| Back to Multiple platform build/check report for BioC 3.16: simplified long |
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This page was generated on 2023-04-12 11:05:00 -0400 (Wed, 12 Apr 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | 4.2.3 (2023-03-15) -- "Shortstop Beagle" | 4502 |
| palomino4 | Windows Server 2022 Datacenter | x64 | 4.2.3 (2023-03-15 ucrt) -- "Shortstop Beagle" | 4282 |
| lconway | macOS 12.5.1 Monterey | x86_64 | 4.2.3 (2023-03-15) -- "Shortstop Beagle" | 4310 |
| 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 | ||||
|
To the developers/maintainers of the chipenrich package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/chipenrich.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 311/2183 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| chipenrich 2.22.0 (landing page) Raymond G. Cavalcante
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | OK | OK | OK | |||||||||
| palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
| lconway | macOS 12.5.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
| Package: chipenrich |
| Version: 2.22.0 |
| Command: /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD check --install=check:chipenrich.install-out.txt --library=/home/biocbuild/bbs-3.16-bioc/R/site-library --timings chipenrich_2.22.0.tar.gz |
| StartedAt: 2023-04-10 19:39:26 -0400 (Mon, 10 Apr 2023) |
| EndedAt: 2023-04-10 19:47:38 -0400 (Mon, 10 Apr 2023) |
| EllapsedTime: 491.2 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: chipenrich.Rcheck |
| Warnings: 0 |
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### Running command:
###
### /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD check --install=check:chipenrich.install-out.txt --library=/home/biocbuild/bbs-3.16-bioc/R/site-library --timings chipenrich_2.22.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.16-bioc/meat/chipenrich.Rcheck’
* using R version 4.2.3 (2023-03-15)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* checking for file ‘chipenrich/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘chipenrich’ version ‘2.22.0’
* 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 ‘chipenrich’ 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 loading without being on the library search path ... 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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
polyenrich 6.105 0.188 6.293
broadenrich 5.962 0.116 6.080
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘testthat.R’
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ...
‘chipenrich-vignette.Rmd’ using ‘UTF-8’... OK
NONE
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: OK
chipenrich.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD INSTALL chipenrich ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.16-bioc/R/site-library’ * installing *source* package ‘chipenrich’ ... ** 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 (chipenrich)
chipenrich.Rcheck/tests/testthat.Rout
R version 4.2.3 (2023-03-15) -- "Shortstop Beagle"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)
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.
> library(testthat)
> library(chipenrich)
>
> test_check("chipenrich")
[ FAIL 0 | WARN 0 | SKIP 3 | PASS 170 ]
══ Skipped tests ═══════════════════════════════════════════════════════════════
• empty test (3)
[ FAIL 0 | WARN 0 | SKIP 3 | PASS 170 ]
>
> proc.time()
user system elapsed
159.762 2.882 162.689
chipenrich.Rcheck/chipenrich-Ex.timings
| name | user | system | elapsed | |
| assign_peak_segments | 1.192 | 0.040 | 1.234 | |
| assign_peaks | 0.501 | 0.004 | 0.506 | |
| broadenrich | 5.962 | 0.116 | 6.080 | |
| calc_peak_gene_overlap | 0.303 | 0.004 | 0.306 | |
| chipenrich | 2.603 | 0.080 | 2.684 | |
| load_peaks | 0.056 | 0.000 | 0.057 | |
| num_peaks_per_gene | 0.460 | 0.008 | 0.468 | |
| peaks2genes | 0.473 | 0.000 | 0.473 | |
| plot_chipenrich_spline | 1.362 | 0.028 | 1.391 | |
| plot_dist_to_tss | 0.315 | 0.004 | 0.319 | |
| plot_gene_coverage | 0.785 | 0.008 | 0.793 | |
| plot_polyenrich_spline | 3.628 | 0.112 | 3.740 | |
| polyenrich | 6.105 | 0.188 | 6.293 | |
| proxReg | 0.425 | 0.000 | 0.424 | |
| read_bed | 0.226 | 0.000 | 0.227 | |
| supported_genesets | 0.005 | 0.000 | 0.005 | |
| supported_genomes | 0.002 | 0.000 | 0.002 | |
| supported_locusdefs | 0.005 | 0.000 | 0.005 | |
| supported_methods | 0.000 | 0.000 | 0.001 | |
| supported_read_lengths | 0.004 | 0.000 | 0.004 | |