Back to Multiple platform build/check report for BioC 3.23:   simplified   long
ABCDEF[G]HIJKLMNOPQRSTUVWXYZ

This page was generated on 2026-03-20 11:34 -0400 (Fri, 20 Mar 2026).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_64R Under development (unstable) (2026-03-05 r89546) -- "Unsuffered Consequences" 4862
kjohnson3macOS 13.7.7 Venturaarm64R Under development (unstable) (2026-03-01 r89506) -- "Unsuffered Consequences" 4064
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 806/2368HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
gCrisprTools 2.17.2  (landing page)
Russell Bainer
Snapshot Date: 2026-03-19 13:40 -0400 (Thu, 19 Mar 2026)
git_url: https://git.bioconductor.org/packages/gCrisprTools
git_branch: devel
git_last_commit: 8c620d1
git_last_commit_date: 2026-03-09 18:46:22 -0400 (Mon, 09 Mar 2026)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
See other builds for gCrisprTools in R Universe.


CHECK results for gCrisprTools on kjohnson3

To the developers/maintainers of the gCrisprTools package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/gCrisprTools.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.

raw results


Summary

Package: gCrisprTools
Version: 2.17.2
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:gCrisprTools.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings gCrisprTools_2.17.2.tar.gz
StartedAt: 2026-03-19 18:42:38 -0400 (Thu, 19 Mar 2026)
EndedAt: 2026-03-19 18:45:35 -0400 (Thu, 19 Mar 2026)
EllapsedTime: 177.2 seconds
RetCode: 0
Status:   OK  
CheckDir: gCrisprTools.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:gCrisprTools.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings gCrisprTools_2.17.2.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.23-bioc/meat/gCrisprTools.Rcheck’
* using R Under development (unstable) (2026-03-01 r89506)
* using platform: aarch64-apple-darwin23
* R was compiled by
    Apple clang version 17.0.0 (clang-1700.3.19.1)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Sonoma 14.8.3
* using session charset: UTF-8
* current time: 2026-03-19 22:42:38 UTC
* using option ‘--no-vignettes’
* checking for file ‘gCrisprTools/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘gCrisprTools’ version ‘2.17.2’
* 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 ‘gCrisprTools’ 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 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
ct.GREATdb    30.859  0.562  31.555
ct.guideCDF    6.332  2.210   8.729
ct.makeReport  6.786  0.924   7.830
ct.seas        4.368  0.967   5.466
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘unit.tests.R’
 OK
* 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


Installation output

gCrisprTools.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL gCrisprTools
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.6/Resources/library’
* installing *source* package ‘gCrisprTools’ ...
** this is package ‘gCrisprTools’ version ‘2.17.2’
** using staged installation
** R
** data
** 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 (gCrisprTools)

Tests output

gCrisprTools.Rcheck/tests/unit.tests.Rout


R Under development (unstable) (2026-03-01 r89506) -- "Unsuffered Consequences"
Copyright (C) 2026 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin23

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> #require("BiocGenerics", quietly = TRUE)
> BiocGenerics:::testPackage("gCrisprTools")


RUNIT TEST PROTOCOL -- Thu Mar 19 18:45:30 2026 
*********************************************** 
Number of test functions: 0 
Number of errors: 0 
Number of failures: 0 

 
1 Test Suite : 
gCrisprTools RUnit Tests - 0 test functions, 0 errors, 0 failures
Number of test functions: 0 
Number of errors: 0 
Number of failures: 0 
> 
> proc.time()
   user  system elapsed 
  3.390   0.142   3.658 

Example timings

gCrisprTools.Rcheck/gCrisprTools-Ex.timings

nameusersystemelapsed
aln0.0010.0010.002
ann0.0280.0010.032
ct.CAT0.8350.0190.860
ct.DirectionalTests0.1210.1040.229
ct.GCbias2.3430.1532.511
ct.GREATdb30.859 0.56231.555
ct.PRC0.9840.0531.058
ct.ROC0.5370.0410.579
ct.RRAaPvals0.1320.0130.146
ct.RRAalpha0.1060.0070.114
ct.alignmentChart0.0020.0010.003
ct.alphaBeta000
ct.applyAlpha0.0000.0020.002
ct.buildSE0.1740.0090.185
ct.compareContrasts3.3290.3303.721
ct.contrastBarchart2.2470.0262.283
ct.expandAnnotation0.0310.0010.032
ct.filterReads0.1010.0100.112
ct.gRNARankByReplicate0.1470.0190.174
ct.generateResults0.1880.0100.198
ct.guideCDF6.3322.2108.729
ct.keyCheck0.0480.0040.052
ct.makeContrastReport3.2330.4253.765
ct.makeQCReport1.5110.2321.800
ct.makeReport6.7860.9247.830
ct.makeRhoNull0.0000.0000.001
ct.normalizeBySlope0.5980.0410.644
ct.normalizeFQ0.3320.0280.362
ct.normalizeGenewise0.7790.1530.933
ct.normalizeGuides1.2670.1541.491
ct.normalizeMedians0.2840.0610.360
ct.normalizeNTC0.3410.0490.605
ct.normalizeSpline0.4020.0590.531
ct.parseGeneSymbol0.0010.0000.002
ct.prepareAnnotation0.2390.0130.259
ct.preprocessFit0.5650.0660.658
ct.rankSimple1.3590.0171.416
ct.rawCountDensities0.0590.0070.071
ct.regularizeContrasts0.0410.0020.046
ct.resultCheck0.0270.0010.029
ct.scatter0.1290.0030.135
ct.seas4.3680.9675.466
ct.seasPrep0.7790.2431.119
ct.signalSummary0.5390.0340.589
ct.simpleResult0.5020.0720.596
ct.softLog000
ct.stackGuides2.0750.4972.644
ct.targetSetEnrichment0.4750.0630.553
ct.topTargets0.1480.0090.308
ct.upSet3.0510.4513.572
ct.viewControls0.1000.0110.144
ct.viewGuides0.1340.0090.147
es0.0250.0030.027
essential.genes0.0010.0010.001
fit0.0720.0040.081
resultsDF0.0280.0030.034
se0.0360.0020.039