Multiple platform build/check report for BioC 3.10 - CHECK report for SPLINTER on merida1

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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_1.12.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.10-bioc/meat/SPLINTER.Rcheck’
* using R version 3.6.3 (2020-02-29)
* 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 ‘1.12.0’
* 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
getPCRsizes          15.468  0.242  15.924
eventPlot            13.293  0.292  13.805
addEnsemblAnnotation  1.469  0.031  10.935
* 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’ ...
** using staged installation
** 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 from temporary location
Creating a generic function for 'toJSON' from package 'jsonlite' in package 'googleVis'
** testing if installed package can be loaded from final location
Creating a generic function for 'toJSON' from package 'jsonlite' in package 'googleVis'
** testing if installed package keeps a record of temporary installation path
* DONE (SPLINTER)

Tests output

Example timings

name	user	system	elapsed
acceptor.m	0.002	0.001	0.003
addEnsemblAnnotation	1.469	0.031	10.935
callPrimer3	0.001	0.000	0.000
checkPrimer	0.108	0.004	0.111
compatible_cds	0.001	0.001	0.002
compatible_tx	0.001	0.001	0.002
donor.m	0.002	0.001	0.003
eventOutcomeCompare	2.402	0.276	2.724
eventOutcomeTranslate	0.695	0.023	0.730
eventPlot	13.293	0.292	13.805
extendROI	1.466	0.072	1.541
extractSpliceEvents	0.005	0.000	0.006
extractSpliceSites	0.150	0.002	0.152
findCompatibleEvents	0.683	0.004	0.727
findCompatibleExon	0.433	0.003	0.438
findTX	0.037	0.000	0.037
getPCRsizes	15.468	0.242	15.924
getRegionDNA	0.367	0.008	0.380
insertRegion	0.275	0.001	0.279
makeROI	0.456	0.001	0.463
makeUniqueIDs	0.003	0.000	0.003
pcr_result1	0.001	0.001	0.002
plot_seqlogo	0.051	0.002	0.052
primers	0.001	0.000	0.002
psiPlot	0.332	0.003	0.338
region_minus_exon	0.001	0.000	0.001
roi	0.001	0.001	0.002
shapiroAcceptor	0.546	0.011	0.567
shapiroDonor	0.573	0.038	0.616
splice_data	0.001	0.000	0.002
splice_fasta	0.001	0.001	0.002
splitPCRhit	0.015	0.000	0.015
thecds	0.001	0.001	0.003
theexons	0.001	0.000	0.001
valid_cds	0.001	0.001	0.002
valid_tx	0.002	0.001	0.003

CHECK report for SPLINTER on merida1

Summary

Command output

Installation output

Tests output

Example timings