ClassifyR 1.2.4
Dario Strbenac
| Snapshot Date: 2015-10-08 17:20:21 -0700 (Thu, 08 Oct 2015) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_1/madman/Rpacks/ClassifyR | | Last Changed Rev: 105585 / Revision: 109384 | | Last Changed Date: 2015-06-28 18:00:09 -0700 (Sun, 28 Jun 2015) |
| zin2 | Linux (Ubuntu 14.04.2 LTS) / x86_64 | NotNeeded | OK | OK | |  |
| moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | NotNeeded | OK | [ OK ] | OK | |
| petty | Mac OS X Snow Leopard (10.6.8) / x86_64 | NotNeeded | OK | OK | OK | |
| morelia | Mac OS X Mavericks (10.9.5) / x86_64 | NotNeeded | OK | OK | OK | |
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### Running command:
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### rm -rf ClassifyR.buildbin-libdir ClassifyR.Rcheck && mkdir ClassifyR.buildbin-libdir ClassifyR.Rcheck && E:\biocbld\bbs-3.1-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=ClassifyR.buildbin-libdir ClassifyR_1.2.4.tar.gz >ClassifyR.Rcheck\00install.out 2>&1 && cp ClassifyR.Rcheck\00install.out ClassifyR-install.out && E:\biocbld\bbs-3.1-bioc\R\bin\R.exe CMD check --library=ClassifyR.buildbin-libdir --install="check:ClassifyR-install.out" --force-multiarch --no-vignettes --timings ClassifyR_1.2.4.tar.gz
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* using log directory 'E:/biocbld/bbs-3.1-bioc/meat/ClassifyR.Rcheck'
* using R version 3.2.2 (2015-08-14)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'ClassifyR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'ClassifyR' version '1.2.4'
* 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 'ClassifyR' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Title field: should not end in a period.
* 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 ... NOTE
ROCplot,list : .local: no visible binding for global variable 'FPR'
ROCplot,list : .local: no visible binding for global variable 'TPR'
ROCplot,list : .local: no visible binding for global variable
'validation'
ROCplot,list : .local: no visible binding for global variable 'dataset'
ROCplot,list : .local: no visible binding for global variable
'analysis'
TrainParams,ANY : .local: no visible binding for global variable 'dlda'
distribution,ClassifyResult : .local: no visible binding for global
variable '..density..'
errorMap,list : .local: no visible binding for global variable 'Class'
errorMap,list : .local: no visible binding for global variable 'name'
errorMap,list : .local: no visible binding for global variable 'type'
errorMap,list : .local: no visible binding for global variable 'Error'
mixModelsTest,list-ExpressionSet : .local : <anonymous>: no visible
binding for global variable 'classes'
performancePlot,list : .local: no visible binding for global variable
'validation'
performancePlot,list : .local: no visible binding for global variable
'dataset'
performancePlot,list : .local: no visible binding for global variable
'analysis'
plotFeatureClasses,ExpressionSet : .local : <anonymous>: no visible
binding for global variable 'expr'
plotFeatureClasses,ExpressionSet : .local : <anonymous>: no visible
binding for global variable '..density..'
rankPlot,list : .local: no visible binding for global variable 'top'
rankPlot,list : .local: no visible binding for global variable
'overlap'
rankPlot,list : .local: no visible binding for global variable
'validation'
rankPlot,list : .local: no visible binding for global variable
'dataset'
rankPlot,list : .local: no visible binding for global variable
'analysis'
rankPlot,list : .local: no visible global function definition for
'theme'
rankPlot,list : .local: no visible global function definition for
'element_text'
selectionPlot,list : .local: no visible binding for global variable
'validation'
selectionPlot,list : .local: no visible binding for global variable
'dataset'
selectionPlot,list : .local: no visible binding for global variable
'analysis'
selectionPlot,list : .local: no visible binding for global variable
'overlap'
selectionPlot,list : .local: no visible global function definition for
'theme'
selectionPlot,list : .local: no visible global function definition for
'element_text'
* 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' ... [110s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
edgeRselection 24.15 0.45 25.52
distribution 11.29 0.30 17.07
mixmodels 10.78 0.02 11.15
ClassifyResult-class 9.97 0.18 16.63
runTests 9.78 0.25 16.07
runTest 9.36 0.12 9.49
** running examples for arch 'x64' ... [101s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
edgeRselection 25.55 0.44 26.03
mixmodels 10.25 0.02 10.57
distribution 9.16 0.14 14.73
ClassifyResult-class 8.54 0.34 14.74
runTest 7.98 0.14 8.12
runTests 7.12 0.21 14.23
* 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: 2 NOTEs
See
'E:/biocbld/bbs-3.1-bioc/meat/ClassifyR.Rcheck/00check.log'
for details.
install for i386
* installing *source* package 'ClassifyR' ...
** R
** inst
** preparing package for lazy loading
Creating a new generic function for 'performance' in package 'ClassifyR'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
install for x64
* installing *source* package 'ClassifyR' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'ClassifyR' as ClassifyR_1.2.4.zip
* DONE (ClassifyR)