| Back to Multiple platform build/check report for BioC 3.21: simplified long |
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This page was generated on 2025-04-22 13:17 -0400 (Tue, 22 Apr 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six" | 4831 |
| palomino7 | Windows Server 2022 Datacenter | x64 | 4.5.0 RC (2025-04-04 r88126 ucrt) -- "How About a Twenty-Six" | 4573 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six" | 4599 |
| kjohnson3 | macOS 13.7.1 Ventura | arm64 | 4.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six" | 4553 |
| kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4570 |
| 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 | ||||
| Package 2086/2341 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| SPLINTER 1.34.0 (landing page) Diana Low
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | |||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | |||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
| kjohnson3 | macOS 13.7.1 Ventura / arm64 | OK | ERROR | skipped | skipped | |||||||||
| kunpeng2 | Linux (openEuler 24.03 LTS) / aarch64 | OK | ERROR | skipped | ||||||||||
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To the developers/maintainers of the SPLINTER package: - 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 Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
| Package: SPLINTER |
| Version: 1.34.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:SPLINTER.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings SPLINTER_1.34.0.tar.gz |
| StartedAt: 2025-04-21 23:49:45 -0400 (Mon, 21 Apr 2025) |
| EndedAt: 2025-04-21 23:55:54 -0400 (Mon, 21 Apr 2025) |
| EllapsedTime: 369.0 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: SPLINTER.Rcheck |
| Warnings: 0 |
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### Running command:
###
### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:SPLINTER.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings SPLINTER_1.34.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.21-bioc/meat/SPLINTER.Rcheck’
* using R version 4.5.0 RC (2025-04-04 r88126)
* using platform: x86_64-apple-darwin20
* R was compiled by
Apple clang version 14.0.0 (clang-1400.0.29.202)
GNU Fortran (GCC) 14.2.0
* running under: macOS Monterey 12.7.6
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘SPLINTER/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘SPLINTER’ version ‘1.34.0’
* 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 code 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 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
eventPlot 12.517 0.237 12.815
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... 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/Resources/bin/R CMD INSTALL SPLINTER ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library’ * installing *source* package ‘SPLINTER’ ... ** this is package ‘SPLINTER’ version ‘1.34.0’ ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (SPLINTER)
SPLINTER.Rcheck/SPLINTER-Ex.timings
| name | user | system | elapsed | |
| acceptor.m | 0.001 | 0.002 | 0.003 | |
| addEnsemblAnnotation | 0.006 | 0.002 | 0.008 | |
| callPrimer3 | 0 | 0 | 0 | |
| checkPrimer | 0.076 | 0.002 | 0.078 | |
| compatible_cds | 0.001 | 0.001 | 0.001 | |
| compatible_tx | 0.001 | 0.001 | 0.002 | |
| donor.m | 0.001 | 0.002 | 0.002 | |
| eventOutcomeCompare | 1.561 | 0.111 | 1.681 | |
| eventOutcomeTranslate | 0.485 | 0.023 | 0.512 | |
| eventPlot | 12.517 | 0.237 | 12.815 | |
| extendROI | 0.693 | 0.017 | 0.713 | |
| extractSpliceEvents | 0.003 | 0.001 | 0.005 | |
| extractSpliceSites | 0.079 | 0.001 | 0.081 | |
| findCompatibleEvents | 0.325 | 0.002 | 0.327 | |
| findCompatibleExon | 0.190 | 0.001 | 0.193 | |
| findTX | 0.014 | 0.000 | 0.014 | |
| getPCRsizes | 2.379 | 0.151 | 2.544 | |
| getRegionDNA | 0.349 | 0.020 | 0.371 | |
| insertRegion | 0.203 | 0.002 | 0.205 | |
| makeROI | 0.282 | 0.001 | 0.286 | |
| makeUniqueIDs | 0.003 | 0.000 | 0.003 | |
| pcr_result1 | 0.001 | 0.002 | 0.002 | |
| plot_seqlogo | 0.040 | 0.003 | 0.044 | |
| primers | 0.001 | 0.001 | 0.002 | |
| psiPlot | 0.260 | 0.009 | 0.271 | |
| region_minus_exon | 0.001 | 0.001 | 0.003 | |
| roi | 0.001 | 0.002 | 0.002 | |
| shapiroAcceptor | 0.610 | 0.050 | 0.667 | |
| shapiroDonor | 0.533 | 0.026 | 0.565 | |
| splice_data | 0.001 | 0.002 | 0.003 | |
| splice_fasta | 0.001 | 0.001 | 0.002 | |
| splitPCRhit | 0.003 | 0.000 | 0.003 | |
| thecds | 0.001 | 0.001 | 0.002 | |
| theexons | 0.000 | 0.000 | 0.002 | |
| valid_cds | 0.001 | 0.001 | 0.002 | |
| valid_tx | 0.001 | 0.002 | 0.002 | |