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Package 356/389HostnameOS / ArchBUILDCHECKBUILD BIN
SpeCond 1.2.0
Florence Cavalli
Snapshot Date: 2010-10-04 11:22:20 -0700 (Mon, 04 Oct 2010)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_6/madman/Rpacks/SpeCond
Last Changed Rev: 46401 / Revision: 49923
Last Changed Date: 2010-04-22 11:21:23 -0700 (Thu, 22 Apr 2010)
wilson1 Linux (openSUSE 11.1) / x86_64  OK [ OK ]
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK  OK 
gewurz Windows Server 2008 R2 Enterprise (64-bit) / x64  OK  OK  OK 
pelham Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: SpeCond
Version: 1.2.0
Command: /home/biocbuild/bbs-2.6-bioc/R/bin/R CMD check --no-vignettes --timings SpeCond_1.2.0.tar.gz
StartedAt: 2010-10-04 20:01:03 -0700 (Mon, 04 Oct 2010)
EndedAt: 2010-10-04 20:03:28 -0700 (Mon, 04 Oct 2010)
EllapsedTime: 144.5 seconds
RetCode: 0
Status:  OK 
CheckDir: SpeCond.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory '/loc/home/biocbuild/bbs-2.6-bioc/meat/SpeCond.Rcheck'
* using R version 2.11.1 (2010-05-31)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'SpeCond/DESCRIPTION' ... OK
* this is package 'SpeCond' version '1.2.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'SpeCond' can be installed ... 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 name space can be loaded with stated dependencies ... OK
* checking whether the name space 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 ... 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 ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking data for non-ASCII characters ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK

SpeCond.Rcheck/00install.out:

* install options are ' --no-html'

* installing *source* package 'SpeCond' ...
** R
** data
** inst
** preparing package for lazy loading

by using mclust, invoked on its own or through another package,
you accept the license agreement in the mclust LICENSE file
and at http://www.stat.washington.edu/mclust/license.txt


Welcome to Bioconductor

  Vignettes contain introductory material. To view, type
  'openVignette()'. To cite Bioconductor, see
  'citation("Biobase")' and for packages 'citation(pkgname)'.

Loading required package: spam
Package 'spam' is loaded. Spam version 0.23-0 (2010-09-01).
Type demo( spam) for some demos, help( Spam) for an overview
of this package.
Help for individual functions is optained by adding the
suffix '.spam' to the function name, e.g. 'help(chol.spam)'.

Attaching package: 'spam'

The following object(s) are masked from 'package:base':

    backsolve, forwardsolve, norm

 Use help(fields) for an overview of this library

library( fields, keep.source=TRUE) retains comments in the source code. 
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (SpeCond)

SpeCond.Rcheck/SpeCond-Ex.timings:

nameusersystemelapsed
SpeCond8.0360.0248.096
createParameterMatrix0.0000.0000.001
expSetSpeCondExample0.0040.0000.005
expressionSpeCondExample0.0000.0000.003
fitNoPriorWithExclusion7.0570.0407.104
fitPrior5.2240.0205.344
getDefaultParameter0.0000.0000.001
getFullHtmlSpeCondResult12.617 0.14812.781
getGeneHtmlPage13.048 0.11613.221
getMatrixFromExpressionSet0.4760.0000.477
getProfile10.513 0.03610.715
getSpecificOutliersStep16.4770.0206.493
getSpecificResult10.404 0.03210.441
simulatedSpeCondData0.0120.0000.011
writeGeneResult10.317 0.05610.420
writeSpeCondResult10.577 0.04010.635
writeUniqueProfileSpecificResult10.264 0.02010.286