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BioC experimental data: CHECK report for FANTOM3and4CAGE on petty

This page was generated on 2014-10-04 17:43:33 -0700 (Sat, 04 Oct 2014).

Package 69/197HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
FANTOM3and4CAGE 1.0.0
Vanja Haberle
Snapshot Date: 2014-10-04 07:15:22 -0700 (Sat, 04 Oct 2014)
URL: https://hedgehog.fhcrc.org/bioc-data/branches/RELEASE_2_14/experiment/pkgs/FANTOM3and4CAGE
Last Changed Rev: 2799 / Revision: 3055
Last Changed Date: 2014-04-11 14:27:08 -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 

Summary

Package: FANTOM3and4CAGE
Version: 1.0.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch FANTOM3and4CAGE_1.0.0.tar.gz
StartedAt: 2014-10-04 09:11:05 -0700 (Sat, 04 Oct 2014)
EndedAt: 2014-10-04 09:12:18 -0700 (Sat, 04 Oct 2014)
EllapsedTime: 73.2 seconds
RetCode: 0
Status:  OK 
CheckDir: FANTOM3and4CAGE.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 FANTOM3and4CAGE_1.0.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-2.14-data-experiment/meat/FANTOM3and4CAGE.Rcheck’
* using R version 3.1.1 (2014-07-10)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘FANTOM3and4CAGE/DESCRIPTION’ ... OK
* this is package ‘FANTOM3and4CAGE’ version ‘1.0.0’
* 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 ‘FANTOM3and4CAGE’ can be installed ... [1s/3s] OK
* checking installed package size ... NOTE
  installed size is 34.6Mb
  sub-directories of 1Mb or more:
    data  34.3Mb
* 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 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 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’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [24s/24s] OK
Examples with CPU or elapsed time > 5s
                            user system elapsed
FANTOMtissueCAGEhuman     11.674  0.472  12.146
FANTOMtimecourseCAGEhuman  5.626  0.340   5.967
FANTOMtissueCAGEmouse      4.576  0.479   5.063
* 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 was 1 note.
See
  ‘/Users/biocbuild/bbs-2.14-data-experiment/meat/FANTOM3and4CAGE.Rcheck/00check.log’
for details.

FANTOM3and4CAGE.Rcheck/00install.out:

* installing *source* package ‘FANTOM3and4CAGE’ ...
** data
** inst
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (FANTOM3and4CAGE)

FANTOM3and4CAGE.Rcheck/FANTOM3and4CAGE-Ex.timings:

nameusersystemelapsed
FANTOMhumanSamples0.0370.0040.041
FANTOMmouseSamples0.0050.0020.006
FANTOMtimecourseCAGEhuman5.6260.3405.967
FANTOMtimecourseCAGEmouse0.3850.0500.435
FANTOMtissueCAGEhuman11.674 0.47212.146
FANTOMtissueCAGEmouse4.5760.4795.063