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BioC 3.5: CHECK report for RTN on veracruz2

This page was generated on 2017-08-16 13:31:13 -0400 (Wed, 16 Aug 2017).

Package 1161/1382HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
RTN 1.14.1
Mauro Castro
Snapshot Date: 2017-08-15 17:17:57 -0400 (Tue, 15 Aug 2017)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_5/madman/Rpacks/RTN
Last Changed Rev: 131251 / Revision: 131943
Last Changed Date: 2017-07-15 15:39:32 -0400 (Sat, 15 Jul 2017)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
veracruz2 OS X 10.11.6 El Capitan / x86_64  OK  OK [ OK ] OK UNNEEDED, same version exists in internal repository

Summary

Package: RTN
Version: 1.14.1
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings RTN_1.14.1.tar.gz
StartedAt: 2017-08-16 07:50:27 -0400 (Wed, 16 Aug 2017)
EndedAt: 2017-08-16 07:53:29 -0400 (Wed, 16 Aug 2017)
EllapsedTime: 182.9 seconds
RetCode: 0
Status:  OK 
CheckDir: RTN.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings RTN_1.14.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.5-bioc/meat/RTN.Rcheck’
* using R version 3.4.1 (2017-06-30)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘RTN/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘RTN’ version ‘1.14.1’
* 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 ‘RTN’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 10.4Mb
  sub-directories of 1Mb or more:
    data   9.6Mb
* 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 ... 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 ‘runTests.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: 1 NOTE
See
  ‘/Users/biocbuild/bbs-3.5-bioc/meat/RTN.Rcheck/00check.log’
for details.


RTN.Rcheck/00install.out:

* installing *source* package ‘RTN’ ...
** 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 (RTN)

RTN.Rcheck/RTN-Ex.timings:

nameusersystemelapsed
AVS-class0.0000.0000.001
RTN.data0.8900.0310.940
TNA-class0.0000.0000.001
TNI-class0.8720.0170.909
TNI.data0.1920.0100.204
avs.evse0.0020.0000.003
avs.get0.0010.0000.001
avs.plot10.0010.0010.001
avs.plot20.0010.0000.000
avs.preprocess.LD1000gRel201305020.0000.0000.001
avs.preprocess.LDHapMapRel270.0000.0000.001
avs.vse0.0020.0000.003
tna.get1.1440.0171.204
tna.graph0.8410.0220.885
tna.gsea10.8220.0160.868
tna.gsea20.8780.0180.912
tna.mra0.8080.0150.839
tna.overlap0.8540.0160.897
tna.plot.gsea10.8430.0140.895
tna.plot.gsea20.8210.0160.843
tna.shadow0.8180.0140.851
tna.synergy0.8760.0140.912
tni.bootstrap0.7650.0140.803
tni.conditional0.7630.0140.808
tni.dpi.filter0.7890.0150.817
tni.get0.7570.0140.794
tni.graph0.7620.0140.791
tni.gsea20.9980.0141.035
tni.permutation0.6870.0130.735
tni.preprocess1.7100.0581.810
tni2tna.preprocess0.7610.0140.805