Back to the "Multiple platform build/check report" A  B  C  D  E  F  G  H  I  J  K  L  M  N  O  P  Q [R] S  T  U  V  W  X  Y  Z 

BioC 3.0: CHECK report for RNAinteract on zin1

This page was generated on 2015-04-10 09:39:17 -0700 (Fri, 10 Apr 2015).

Package 759/933HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
RNAinteract 1.14.0
Bernd Fischer
Snapshot Date: 2015-04-09 16:20:12 -0700 (Thu, 09 Apr 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_0/madman/Rpacks/RNAinteract
Last Changed Rev: 95439 / Revision: 102249
Last Changed Date: 2014-10-13 14:38:33 -0700 (Mon, 13 Oct 2014)
zin1 Linux (Ubuntu 12.04.4 LTS) / x86_64  NotNeeded  OK [ OK ]
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK  OK  OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK  OK  OK 
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK  OK 

Summary

Package: RNAinteract
Version: 1.14.0
Command: /home/biocbuild/bbs-3.0-bioc/R/bin/R CMD check --no-vignettes --timings RNAinteract_1.14.0.tar.gz
StartedAt: 2015-04-10 03:53:44 -0700 (Fri, 10 Apr 2015)
EndedAt: 2015-04-10 03:57:36 -0700 (Fri, 10 Apr 2015)
EllapsedTime: 231.2 seconds
RetCode: 0
Status:  OK 
CheckDir: RNAinteract.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.0-bioc/R/bin/R CMD check --no-vignettes --timings RNAinteract_1.14.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.0-bioc/meat/RNAinteract.Rcheck’
* using R version 3.1.3 (2015-03-09)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘RNAinteract/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘RNAinteract’ version ‘1.14.0’
* 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 ‘RNAinteract’ can be installed ... [20s/21s] 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 dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘ICS’
  All declared Imports should be used.
Packages in Depends field not imported from:
  ‘Biobase’ ‘abind’ ‘locfit’
  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
bindscreens: no visible global function definition for ‘abind’
createCellHTSFromFiles: no visible binding for global variable
  ‘assayDataNew’
normalizePlateEffect: no visible global function definition for
  ‘locfit’
normalizePlateEffect: no visible binding for global variable
  ‘locfit.robust’
* 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 ... [15s/15s] 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

NOTE: There were 2 notes.
See
  ‘/home/biocbuild/bbs-3.0-bioc/meat/RNAinteract.Rcheck/00check.log’
for details.

RNAinteract.Rcheck/00install.out:

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

RNAinteract.Rcheck/RNAinteract-Ex.timings:

nameusersystemelapsed
RNAinteract-class0.0000.0000.003
bindsamples0.4520.0080.458
computePI0.0200.0040.023
computePValues0.1560.0040.162
embedPCA0.0120.0000.013
estimateMainEffect1.2280.0081.236
getData0.1360.0000.135
getMain0.0080.0000.009
getReplicateData0.0080.0000.007
getSampleNames0.0040.0000.004
getScale0.0040.0000.004
grid.sgiHeatmap0.080.000.08
normalizeMainEffectQuery0.3520.0000.350
normalizeMainEffectTemplate0.0560.0040.058
normalizePlateEffect1.4880.0121.519
plotDoublePerturbation0.0680.0000.067
plotHeatmap0.0680.0000.070
reportAnnotation0.0200.0000.023
sgi0.0040.0000.006
sgisubset0.0120.0000.011
startReport0.020.000.02
summarizeSamples0.1440.0000.147