Package: randPack

Version: 1.26.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:randPack.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings randPack_1.26.0.tar.gz

StartedAt: 2018-10-16 23:31:35 -0400 (Tue, 16 Oct 2018)

EndedAt: 2018-10-16 23:32:09 -0400 (Tue, 16 Oct 2018)

EllapsedTime: 34.1 seconds

RetCode: 0

Status:  OK

CheckDir: randPack.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:randPack.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings randPack_1.26.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.7-bioc/meat/randPack.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 ‘randPack/DESCRIPTION’ ... OK
* this is package ‘randPack’ version ‘1.26.0’
* 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 ‘randPack’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Non-standard license specification:
  Artistic 2.0
Standardizable: TRUE
Standardized license specification:
  Artistic-2.0
* 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
Package in Depends field not imported from: ‘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
.checkRand2CT : <anonymous>: no visible global function definition for
  ‘is’
.newEBC: no visible global function definition for ‘is’
.newPBlock: no visible global function definition for ‘is’
.newUrn: no visible global function definition for ‘is’
addPData: no visible global function definition for ‘is’
createTrial: no visible global function definition for ‘new’
getCovariates : <anonymous> : <anonymous>: no visible binding for
  global variable ‘slot’
getEnrolleeInfo: no visible global function definition for ‘is’
getTreatment: no visible global function definition for ‘is’
makeRandomizer: no visible global function definition for ‘is’
makeRandomizer: no visible global function definition for ‘new’
trtAlloc: no visible global function definition for ‘is’
validPID: no visible global function definition for ‘is’
show,ClinicalTrial: no visible global function definition for ‘show’
Undefined global functions or variables:
  is new show slot
Consider adding
  importFrom("methods", "is", "new", "show", "slot")
to your NAMESPACE file (and ensure that your DESCRIPTION Imports field
contains 'methods').
* checking Rd files ... NOTE
prepare_Rd: getTreatment.Rd:20-21: Dropping empty section \details
prepare_Rd: getTreatment.Rd:22-23: Dropping empty section \value
prepare_Rd: makeRandomizer.Rd:40-41: Dropping empty section \examples
* 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
* 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: 4 NOTEs
See
  ‘/Users/biocbuild/bbs-3.7-bioc/meat/randPack.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 randPack
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* installing to library ‘/Library/Frameworks/R.framework/Versions/3.5/Resources/library’
* installing *source* package ‘randPack’ ...
** R
** data
** inst
** 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 (randPack)

name	user	system	elapsed
CT1	0.016	0.003	0.018
ClinicalExperiment-class	0.003	0.001	0.004
ClinicalTrial-class	0.003	0.001	0.003
PatientData-class	0.001	0.000	0.002
PatientID-class	0.002	0.000	0.003
Randomizer-class	0.001	0.000	0.002
SampleData	0.007	0.001	0.008
createTrial	0.005	0.000	0.005
getEnrolleeInfo	0.003	0.001	0.003
getTreatment	0.005	0.002	0.006
minimizePocSim	0.004	0.001	0.005
simPats	0.006	0.001	0.007
treatmentNames	0.002	0.001	0.002