 2>&1 && cp DeSousa2013.Rcheck\00install.out DeSousa2013-install.out && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=DeSousa2013.buildbin-libdir --install="check:DeSousa2013-install.out" --force-multiarch --no-vignettes --timings DeSousa2013_1.6.0.tar.gz
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* using log directory 'C:/biocbld/bbs-3.2-data-experiment/meat/DeSousa2013.Rcheck'
* using R version 3.2.2 Patched (2015-08-16 r69094)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'DeSousa2013/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'DeSousa2013' version '1.6.0'
* 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 'DeSousa2013' can be installed ... OK
* checking installed package size ... NOTE
installed size is 44.7Mb
sub-directories of 1Mb or more:
data 43.7Mb
* 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 ... NOTE
Namespaces in Imports field not imported from:
'frmaTools' 'hgu133plus2frmavecs' 'rgl'
All declared Imports should be used.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
pbs2unigenes: no visible global function definition for 'mappedkeys'
* 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' ... [35s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
compGapStats 13.28 0.48 13.86
** running examples for arch 'x64' ... [42s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
compGapStats 15.83 0.14 15.99
selTopVarGenes 5.78 0.11 5.89
* 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: 3 NOTEs
See
'C:/biocbld/bbs-3.2-data-experiment/meat/DeSousa2013.Rcheck/00check.log'
for details.
DeSousa2013.Rcheck/00install.out:
install for i386
* installing *source* package 'DeSousa2013' ...
** R
** data
** 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 'DeSousa2013' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'DeSousa2013' as DeSousa2013_1.6.0.zip
* DONE (DeSousa2013)
DeSousa2013.Rcheck/examples_i386/DeSousa2013-Ex.timings:
| name | user | system | elapsed
|
| CRCPipeLine | 0 | 0 | 0 |
|
| buildClassifier | 2.95 | 0.06 | 3.02 |
|
| compGapStats | 13.28 | 0.48 | 13.86 |
|
| conClust | 0.75 | 0.06 | 0.81 |
|
| data-AMC | 0.02 | 0.00 | 0.02 |
|
| filterDiffGenes | 1.2 | 0.0 | 1.2 |
|
| filterSamples | 0.14 | 0.00 | 0.14 |
|
| findDiffGenes | 0.63 | 0.00 | 0.62 |
|
| geneExpPre | 0 | 0 | 0 |
|
| pamClassify | 0.14 | 0.02 | 0.16 |
|
| pbs2unigenes | 3.95 | 0.20 | 4.55 |
|
| progAMC | 0.06 | 0.02 | 0.08 |
|
| selTopVarGenes | 4.19 | 0.06 | 4.25 |
|
DeSousa2013.Rcheck/examples_x64/DeSousa2013-Ex.timings:
| name | user | system | elapsed
|
| CRCPipeLine | 0 | 0 | 0 |
|
| buildClassifier | 3.56 | 0.09 | 3.73 |
|
| compGapStats | 15.83 | 0.14 | 15.99 |
|
| conClust | 0.89 | 0.02 | 1.54 |
|
| data-AMC | 0 | 0 | 0 |
|
| filterDiffGenes | 1.45 | 0.01 | 1.47 |
|
| filterSamples | 0.13 | 0.02 | 0.78 |
|
| findDiffGenes | 0.78 | 0.00 | 0.78 |
|
| geneExpPre | 0 | 0 | 0 |
|
| pamClassify | 0.12 | 0.01 | 0.15 |
|
| pbs2unigenes | 4.52 | 0.17 | 4.68 |
|
| progAMC | 0.11 | 0.00 | 0.11 |
|
| selTopVarGenes | 5.78 | 0.11 | 5.89 |
|