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BioC 3.3: CHECK report for OncoScore on zin2

This page was generated on 2016-10-13 12:46:34 -0700 (Thu, 13 Oct 2016).

Package 805/1210HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
OncoScore 1.0.2
Daniele Ramazzotti
Snapshot Date: 2016-10-12 17:20:15 -0700 (Wed, 12 Oct 2016)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_3/madman/Rpacks/OncoScore
Last Changed Rev: 121478 / Revision: 122332
Last Changed Date: 2016-09-28 05:18:17 -0700 (Wed, 28 Sep 2016)
zin2 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK [ OK ]UNNEEDED, same version exists in internal repository
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: OncoScore
Version: 1.0.2
Command: /home/biocbuild/bbs-3.3-bioc/R/bin/R CMD check --no-vignettes --timings OncoScore_1.0.2.tar.gz
StartedAt: 2016-10-13 04:54:17 -0700 (Thu, 13 Oct 2016)
EndedAt: 2016-10-13 04:55:20 -0700 (Thu, 13 Oct 2016)
EllapsedTime: 63.4 seconds
RetCode: 0
Status:  OK 
CheckDir: OncoScore.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### Running command:
###
###   /home/biocbuild/bbs-3.3-bioc/R/bin/R CMD check --no-vignettes --timings OncoScore_1.0.2.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.3-bioc/meat/OncoScore.Rcheck’
* using R version 3.3.1 (2016-06-21)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘OncoScore/DESCRIPTION’ ... OK
* this is package ‘OncoScore’ version ‘1.0.2’
* 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 ‘OncoScore’ can be installed ... OK
* checking installed package size ... OK
* 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 ... 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 ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 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
* DONE

Status: OK

OncoScore.Rcheck/00install.out:

* installing *source* package ‘OncoScore’ ...
** R
** data
*** moving datasets to lazyload DB
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (OncoScore)

OncoScore.Rcheck/OncoScore-Ex.timings:

nameusersystemelapsed
compute.oncoscore0.0180.0040.022
compute.oncoscore.from.region0.0000.0000.001
compute.oncoscore.timeseries0.0030.0040.006
get.genes.from.biomart000
perform.query0.0020.0000.002
perform.query.timeseries0.0030.0000.002
plot.oncoscore0.0040.0000.005
plot.oncoscore.timeseries0.0110.0000.010