Multiple platform build/check report for BioC 3.9 - CHECK report for SPLINTER on merida2

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:SPLINTER.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings SPLINTER_1.9.1.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.9-bioc/meat/SPLINTER.Rcheck’
* using R Under development (unstable) (2018-11-27 r75683)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘SPLINTER/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘SPLINTER’ version ‘1.9.1’
* package encoding: UTF-8
* 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 ‘SPLINTER’ can be installed ... 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 ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* 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
eventPlot            11.400  0.355  11.893
getPCRsizes           5.084  0.243   5.406
addEnsemblAnnotation  0.238  0.018  18.868
* 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: OK

Installation output

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL SPLINTER
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* installing to library ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library’
* installing *source* package ‘SPLINTER’ ...
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
Creating a generic function for 'toJSON' from package 'jsonlite' in package 'googleVis'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
Creating a generic function for 'toJSON' from package 'jsonlite' in package 'googleVis'
* DONE (SPLINTER)

Tests output

Example timings

name	user	system	elapsed
acceptor.m	0.003	0.001	0.004
addEnsemblAnnotation	0.238	0.018	18.868
callPrimer3	0.000	0.000	0.001
checkPrimer	0.079	0.003	0.081
compatible_cds	0.001	0.001	0.002
compatible_tx	0.001	0.000	0.001
donor.m	0.001	0.000	0.002
eventOutcomeCompare	1.608	0.054	1.672
eventOutcomeTranslate	0.462	0.008	0.473
eventPlot	11.400	0.355	11.893
extendROI	0.945	0.051	1.001
extractSpliceEvents	0.005	0.000	0.005
extractSpliceSites	0.106	0.000	0.108
findCompatibleEvents	0.381	0.001	0.383
findCompatibleExon	0.259	0.000	0.260
findTX	0.009	0.000	0.009
getPCRsizes	5.084	0.243	5.406
getRegionDNA	0.379	0.009	0.398
insertRegion	0.232	0.002	0.240
makeROI	0.460	0.002	0.473
makeUniqueIDs	0.005	0.001	0.005
pcr_result1	0.001	0.001	0.002
plot_seqlogo	0.067	0.004	0.073
primers	0.002	0.001	0.003
psiPlot	0.382	0.004	0.395
region_minus_exon	0.002	0.001	0.002
roi	0.001	0.001	0.003
shapiroAcceptor	0.649	0.020	0.685
shapiroDonor	0.585	0.011	0.608
splice_data	0.001	0.001	0.002
splice_fasta	0.002	0.000	0.002
splitPCRhit	0.001	0.000	0.001
thecds	0.001	0.001	0.002
theexons	0.002	0.001	0.003
valid_cds	0.001	0.001	0.003
valid_tx	0.002	0.001	0.003

CHECK report for SPLINTER on merida2

Summary

Command output

Installation output

Tests output

Example timings