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This page was generated on 2021-10-26 14:06:16 -0400 (Tue, 26 Oct 2021).

CHECK results for ASpli on nebbiolo2

To the developers/maintainers of the ASpli package:
- Please 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 How and When does the builder pull? When will my changes propagate? here for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 90/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
ASpli 2.3.1  (landing page)
Estefania Mancini
Snapshot Date: 2021-10-25 14:50:11 -0400 (Mon, 25 Oct 2021)
git_url: https://git.bioconductor.org/packages/ASpli
git_branch: master
git_last_commit: afabc60
git_last_commit_date: 2021-05-25 21:35:34 -0400 (Tue, 25 May 2021)
nebbiolo2Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
riesling1Windows Server 2019 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  

Summary

Package: ASpli
Version: 2.3.1
Command: /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:ASpli.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings ASpli_2.3.1.tar.gz
StartedAt: 2021-10-25 19:09:17 -0400 (Mon, 25 Oct 2021)
EndedAt: 2021-10-25 19:25:18 -0400 (Mon, 25 Oct 2021)
EllapsedTime: 960.8 seconds
RetCode: 0
Status:   OK  
CheckDir: ASpli.Rcheck
Warnings: 0

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:ASpli.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings ASpli_2.3.1.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.14-bioc/meat/ASpli.Rcheck’
* using R version 4.1.1 (2021-08-10)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘ASpli/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘ASpli’ version ‘2.3.1’
* 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 ... 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 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           142.465  1.864 144.237
splicingReport           75.111  0.272  75.290
exportIntegratedSignals  73.136  0.426  73.481
jDUreport                69.812  0.264  69.994
integrateSignals         68.552  0.284  68.756
jCounts-methods          67.048  0.276  67.233
exportSplicingReports    65.497  0.296  65.711
gbDUreport-method        56.486  0.224  56.620
gbCounts                 53.312  0.144  53.368
* 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

ASpli.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD INSTALL ASpli
###
##############################################################################
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* installing to library ‘/home/biocbuild/bbs-3.14-bioc/R/library’
* installing *source* package ‘ASpli’ ...
** using staged installation
** R
** 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 (ASpli)

Tests output


Example timings

ASpli.Rcheck/ASpli-Ex.timings

nameusersystemelapsed
ASpli-package142.465 1.864144.237
DUreport000
DUreport.norm000
DUreport.offset000
DUreportBinSplice-method000
acc_AS000
acc_DU0.0000.0000.001
acc_counts000
acc_features0.2410.0000.240
binGenome3.6480.0043.651
containsJunctions-function000
example_data000
exportIntegratedSignals73.136 0.42673.481
exportSplicingReports65.497 0.29665.711
filterDU-method000
filterSignals000
gbCounts53.312 0.14453.368
gbDUreport-method56.486 0.22456.620
getConditions-function000
integrateSignals68.552 0.28468.756
jCounts-methods67.048 0.27667.233
jDUreport69.812 0.26469.994
junctionDUreport000
loadBAM000
mergeBinDUAS-method000
plotBins0.0000.0000.001
plotGenomicRegions000
rds000
splicingReport75.111 0.27275.290
subset-methods000