| Back to Build/check report for BioC 3.17: simplified long | 
  | 
This page was generated on 2023-03-01 07:38:51 -0000 (Wed, 01 Mar 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs | 
|---|---|---|---|---|
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) | aarch64 | R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences" | 4266 | 
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| 
To the developers/maintainers of the SPLINTER package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/SPLINTER.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page.  | 
| Package 1942/2171 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| SPLINTER 1.25.0  (landing page) Diana Low 
  | kunpeng1 | Linux (Ubuntu 22.04.1 LTS) / aarch64 | OK | OK | OK | |||||||||
| Package: SPLINTER | 
| Version: 1.25.0 | 
| Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:SPLINTER.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings SPLINTER_1.25.0.tar.gz | 
| StartedAt: 2023-02-28 16:28:12 -0000 (Tue, 28 Feb 2023) | 
| EndedAt: 2023-02-28 16:35:44 -0000 (Tue, 28 Feb 2023) | 
| EllapsedTime: 452.5 seconds | 
| RetCode: 0 | 
| Status: OK | 
| CheckDir: SPLINTER.Rcheck | 
| Warnings: 0 | 
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### Running command:
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###   /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:SPLINTER.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings SPLINTER_1.25.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/SPLINTER.Rcheck’
* using R Under development (unstable) (2023-01-14 r83615)
* using platform: aarch64-unknown-linux-gnu (64-bit)
* R was compiled by
    gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
    GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
* running under: Ubuntu 22.04.1 LTS
* using session charset: UTF-8
* checking for file ‘SPLINTER/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘SPLINTER’ version ‘1.25.0’
* 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 LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
            user system elapsed
eventPlot 12.832  0.581  13.418
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ...
  ‘vignette.Rmd’ using ‘UTF-8’... OK
 NONE
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: OK
SPLINTER.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL SPLINTER ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.17-bioc/R/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 | 0.002 | 0.001 | 0.003 | |
| addEnsemblAnnotation | 0.006 | 0.000 | 0.007 | |
| callPrimer3 | 0.001 | 0.000 | 0.000 | |
| checkPrimer | 0.095 | 0.000 | 0.094 | |
| compatible_cds | 0.001 | 0.000 | 0.001 | |
| compatible_tx | 0.001 | 0.000 | 0.001 | |
| donor.m | 0.001 | 0.000 | 0.001 | |
| eventOutcomeCompare | 1.654 | 0.103 | 1.759 | |
| eventOutcomeTranslate | 1.533 | 0.212 | 1.745 | |
| eventPlot | 12.832 | 0.581 | 13.418 | |
| extendROI | 0.802 | 0.024 | 0.826 | |
| extractSpliceEvents | 0.004 | 0.000 | 0.004 | |
| extractSpliceSites | 0.105 | 0.003 | 0.109 | |
| findCompatibleEvents | 0.421 | 0.004 | 0.426 | |
| findCompatibleExon | 0.261 | 0.000 | 0.261 | |
| findTX | 0.018 | 0.000 | 0.018 | |
| getPCRsizes | 4.376 | 0.256 | 4.631 | |
| getRegionDNA | 0.299 | 0.016 | 0.315 | |
| insertRegion | 0.205 | 0.003 | 0.208 | |
| makeROI | 0.347 | 0.007 | 0.355 | |
| makeUniqueIDs | 0.004 | 0.000 | 0.005 | |
| pcr_result1 | 0.001 | 0.000 | 0.001 | |
| plot_seqlogo | 0.044 | 0.008 | 0.051 | |
| primers | 0.002 | 0.000 | 0.001 | |
| psiPlot | 0.310 | 0.024 | 0.333 | |
| region_minus_exon | 0.000 | 0.001 | 0.001 | |
| roi | 0.000 | 0.001 | 0.000 | |
| shapiroAcceptor | 0.502 | 0.033 | 0.534 | |
| shapiroDonor | 0.487 | 0.004 | 0.491 | |
| splice_data | 0.001 | 0.000 | 0.001 | |
| splice_fasta | 0.000 | 0.000 | 0.001 | |
| splitPCRhit | 0.002 | 0.000 | 0.002 | |
| thecds | 0.001 | 0.000 | 0.002 | |
| theexons | 0.001 | 0.000 | 0.000 | |
| valid_cds | 0.000 | 0.001 | 0.001 | |
| valid_tx | 0.000 | 0.001 | 0.001 | |