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BioC experimental data: CHECK report for TBX20BamSubset on perceval

This page was generated on 2014-04-04 17:29:18 -0700 (Fri, 04 Apr 2014).

Package 169/181HostnameOS / ArchBUILDCHECKBUILD BIN
TBX20BamSubset 0.99.4
D. Bindreither
Snapshot Date: 2014-04-04 06:15:32 -0700 (Fri, 04 Apr 2014)
URL: https://hedgehog.fhcrc.org/bioc-data/branches/RELEASE_2_13/experiment/pkgs/TBX20BamSubset
Last Changed Rev: 2557 / Revision: 2768
Last Changed Date: 2013-11-01 13:36:05 -0700 (Fri, 01 Nov 2013)
zin1 Linux (Ubuntu 12.04.4 LTS) / x86_64  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  OK [ OK ] OK 

Summary

Package: TBX20BamSubset
Version: 0.99.4
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch TBX20BamSubset_0.99.4.tar.gz
StartedAt: 2014-04-04 11:45:13 -0700 (Fri, 04 Apr 2014)
EndedAt: 2014-04-04 11:50:48 -0700 (Fri, 04 Apr 2014)
EllapsedTime: 334.6 seconds
RetCode: 0
Status:  OK 
CheckDir: TBX20BamSubset.Rcheck
Warnings: 0

Command output

* using log directory ‘/Users/biocbuild/bbs-2.13-data-experiment/meat/TBX20BamSubset.Rcheck’
* using R version 3.0.3 (2014-03-06)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘TBX20BamSubset/DESCRIPTION’ ... OK
* this is package ‘TBX20BamSubset’ version ‘0.99.4’
* 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 ‘TBX20BamSubset’ can be installed ... [15s/17s] OK
* checking installed package size ... NOTE
  installed size is 98.3Mb
  sub-directories of 1Mb or more:
    extdata  98.1Mb
* 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
* 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 ... NOTE
Namespace in Imports field not imported from: ‘xtable’
  All declared Imports should be used.
Package in Depends field not imported from: ‘Rsamtools’
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
See the information on DESCRIPTION files in the chapter ‘Creating R
packages’ of 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 ... 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 ... [9s/9s] 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-2.13-data-experiment/meat/TBX20BamSubset.Rcheck/00check.log’
for details.

TBX20BamSubset.Rcheck/00install.out:

* installing *source* package ‘TBX20BamSubset’ ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (TBX20BamSubset)

TBX20BamSubset.Rcheck/TBX20BamSubset-Ex.timings:

nameusersystemelapsed
TBX20BamSubset-package0.0190.0050.026
getBamFileList0.0170.0070.024