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BioC 2.14: CHECK report for PROcess on morelia

This page was generated on 2014-10-08 09:02:14 -0700 (Wed, 08 Oct 2014).

Package 602/824HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
PROcess 1.40.0
Xiaochun Li
Snapshot Date: 2014-10-07 17:20:37 -0700 (Tue, 07 Oct 2014)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_14/madman/Rpacks/PROcess
Last Changed Rev: 88838 / Revision: 95116
Last Changed Date: 2014-04-11 14:07:21 -0700 (Fri, 11 Apr 2014)
zin2 Linux (Ubuntu 12.04.4 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 

Summary

Package: PROcess
Version: 1.40.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch PROcess_1.40.0.tar.gz
StartedAt: 2014-10-08 00:48:34 -0700 (Wed, 08 Oct 2014)
EndedAt: 2014-10-08 00:49:16 -0700 (Wed, 08 Oct 2014)
EllapsedTime: 41.6 seconds
RetCode: 0
Status:  OK 
CheckDir: PROcess.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch PROcess_1.40.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-2.14-bioc/meat/PROcess.Rcheck’
* using R version 3.1.1 (2014-07-10)
* using platform: x86_64-apple-darwin13.1.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘PROcess/DESCRIPTION’ ... OK
* this is package ‘PROcess’ version ‘1.40.0’
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘PROcess’ can be installed ... [1s/2s] OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Package listed in more than one of Depends, Imports, Suggests, Enhances:
  ‘Icens’
A package should be listed in only one of these fields.
* 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
* 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
gelmap: warning in axis(1, at = at.mz, lab = at.mz, las = 2, lty = 0,
  cex.axis = 0.8): partial argument match of 'lab' to 'labels'
gelmap: warning in axis(2, at = at.col, lab = sampLab[at.col], las = 2,
  lty = 0, cex.axis = cexCol): partial argument match of 'lab' to
  'labels'
* 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 sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [17s/18s] 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 vignette outputs ... SKIPPED
* checking PDF version of manual ... OK

NOTE: There were 2 notes.
See
  ‘/Users/biocbuild/bbs-2.14-bioc/meat/PROcess.Rcheck/00check.log’
for details.

PROcess.Rcheck/00install.out:

* installing *source* package ‘PROcess’ ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (PROcess)

PROcess.Rcheck/PROcess-Ex.timings:

nameusersystemelapsed
aveSpec0.4760.0070.483
bslnoff0.5020.0070.510
getPeaks2.7010.0613.574
intg0.0020.0000.001
is.multiple0.0020.0000.002
isPeak1.8600.0471.918
peaks0.0480.0010.051
pk2bmkr2.7890.0402.850
quality4.0560.0824.170
renorm0.8830.0070.891
rmBaseline0.8950.0070.904
specZoom2.0270.0462.110