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Package 114/565HostnameOS / ArchBUILDCHECKBUILD BIN
CMA 1.15.0
Christoph Bernau
Snapshot Date: 2012-06-20 15:22:40 -0700 (Wed, 20 Jun 2012)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/CMA
Last Changed Rev: 64680 / Revision: 66885
Last Changed Date: 2012-03-30 15:15:56 -0700 (Fri, 30 Mar 2012)
lamb1 Linux (openSUSE 12.1) / x86_64  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
pitt Mac OS X Leopard (10.5.8) / i386  OK [ OK ] OK 
perceval Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: CMA
Version: 1.15.0
Command: /Library/Frameworks/R.framework/Versions/2.15/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch CMA_1.15.0.tar.gz
StartedAt: 2012-06-20 23:00:02 -0700 (Wed, 20 Jun 2012)
EndedAt: 2012-06-20 23:01:51 -0700 (Wed, 20 Jun 2012)
EllapsedTime: 108.9 seconds
RetCode: 0
Status:  OK 
CheckDir: CMA.Rcheck
Warnings: 0

Command output

* using log directory '/Users/biocbuild/bbs-2.11-bioc/meat/CMA.Rcheck'
* using R version 2.15.0 Patched (2012-04-26 r59216)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'CMA/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'CMA' version '1.15.0'
* 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 whether package 'CMA' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level 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
* 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 for unstated 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
ROCinternal: no visible binding for global variable 'xlab'
ROCinternal: no visible binding for global variable 'ylab'
ROCinternal: no visible binding for global variable 'main'
ROCinternal: no visible binding for global variable 'lwd'
rfe: no visible binding for global variable 'cost'
* 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 sizes of PDF files under 'inst/doc' ... OK
* checking installed files from 'inst/doc' ... NOTE
The following files should probably not be installed:
  'preamble.tex'

Consider the use of a .Rinstignore file: see 'Writing R Extensions',
or move the vignette sources from 'inst/doc' to 'vignettes'.
* checking examples ... 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 vignettes ... SKIPPED
* checking PDF version of manual ... OK

NOTE: There were 2 notes.
See
  '/Users/biocbuild/bbs-2.11-bioc/meat/CMA.Rcheck/00check.log'
for details.

CMA.Rcheck/00install.out:

* installing *source* package 'CMA' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   'CMA_vignette.rnw' 
** testing if installed package can be loaded

* DONE (CMA)

CMA.Rcheck/CMA-Ex.timings:

nameusersystemelapsed
ElasticNetCMA4.2630.1944.554
GeneSelection0.3940.0610.472
GenerateLearningsets0.0210.0010.021
LassoCMA0.7100.0930.807
Planarplot0.4660.0390.512
classification0.0000.0010.001
compBoostCMA1.9270.5302.497
compare0.0000.0000.001
dldaCMA0.3410.0440.390
evaluation0.2410.0100.253
fdaCMA0.1750.0110.189
flexdaCMA0.3690.0230.415
gbmCMA6.3190.0736.444
golub0.0570.0030.061
khan0.0820.0040.086
knnCMA0.3630.0270.407
ldaCMA0.2170.0140.256
nnetCMA0.1520.0110.165
pknnCMA0.2320.0150.248
plrCMA0.8160.0610.895
pls_ldaCMA0.2950.0380.336
pls_lrCMA0.3890.0290.420
pls_rfCMA0.1240.0060.136
pnnCMA0.0710.0040.076
prediction0.0000.0000.001
qdaCMA0.2210.0150.235
rfCMA0.1460.0090.156
scdaCMA0.1870.0260.213
shrinkldaCMA0.2210.0230.250
svmCMA1.0570.0751.150
tune000