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BioC experimental data: CHECK report for COSMIC.67 on petty

This page was generated on 2014-10-04 17:43:48 -0700 (Sat, 04 Oct 2014).

Package 47/197HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
COSMIC.67 1.0.0
Julian Gehring
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/COSMIC.67
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: COSMIC.67
Version: 1.0.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch COSMIC.67_1.0.0.tar.gz
StartedAt: 2014-10-04 09:02:01 -0700 (Sat, 04 Oct 2014)
EndedAt: 2014-10-04 09:07:51 -0700 (Sat, 04 Oct 2014)
EllapsedTime: 350.8 seconds
RetCode: 0
Status:  OK 
CheckDir: COSMIC.67.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 COSMIC.67_1.0.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-2.14-data-experiment/meat/COSMIC.67.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 ‘COSMIC.67/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘COSMIC.67’ version ‘1.0.0’
* package encoding: UTF-8
* 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 ‘COSMIC.67’ can be installed ... [25s/26s] OK
* checking installed package size ... NOTE
  installed size is 39.3Mb
  sub-directories of 1Mb or more:
    data  16.6Mb
    vcf   22.5Mb
* 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 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 ... 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 ... NOTE
  'BiocParallel' did not register default BiocParallelParams
* 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 ... [35s/35s] OK
Examples with CPU or elapsed time > 5s
                    user system elapsed
COSMIC.67-package 21.496  0.473  22.344
* checking for unstated dependencies in tests ... OK
* checking tests ...
  Running ‘test_all.R’ [13s/13s]
 [13s/13s] 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-data-experiment/meat/COSMIC.67.Rcheck/00check.log’
for details.

COSMIC.67.Rcheck/00install.out:

* installing *source* package ‘COSMIC.67’ ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (COSMIC.67)

COSMIC.67.Rcheck/COSMIC.67-Ex.timings:

nameusersystemelapsed
COSMIC.67-package21.496 0.47322.344