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BioC experimental data: CHECK report for pRolocdata on perceval

This page was generated on 2015-04-08 17:41:34 -0700 (Wed, 08 Apr 2015).

Package 172/219HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
pRolocdata 1.4.1
Laurent Gatto
Snapshot Date: 2015-04-08 06:15:26 -0700 (Wed, 08 Apr 2015)
URL: https://hedgehog.fhcrc.org/bioc-data/branches/RELEASE_3_0/experiment/pkgs/pRolocdata
Last Changed Rev: 3106 / Revision: 3266
Last Changed Date: 2014-11-15 16:52:34 -0800 (Sat, 15 Nov 2014)
zin1 Linux (Ubuntu 12.04.4 LTS) / x86_64  OK  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK  OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK [ OK ] OK 

Summary

Package: pRolocdata
Version: 1.4.1
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch pRolocdata_1.4.1.tar.gz
StartedAt: 2015-04-08 10:28:05 -0700 (Wed, 08 Apr 2015)
EndedAt: 2015-04-08 10:32:44 -0700 (Wed, 08 Apr 2015)
EllapsedTime: 279.7 seconds
RetCode: 0
Status:  OK 
CheckDir: pRolocdata.Rcheck
Warnings: 0

Command output

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch pRolocdata_1.4.1.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.0-data-experiment/meat/pRolocdata.Rcheck’
* using R version 3.1.3 (2015-03-09)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘pRolocdata/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘pRolocdata’ version ‘1.4.1’
* 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 ... NOTE
Found the following non-portable file path:
  pRolocdata/inst/extdata/E14TG2a_2011/E14TG2a_2011_12_relaxedsettings/E14TG2a_2011_12_1p2_proteins.csv

Tarballs are only required to store paths of up to 100 bytes and cannot
store those of more than 256 bytes, with restrictions including to 100
bytes for the final component.
See section ‘Package structure’ in the ‘Writing R Extensions’ manual.
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘pRolocdata’ can be installed ... [24s/28s] OK
* checking installed package size ... NOTE
  installed size is 40.8Mb
  sub-directories of 1Mb or more:
    data      2.0Mb
    extdata  38.7Mb
* checking package 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
* 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 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
pRolocmetadata: no visible global function definition for
  ‘experimentData’
pRolocmetadata: no visible global function definition for ‘pubMedIds’
pRolocmetadata: no visible global function definition for ‘otherInfo’
* 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 examples ... [34s/36s] OK
Examples with CPU or elapsed time > 5s
            user system elapsed
hall2009  11.449  0.377  12.843
groen2014  6.417  0.051   6.508
* checking PDF version of manual ... OK
* DONE

NOTE: There were 3 notes.
See
  ‘/Users/biocbuild/bbs-3.0-data-experiment/meat/pRolocdata.Rcheck/00check.log’
for details.

pRolocdata.Rcheck/00install.out:

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

pRolocdata.Rcheck/pRolocdata-Ex.timings:

nameusersystemelapsed
E14TG2a0.0380.0070.178
andy20110.0360.0060.043
at_chloro0.1710.0150.187
dunkley20060.0210.0060.026
foster20060.3530.0070.366
groen20146.4170.0516.508
hall200911.449 0.37712.843
nikolovski20121.6300.0561.729
nikolovski20140.9710.0491.080
pRolocdata0.0120.0190.149
pRolocmetadata0.0230.0110.035
tan20090.0270.0070.034
trotter20100.8440.0371.150