Package: RmiR

Version: 1.36.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:RmiR.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings RmiR_1.36.0.tar.gz

StartedAt: 2018-10-16 23:44:59 -0400 (Tue, 16 Oct 2018)

EndedAt: 2018-10-16 23:46:44 -0400 (Tue, 16 Oct 2018)

EllapsedTime: 104.8 seconds

RetCode: 0

Status:  OK

CheckDir: RmiR.Rcheck

Warnings: 0

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:RmiR.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings RmiR_1.36.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.7-bioc/meat/RmiR.Rcheck’
* using R version 3.5.1 Patched (2018-07-12 r74967)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘RmiR/DESCRIPTION’ ... OK
* this is package ‘RmiR’ version ‘1.36.0’
* 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 ‘RmiR’ can be installed ... OK
* checking installed package size ... OK
* 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 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
'library' or 'require' call to ‘RSVGTipsDevice’ which was already attached by Depends.
  Please remove these calls from your code.
Packages in Depends field not imported from:
  ‘RSVGTipsDevice’ ‘RmiR.Hs.miRNA’
  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
plotRmiRtc: no visible global function definition for ‘devSVGTips’
plotRmiRtc: no visible global function definition for ‘plot’
plotRmiRtc: no visible global function definition for
  ‘setSVGShapeToolTip’
plotRmiRtc: no visible global function definition for ‘setSVGShapeURL’
plotRmiRtc: no visible global function definition for ‘points’
plotRmiRtc: no visible global function definition for ‘lines’
plotRmiRtc: no visible global function definition for ‘legend’
plotRmiRtc: no visible global function definition for ‘dev.off’
readRmiRtc: no visible global function definition for ‘write.table’
Undefined global functions or variables:
  dev.off devSVGTips legend lines plot points setSVGShapeToolTip
  setSVGShapeURL write.table
Consider adding
  importFrom("grDevices", "dev.off")
  importFrom("graphics", "legend", "lines", "plot", "points")
  importFrom("utils", "write.table")
to your NAMESPACE file.
* 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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
             user system elapsed
RmiR       18.540  0.986  20.162
RmiRtc      8.623  0.302   9.048
plotRmiRtc  7.328  0.252   7.626
* 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
  ‘/Users/biocbuild/bbs-3.7-bioc/meat/RmiR.Rcheck/00check.log’
for details.

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL RmiR
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* installing to library ‘/Library/Frameworks/R.framework/Versions/3.5/Resources/library’
* installing *source* package ‘RmiR’ ...
** R
** data
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (RmiR)

name	user	system	elapsed
RmiR	18.540	0.986	20.162
RmiRtc	8.623	0.302	9.048
data	0.02	0.00	0.02
plotRmiRtc	7.328	0.252	7.626