Package: RImmPort

Version: 1.7.2

Command: /home/biocbuild/bbs-3.6-bioc/R/bin/R CMD check --no-vignettes --timings RImmPort_1.7.2.tar.gz

StartedAt: 2018-04-12 02:27:11 -0400 (Thu, 12 Apr 2018)

EndedAt: 2018-04-12 02:27:52 -0400 (Thu, 12 Apr 2018)

EllapsedTime: 41.3 seconds

RetCode: 0

Status:  OK

CheckDir: RImmPort.Rcheck

Warnings: 0

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.6-bioc/R/bin/R CMD check --no-vignettes --timings RImmPort_1.7.2.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.6-bioc/meat/RImmPort.Rcheck’
* using R version 3.4.4 (2018-03-15)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘RImmPort/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘RImmPort’ version ‘1.7.2’
* 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 ‘RImmPort’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is  5.3Mb
  sub-directories of 1Mb or more:
    extdata   3.9Mb
* 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 loading without being on the library search path ... 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 ... NOTE
buildNewSqliteDb: no visible global function definition for
  ‘dbListTables’
Undefined global functions or variables:
  dbListTables
* 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 installed files from ‘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: 2 NOTEs
See
  ‘/home/biocbuild/bbs-3.6-bioc/meat/RImmPort.Rcheck/00check.log’
for details.

* installing *source* package ‘RImmPort’ ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (RImmPort)

name	user	system	elapsed
Events-class	0.760	0.028	0.700
Findings-class	1.432	0.080	1.440
Interventions-class	0.288	0.008	0.221
SpecialPurpose-class	0.236	0.000	0.162
Study-class	0.248	0.008	0.182
TrialDesign-class	0.228	0.012	0.160
buildNewSqliteDb	0.000	0.000	0.002
getAssayDataOfStudies	0.104	0.008	0.111
getDomainCode	0.000	0.000	0.001
getDomainDataOfStudies	0.032	0.004	0.038
getListOfAssayTypes	0.000	0.000	0.001
getListOfDomains	0	0	0
getListOfStudies	0.032	0.004	0.034
getStudiesWithSpecificAssayData	0.124	0.004	0.124
getStudiesWithSpecificDomainData	0.068	0.000	0.069
getStudy	0.288	0.016	0.223
loadSerializedStudyData	0.004	0.000	0.003
mergeDomainAndSupplemental	0.328	0.024	0.225
serialzeStudyData	1.324	0.056	0.886
setImmPortDataSource	0.040	0.000	0.041