| Back to Multiple platform build/check report for BioC 3.12 |
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This page was generated on 2021-05-06 12:36:56 -0400 (Thu, 06 May 2021).
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To the developers/maintainers of the SPLINTER package: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1775/1974 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| SPLINTER 1.16.0 (landing page) Diana Low
| malbec1 | Linux (Ubuntu 18.04.5 LTS) / x86_64 | OK | OK | OK | |||||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | |||||||||
| merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |||||||||
| Package: SPLINTER |
| Version: 1.16.0 |
| Command: /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_1.16.0.tar.gz |
| StartedAt: 2021-05-06 06:31:45 -0400 (Thu, 06 May 2021) |
| EndedAt: 2021-05-06 06:38:32 -0400 (Thu, 06 May 2021) |
| EllapsedTime: 406.7 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: SPLINTER.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:SPLINTER.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings SPLINTER_1.16.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.12-bioc/meat/SPLINTER.Rcheck’
* using R version 4.0.5 (2021-03-31)
* using platform: x86_64-apple-darwin17.0 (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 ‘1.16.0’
* 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 (user + system) or elapsed time > 5s
user system elapsed
getPCRsizes 13.997 0.200 14.225
eventPlot 12.314 0.251 12.585
* 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
SPLINTER.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL SPLINTER ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.0/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)
SPLINTER.Rcheck/SPLINTER-Ex.timings
| name | user | system | elapsed | |
| acceptor.m | 0.003 | 0.001 | 0.004 | |
| addEnsemblAnnotation | 0.008 | 0.001 | 0.009 | |
| callPrimer3 | 0.000 | 0.000 | 0.001 | |
| checkPrimer | 0.115 | 0.005 | 0.120 | |
| compatible_cds | 0.001 | 0.001 | 0.003 | |
| compatible_tx | 0.002 | 0.002 | 0.003 | |
| donor.m | 0.001 | 0.002 | 0.003 | |
| eventOutcomeCompare | 1.966 | 0.097 | 2.065 | |
| eventOutcomeTranslate | 0.601 | 0.015 | 0.616 | |
| eventPlot | 12.314 | 0.251 | 12.585 | |
| extendROI | 1.238 | 0.033 | 1.272 | |
| extractSpliceEvents | 0.003 | 0.001 | 0.004 | |
| extractSpliceSites | 0.136 | 0.001 | 0.137 | |
| findCompatibleEvents | 0.570 | 0.002 | 0.573 | |
| findCompatibleExon | 0.349 | 0.001 | 0.350 | |
| findTX | 0.035 | 0.000 | 0.036 | |
| getPCRsizes | 13.997 | 0.200 | 14.225 | |
| getRegionDNA | 0.340 | 0.015 | 0.355 | |
| insertRegion | 0.278 | 0.007 | 0.288 | |
| makeROI | 0.530 | 0.001 | 0.533 | |
| makeUniqueIDs | 0.007 | 0.001 | 0.006 | |
| pcr_result1 | 0.001 | 0.001 | 0.002 | |
| plot_seqlogo | 0.048 | 0.002 | 0.051 | |
| primers | 0.001 | 0.001 | 0.002 | |
| psiPlot | 0.281 | 0.008 | 0.289 | |
| region_minus_exon | 0.001 | 0.001 | 0.002 | |
| roi | 0.001 | 0.001 | 0.001 | |
| shapiroAcceptor | 0.609 | 0.015 | 0.626 | |
| shapiroDonor | 0.656 | 0.019 | 0.676 | |
| splice_data | 0.001 | 0.001 | 0.002 | |
| splice_fasta | 0.001 | 0.001 | 0.002 | |
| splitPCRhit | 0.017 | 0.001 | 0.017 | |
| thecds | 0.001 | 0.001 | 0.003 | |
| theexons | 0.001 | 0.001 | 0.002 | |
| valid_cds | 0.001 | 0.001 | 0.002 | |
| valid_tx | 0.001 | 0.001 | 0.002 | |