| Back to Multiple platform build/check report for BioC 3.23: simplified long |
|
This page was generated on 2026-03-14 11:34 -0400 (Sat, 14 Mar 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | R Under development (unstable) (2026-03-05 r89546) -- "Unsuffered Consequences" | 4837 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | R Under development (unstable) (2026-03-01 r89506) -- "Unsuffered Consequences" | 4050 |
| 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 803/2361 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| gCrisprTools 2.17.2 (landing page) Russell Bainer
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | OK | |||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | OK | OK | OK | |||||||||
| See other builds for gCrisprTools in R Universe. | ||||||||||||||
|
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. |
| 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: 2026-03-13 18:39:01 -0400 (Fri, 13 Mar 2026) |
| EndedAt: 2026-03-13 18:41:59 -0400 (Fri, 13 Mar 2026) |
| EllapsedTime: 178.4 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: gCrisprTools.Rcheck |
| Warnings: 0 |
##############################################################################
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### 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
###
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* 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: 2026-03-13 22:39:01 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 31.019 0.533 31.800
ct.guideCDF 6.329 2.507 9.059
ct.makeReport 6.677 1.056 7.919
ct.seas 4.510 0.881 5.442
* 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
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)
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 -- Fri Mar 13 18:41:54 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
3.374 0.124 3.523
gCrisprTools.Rcheck/gCrisprTools-Ex.timings
| name | user | system | elapsed | |
| aln | 0.001 | 0.001 | 0.002 | |
| ann | 0.029 | 0.002 | 0.029 | |
| ct.CAT | 0.848 | 0.025 | 0.882 | |
| ct.DirectionalTests | 0.122 | 0.093 | 0.225 | |
| ct.GCbias | 2.294 | 0.147 | 2.455 | |
| ct.GREATdb | 31.019 | 0.533 | 31.800 | |
| ct.PRC | 0.991 | 0.050 | 1.055 | |
| ct.ROC | 0.536 | 0.033 | 0.570 | |
| ct.RRAaPvals | 0.136 | 0.016 | 0.152 | |
| ct.RRAalpha | 0.107 | 0.005 | 0.124 | |
| ct.alignmentChart | 0.003 | 0.001 | 0.003 | |
| ct.alphaBeta | 0 | 0 | 0 | |
| ct.applyAlpha | 0.001 | 0.002 | 0.002 | |
| ct.buildSE | 0.178 | 0.009 | 0.192 | |
| ct.compareContrasts | 3.347 | 0.343 | 3.712 | |
| ct.contrastBarchart | 2.268 | 0.024 | 2.315 | |
| ct.expandAnnotation | 0.034 | 0.001 | 0.035 | |
| ct.filterReads | 0.100 | 0.008 | 0.108 | |
| ct.gRNARankByReplicate | 0.154 | 0.016 | 0.172 | |
| ct.generateResults | 0.184 | 0.012 | 0.202 | |
| ct.guideCDF | 6.329 | 2.507 | 9.059 | |
| ct.keyCheck | 0.046 | 0.004 | 0.056 | |
| ct.makeContrastReport | 3.209 | 0.506 | 3.783 | |
| ct.makeQCReport | 1.493 | 0.246 | 1.823 | |
| ct.makeReport | 6.677 | 1.056 | 7.919 | |
| ct.makeRhoNull | 0 | 0 | 0 | |
| ct.normalizeBySlope | 0.596 | 0.046 | 0.661 | |
| ct.normalizeFQ | 0.329 | 0.036 | 0.376 | |
| ct.normalizeGenewise | 0.776 | 0.178 | 0.997 | |
| ct.normalizeGuides | 1.255 | 0.119 | 1.415 | |
| ct.normalizeMedians | 0.271 | 0.026 | 0.298 | |
| ct.normalizeNTC | 0.344 | 0.035 | 0.392 | |
| ct.normalizeSpline | 0.396 | 0.042 | 0.444 | |
| ct.parseGeneSymbol | 0.000 | 0.000 | 0.001 | |
| ct.prepareAnnotation | 0.244 | 0.011 | 0.262 | |
| ct.preprocessFit | 0.566 | 0.065 | 0.638 | |
| ct.rankSimple | 1.351 | 0.013 | 1.392 | |
| ct.rawCountDensities | 0.062 | 0.007 | 0.074 | |
| ct.regularizeContrasts | 0.041 | 0.001 | 0.050 | |
| ct.resultCheck | 0.030 | 0.001 | 0.031 | |
| ct.scatter | 0.125 | 0.002 | 0.127 | |
| ct.seas | 4.510 | 0.881 | 5.442 | |
| ct.seasPrep | 0.790 | 0.191 | 1.005 | |
| ct.signalSummary | 0.524 | 0.013 | 0.537 | |
| ct.simpleResult | 0.508 | 0.039 | 0.561 | |
| ct.softLog | 0 | 0 | 0 | |
| ct.stackGuides | 2.037 | 0.635 | 2.710 | |
| ct.targetSetEnrichment | 0.475 | 0.106 | 0.583 | |
| ct.topTargets | 0.143 | 0.010 | 0.157 | |
| ct.upSet | 3.055 | 0.469 | 3.648 | |
| ct.viewControls | 0.097 | 0.011 | 0.107 | |
| ct.viewGuides | 0.131 | 0.006 | 0.146 | |
| es | 0.028 | 0.003 | 0.034 | |
| essential.genes | 0.001 | 0.001 | 0.001 | |
| fit | 0.077 | 0.003 | 0.081 | |
| resultsDF | 0.027 | 0.002 | 0.027 | |
| se | 0.034 | 0.001 | 0.035 | |