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BioC experimental data: CHECK report for ind1KG on zin1

This page was generated on 2016-04-23 10:54:43 -0700 (Sat, 23 Apr 2016).

Package 133/257HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
ind1KG 0.8.0
VJ Carey
Snapshot Date: 2016-04-20 09:20:20 -0700 (Wed, 20 Apr 2016)
URL: https://hedgehog.fhcrc.org/bioc-data/branches/RELEASE_3_2/experiment/pkgs/ind1KG
Last Changed Rev: 3460 / Revision: 3730
Last Changed Date: 2015-10-13 13:14:23 -0700 (Tue, 13 Oct 2015)
zin1 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK [ OK ]UNNEEDED, same version exists in internal repository

Summary

Package: ind1KG
Version: 0.8.0
Command: /home/biocbuild/bbs-3.2-bioc/R/bin/R CMD check --no-vignettes --timings ind1KG_0.8.0.tar.gz
StartedAt: 2016-04-20 11:37:07 -0700 (Wed, 20 Apr 2016)
EndedAt: 2016-04-20 11:38:27 -0700 (Wed, 20 Apr 2016)
EllapsedTime: 80.5 seconds
RetCode: 0
Status:  OK 
CheckDir: ind1KG.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.2-bioc/R/bin/R CMD check --no-vignettes --timings ind1KG_0.8.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.2-data-experiment/meat/ind1KG.Rcheck’
* using R version 3.2.4 Revised (2016-03-16 r70336)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘ind1KG/DESCRIPTION’ ... OK
* this is package ‘ind1KG’ version ‘0.8.0’
* 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 ‘ind1KG’ can be installed ... [2s/4s] OK
* checking installed package size ... NOTE
  installed size is 181.5Mb
  sub-directories of 1Mb or more:
    data     149.8Mb
    pileups   30.5Mb
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Description field: should contain one or more complete sentences.
* 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 loading without being on the library search path ... 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 ... [18s/18s] OK
Examples with CPU or elapsed time > 5s
      user system elapsed
n240 9.506  0.179   9.695
* 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
* DONE

Status: 2 NOTEs
See
  ‘/home/biocbuild/bbs-3.2-data-experiment/meat/ind1KG.Rcheck/00check.log’
for details.


ind1KG.Rcheck/00install.out:

* installing *source* package ‘ind1KG’ ...
** data
** inst
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (ind1KG)

ind1KG.Rcheck/ind1KG-Ex.timings:

nameusersystemelapsed
c6snp3.5690.0643.630
gw6c6.snp2400.1830.0040.186
n2409.5060.1799.695
oregdf0.0010.0040.004
pup240_500k2.2380.0082.247
pup240_disc0.060.000.06
rsgdf0.0020.0040.006
yri240_60.3580.0000.358