ARRmNormalization 1.10.0
Jean-Philippe Fortin
| Snapshot Date: 2015-10-26 19:24:07 -0400 (Mon, 26 Oct 2015) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_2/madman/Rpacks/ARRmNormalization | | Last Changed Rev: 109589 / Revision: 109947 | | Last Changed Date: 2015-10-13 15:36:05 -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 | |
| perceval | Mac OS X Snow Leopard (10.6.8) / x86_64 | NotNeeded | OK | OK | OK | |
| oaxaca | 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 ARRmNormalization.buildbin-libdir ARRmNormalization.Rcheck && mkdir ARRmNormalization.buildbin-libdir ARRmNormalization.Rcheck && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=ARRmNormalization.buildbin-libdir ARRmNormalization_1.10.0.tar.gz >ARRmNormalization.Rcheck\00install.out 2>&1 && cp ARRmNormalization.Rcheck\00install.out ARRmNormalization-install.out && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=ARRmNormalization.buildbin-libdir --install="check:ARRmNormalization-install.out" --force-multiarch --no-vignettes --timings ARRmNormalization_1.10.0.tar.gz
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* using log directory 'C:/biocbld/bbs-3.2-bioc/meat/ARRmNormalization.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 'ARRmNormalization/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'ARRmNormalization' version '1.10.0'
* 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 'ARRmNormalization' 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 ... NOTE
Package in Depends field not imported from: 'ARRmData'
These packages need to be imported from (in the NAMESPACE file)
for when this namespace is loaded but not attached.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
getQuantiles: no visible binding for global variable 'ProbesType'
normalizeARRm: no visible binding for global variable 'ProbesType'
* 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' ... [83s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
normalizeARRm 34.69 3.19 37.87
getCoefficients 11.95 0.70 12.67
positionPlots 9.81 0.78 10.61
getQuantiles 9.61 0.92 10.53
quantilePlots 9.57 0.67 10.23
** running examples for arch 'x64' ... [86s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
normalizeARRm 37.06 2.94 40.00
getCoefficients 12.04 1.00 13.05
getQuantiles 9.97 0.90 10.88
quantilePlots 9.52 0.82 10.35
positionPlots 9.85 0.38 10.22
* 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
'C:/biocbld/bbs-3.2-bioc/meat/ARRmNormalization.Rcheck/00check.log'
for details.
install for i386
* installing *source* package 'ARRmNormalization' ...
** 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 'ARRmNormalization' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'ARRmNormalization' as ARRmNormalization_1.10.0.zip
* DONE (ARRmNormalization)