Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-06-11 15:41 -0400 (Tue, 11 Jun 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.0 RC (2024-04-16 r86468) -- "Puppy Cup" | 4679 |
palomino4 | Windows Server 2022 Datacenter | x64 | 4.4.0 RC (2024-04-16 r86468 ucrt) -- "Puppy Cup" | 4414 |
merida1 | macOS 12.7.4 Monterey | x86_64 | 4.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" | 4441 |
kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" | 4394 |
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 100/2239 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
ASpli 2.15.0 (landing page) Ariel Chernomoretz
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | WARNINGS | |||||||||
palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | |||||||||
merida1 | macOS 12.7.4 Monterey / x86_64 | OK | OK | WARNINGS | OK | |||||||||
kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | WARNINGS | OK | |||||||||
To the developers/maintainers of the ASpli package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/ASpli.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: ASpli |
Version: 2.15.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:ASpli.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings ASpli_2.15.0.tar.gz |
StartedAt: 2024-06-09 23:50:55 -0400 (Sun, 09 Jun 2024) |
EndedAt: 2024-06-10 00:20:07 -0400 (Mon, 10 Jun 2024) |
EllapsedTime: 1752.8 seconds |
RetCode: 0 |
Status: WARNINGS |
CheckDir: ASpli.Rcheck |
Warnings: 1 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:ASpli.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings ASpli_2.15.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/ASpli.Rcheck’ * using R version 4.4.0 Patched (2024-04-24 r86482) * using platform: x86_64-apple-darwin20 * R was compiled by Apple clang version 14.0.0 (clang-1400.0.29.202) GNU Fortran (GCC) 12.2.0 * running under: macOS Monterey 12.7.4 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘ASpli/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘ASpli’ version ‘2.15.0’ * 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 ‘ASpli’ can be installed ... WARNING Found the following significant warnings: Warning: replacing previous import ‘utils::findMatches’ by ‘S4Vectors::findMatches’ when loading ‘ASpli’ See ‘/Users/biocbuild/bbs-3.20-bioc/meat/ASpli.Rcheck/00install.out’ for details. * 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 ... NOTE Namespace in Imports field not imported from: 'txdbmaker' All declared Imports should be used. * 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 sizes of PDF files under ‘inst/doc’ ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed ASpli-package 171.585 0.969 190.698 exportIntegratedSignals 95.297 0.609 108.231 integrateSignals 89.098 0.371 103.656 exportSplicingReports 88.875 0.587 101.085 splicingReport 86.806 0.416 98.793 jCounts-methods 86.290 0.611 100.660 jDUreport 86.387 0.409 100.395 gbDUreport-method 78.897 0.337 90.081 gbCounts 76.009 0.345 86.145 binGenome 8.792 0.072 9.652 * 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: 1 WARNING, 1 NOTE See ‘/Users/biocbuild/bbs-3.20-bioc/meat/ASpli.Rcheck/00check.log’ for details.
ASpli.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL ASpli ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library’ * installing *source* package ‘ASpli’ ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading Warning: replacing previous import ‘utils::findMatches’ by ‘S4Vectors::findMatches’ when loading ‘ASpli’ ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location Warning: replacing previous import ‘utils::findMatches’ by ‘S4Vectors::findMatches’ when loading ‘ASpli’ ** testing if installed package can be loaded from final location Warning: replacing previous import ‘utils::findMatches’ by ‘S4Vectors::findMatches’ when loading ‘ASpli’ ** testing if installed package keeps a record of temporary installation path * DONE (ASpli)
ASpli.Rcheck/ASpli-Ex.timings
name | user | system | elapsed | |
ASpli-package | 171.585 | 0.969 | 190.698 | |
DUreport | 0.000 | 0.001 | 0.000 | |
DUreport.norm | 0.000 | 0.000 | 0.001 | |
DUreport.offset | 0.000 | 0.000 | 0.001 | |
DUreportBinSplice-method | 0.000 | 0.000 | 0.001 | |
acc_AS | 0.001 | 0.000 | 0.001 | |
acc_DU | 0.000 | 0.001 | 0.000 | |
acc_counts | 0.000 | 0.001 | 0.002 | |
acc_features | 0.388 | 0.002 | 0.405 | |
binGenome | 8.792 | 0.072 | 9.652 | |
containsJunctions-function | 0 | 0 | 0 | |
example_data | 0.000 | 0.000 | 0.001 | |
exportIntegratedSignals | 95.297 | 0.609 | 108.231 | |
exportSplicingReports | 88.875 | 0.587 | 101.085 | |
filterDU-method | 0.000 | 0.001 | 0.001 | |
filterSignals | 0.001 | 0.000 | 0.000 | |
gbCounts | 76.009 | 0.345 | 86.145 | |
gbDUreport-method | 78.897 | 0.337 | 90.081 | |
getConditions-function | 0.000 | 0.001 | 0.001 | |
integrateSignals | 89.098 | 0.371 | 103.656 | |
jCounts-methods | 86.290 | 0.611 | 100.660 | |
jDUreport | 86.387 | 0.409 | 100.395 | |
junctionDUreport | 0.001 | 0.000 | 0.003 | |
loadBAM | 0.000 | 0.001 | 0.001 | |
mergeBinDUAS-method | 0.000 | 0.001 | 0.002 | |
plotBins | 0.000 | 0.002 | 0.004 | |
plotGenomicRegions | 0.001 | 0.002 | 0.002 | |
rds | 0.000 | 0.001 | 0.002 | |
splicingReport | 86.806 | 0.416 | 98.793 | |
subset-methods | 0.001 | 0.002 | 0.003 | |