compcodeR 1.2.1 Charlotte Soneson
Snapshot Date: 2015-04-09 16:20:12 -0700 (Thu, 09 Apr 2015) | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_0/madman/Rpacks/compcodeR | Last Changed Rev: 99175 / Revision: 102249 | Last Changed Date: 2015-02-07 01:02:05 -0800 (Sat, 07 Feb 2015) |
| zin1 | Linux (Ubuntu 12.04.4 LTS) / x86_64 | NotNeeded | OK | WARNINGS | |
moscato1 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | NotNeeded | OK | [ WARNINGS ] | OK |
perceval | Mac OS X Snow Leopard (10.6.8) / x86_64 | NotNeeded | OK | WARNINGS | OK |
oaxaca | Mac OS X Mavericks (10.9.5) / x86_64 | NotNeeded | OK | WARNINGS | OK |
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### Running command:
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### rm -rf compcodeR.buildbin-libdir compcodeR.Rcheck && mkdir compcodeR.buildbin-libdir compcodeR.Rcheck && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=compcodeR.buildbin-libdir compcodeR_1.2.1.tar.gz >compcodeR.Rcheck\00install.out 2>&1 && cp compcodeR.Rcheck\00install.out compcodeR-install.out && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD check --library=compcodeR.buildbin-libdir --install="check:compcodeR-install.out" --force-multiarch --no-vignettes --timings compcodeR_1.2.1.tar.gz
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* using log directory 'D:/biocbld/bbs-3.0-bioc/meat/compcodeR.Rcheck'
* using R version 3.1.3 (2015-03-09)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'compcodeR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'compcodeR' version '1.2.1'
* checking package namespace information ... OK
* checking package dependencies ... NOTE
Package which this enhances but not available for checking: 'rpanel'
* 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 'compcodeR' 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
'library' or 'require' call to 'rpanel' in package code.
Please use :: or requireNamespace() instead.
See section 'Suggested packages' in the 'Writing R Extensions' manual.
* 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 ... WARNING
Functions or methods with usage in documentation object 'HTSDiff.createRmd' but not in code:
HTSDiff.createRmd
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... WARNING
'library' or 'require' call not declared from: 'HTSDiff'
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... [245s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
DESeq.nbinom.createRmd 113.80 1.54 115.36
EBSeq.createRmd 18.05 0.08 18.13
show-compData-method 13.99 2.42 16.41
convertcompDataToList 12.99 2.41 15.40
DESeq.GLM.createRmd 15.05 0.16 15.41
baySeq.createRmd 10.07 0.06 10.12
DESeq2.createRmd 6.94 0.32 7.25
NOISeq.prenorm.createRmd 4.85 0.07 5.57
runComparison 4.82 0.10 5.41
** running examples for arch 'x64' ... [218s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
DESeq.nbinom.createRmd 98.62 1.40 100.04
DESeq.GLM.createRmd 17.05 0.20 17.52
show-compData-method 11.97 1.81 13.78
convertcompDataToList 12.09 0.84 12.94
EBSeq.createRmd 12.63 0.06 12.90
baySeq.createRmd 10.54 0.01 10.58
DESeq2.createRmd 6.82 0.16 6.97
NOISeq.prenorm.createRmd 5.02 0.04 5.07
* 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
WARNING: There were 2 warnings.
NOTE: There were 2 notes.
See
'D:/biocbld/bbs-3.0-bioc/meat/compcodeR.Rcheck/00check.log'
for details.
install for i386
* installing *source* package 'compcodeR' ...
** 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 'compcodeR' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'compcodeR' as compcodeR_1.2.1.zip
* DONE (compcodeR)