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This page was generated on 2021-10-22 12:04:50 -0400 (Fri, 22 Oct 2021).

CHECK results for ASpli on merida1

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 90/2075HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
ASpli 2.3.1  (landing page)
Estefania Mancini
Snapshot Date: 2021-10-21 14:50:08 -0400 (Thu, 21 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

Summary

Package: ASpli
Version: 2.3.1
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_2.3.1.tar.gz
StartedAt: 2021-10-22 00:47:29 -0400 (Fri, 22 Oct 2021)
EndedAt: 2021-10-22 01:06:39 -0400 (Fri, 22 Oct 2021)
EllapsedTime: 1150.3 seconds
RetCode: 0
Status:   OK  
CheckDir: ASpli.Rcheck
Warnings: 0

Command output

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### Running command:
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###   /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_2.3.1.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.14-bioc/meat/ASpli.Rcheck’
* using R version 4.1.1 Patched (2021-08-22 r80813)
* using platform: x86_64-apple-darwin17.0 (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 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           140.083  0.627 140.891
exportIntegratedSignals  77.728  0.299  78.131
exportSplicingReports    75.588  0.322  76.056
integrateSignals         75.032  0.219  75.378
splicingReport           74.907  0.186  75.207
jDUreport                73.071  0.178  73.353
jCounts-methods          72.693  0.176  72.964
gbCounts                 64.642  0.169  64.896
gbDUreport-method        63.331  0.151  63.560
binGenome                 6.198  0.022   6.226
* 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:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL ASpli
###
##############################################################################
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* installing to library ‘/Library/Frameworks/R.framework/Versions/4.1/Resources/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-package140.083 0.627140.891
DUreport000
DUreport.norm000
DUreport.offset000
DUreportBinSplice-method000
acc_AS0.0000.0000.001
acc_DU0.0000.0010.000
acc_counts000
acc_features0.4130.0010.415
binGenome6.1980.0226.226
containsJunctions-function000
example_data000
exportIntegratedSignals77.728 0.29978.131
exportSplicingReports75.588 0.32276.056
filterDU-method0.0000.0000.001
filterSignals0.0000.0010.001
gbCounts64.642 0.16964.896
gbDUreport-method63.331 0.15163.560
getConditions-function0.0000.0010.000
integrateSignals75.032 0.21975.378
jCounts-methods72.693 0.17672.964
jDUreport73.071 0.17873.353
junctionDUreport000
loadBAM0.0000.0000.001
mergeBinDUAS-method0.0000.0000.001
plotBins0.0000.0010.000
plotGenomicRegions0.0000.0000.001
rds0.0000.0010.000
splicingReport74.907 0.18675.207
subset-methods0.0010.0000.000