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BioC experimental data: CHECK report for RNAinteractMAPK on linux2.bioconductor.org

This page was generated on 2015-10-24 19:25:28 -0400 (Sat, 24 Oct 2015).

Package 203/257HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
RNAinteractMAPK 1.9.0
Bernd Fischer
Snapshot Date: 2015-10-24 10:15:05 -0400 (Sat, 24 Oct 2015)
URL: https://hedgehog.fhcrc.org/bioc-data/trunk/experiment/pkgs/RNAinteractMAPK
Last Changed Rev: 3462 / Revision: 3473
Last Changed Date: 2015-10-13 16:20:35 -0400 (Tue, 13 Oct 2015)
linux2.bioconductor.org Linux (Ubuntu 14.04.2 LTS) / x86_64  OK  OK [ OK ]UNNEEDED, same version exists in internal repository
windows2.bioconductor.org Windows Server 2012 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK  OK 
morelia Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  OK  OK 

Summary

Package: RNAinteractMAPK
Version: 1.9.0
Command: /home/biocbuild/bbs-3.3-bioc/R/bin/R CMD check --no-vignettes --timings RNAinteractMAPK_1.9.0.tar.gz
StartedAt: 2015-10-24 12:40:51 -0400 (Sat, 24 Oct 2015)
EndedAt: 2015-10-24 12:43:27 -0400 (Sat, 24 Oct 2015)
EllapsedTime: 156.3 seconds
RetCode: 0
Status:  OK 
CheckDir: RNAinteractMAPK.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 RNAinteractMAPK_1.9.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.3-data-experiment/meat/RNAinteractMAPK.Rcheck’
* using R Under development (unstable) (2015-09-09 r69333)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘RNAinteractMAPK/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘RNAinteractMAPK’ version ‘1.9.0’
* 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 ‘RNAinteractMAPK’ can be installed ... [15s/15s] OK
* checking installed package size ... NOTE
  installed size is 11.3Mb
  sub-directories of 1Mb or more:
    data      6.7Mb
    extdata   3.6Mb
* 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 ... NOTE
Namespace in Imports field not imported from: ‘genefilter’
  All declared Imports should be used.
Packages in Depends field not imported from:
  ‘fields’ ‘methods’
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
MAPK.cv.TPS: no visible global function definition for ‘Tps’
MAPK.estimate.TPS: no visible global function definition for ‘Tps’
MAPK.getXY: no visible global function definition for ‘rowMin’
MAPK.plot.TPS.all: no visible global function definition for
  ‘levelplot’
MAPK.plot.TPS.all : <anonymous>: no visible global function definition
  for ‘panel.levelplot’
MAPK.plot.TPS.all : <anonymous>: no visible global function definition
  for ‘panel.contourplot’
MAPK.plot.TPS.single: no visible global function definition for
  ‘levelplot’
MAPK.plot.TPS.single : <anonymous>: no visible global function
  definition for ‘panel.contourplot’
Undefined global functions or variables:
  Tps levelplot panel.contourplot panel.levelplot rowMin
* 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 installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [10s/10s] 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: 3 NOTEs
See
  ‘/home/biocbuild/bbs-3.3-data-experiment/meat/RNAinteractMAPK.Rcheck/00check.log’
for details.


RNAinteractMAPK.Rcheck/00install.out:

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

RNAinteractMAPK.Rcheck/RNAinteractMAPK-Ex.timings:

nameusersystemelapsed
Dmel2PPMAPK2.1950.2632.458
ElpB1phenotype0.0020.0040.005
Networks0.0050.0000.005
PhysicalInteractions0.0030.0000.003
RNAinteractMAPK-package1.5740.0151.590
cellTiterGlo0.0050.0000.005
dsRNAiDilutionSeriesData0.0300.0360.067
mRNAdoubleKDefficiency0.0050.0000.005
mRNAsingleKDefficiency0.0040.0000.005
pathwayMembership0.0020.0000.003
singleKDphenotype0.0090.0040.013