Back to Multiple platform build/check report for BioC 3.21: simplified long |
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This page was generated on 2024-12-23 11:40 -0500 (Mon, 23 Dec 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" | 4754 |
palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" | 4472 |
lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4426 |
kjohnson3 | macOS 13.7.1 Ventura | arm64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4381 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" | 4372 |
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 328/2274 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
chipenrich 2.31.0 (landing page) Kai Wang
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson3 | macOS 13.7.1 Ventura / arm64 | OK | OK | OK | OK | |||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
To the developers/maintainers of the chipenrich package: - 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 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: chipenrich |
Version: 2.31.0 |
Command: /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:chipenrich.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings chipenrich_2.31.0.tar.gz |
StartedAt: 2024-12-22 20:43:11 -0500 (Sun, 22 Dec 2024) |
EndedAt: 2024-12-22 20:51:53 -0500 (Sun, 22 Dec 2024) |
EllapsedTime: 522.8 seconds |
RetCode: 0 |
Status: OK |
CheckDir: chipenrich.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:chipenrich.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings chipenrich_2.31.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/chipenrich.Rcheck’ * using R Under development (unstable) (2024-10-21 r87258) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 * running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * checking for file ‘chipenrich/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘chipenrich’ version ‘2.31.0’ * 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 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 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 ... NOTE checkRd: (-1) broadenrich.Rd:134: Escaped LaTeX specials: \& checkRd: (-1) chipenrich.Rd:148: Escaped LaTeX specials: \& checkRd: (-1) hybridenrich.Rd:111: Escaped LaTeX specials: \& checkRd: (-1) polyenrich.Rd:148: Escaped LaTeX specials: \& checkRd: (-1) proxReg.Rd:117: Escaped LaTeX specials: \& * 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 broadenrich 6.047 0.077 6.126 * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘testthat.R’ OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... OK * checking PDF version of manual ... OK * DONE Status: 1 NOTE See ‘/home/biocbuild/bbs-3.21-bioc/meat/chipenrich.Rcheck/00check.log’ for details.
chipenrich.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD INSTALL chipenrich ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.21-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 Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: x86_64-pc-linux-gnu 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 (3) ═══════════════════════════════════════════════════════════ • empty test (3): 'test_5_chipenrich.R:199:1', 'test_5_chipenrich.R:232:1', 'test_5_chipenrich.R:236:1' [ FAIL 0 | WARN 0 | SKIP 3 | PASS 170 ] > > proc.time() user system elapsed 174.632 2.708 177.365
chipenrich.Rcheck/chipenrich-Ex.timings
name | user | system | elapsed | |
assign_peak_segments | 0.233 | 0.005 | 0.239 | |
assign_peaks | 1.567 | 0.061 | 1.630 | |
broadenrich | 6.047 | 0.077 | 6.126 | |
calc_peak_gene_overlap | 0.290 | 0.002 | 0.292 | |
chipenrich | 1.472 | 0.005 | 1.477 | |
load_peaks | 0.053 | 0.000 | 0.053 | |
num_peaks_per_gene | 0.422 | 0.000 | 0.422 | |
peaks2genes | 0.405 | 0.002 | 0.407 | |
plot_chipenrich_spline | 1.285 | 0.021 | 1.308 | |
plot_dist_to_tss | 0.349 | 0.002 | 0.351 | |
plot_gene_coverage | 0.757 | 0.002 | 0.759 | |
plot_polyenrich_spline | 2.552 | 0.084 | 2.636 | |
polyenrich | 4.954 | 0.002 | 4.956 | |
proxReg | 0.499 | 0.002 | 0.500 | |
read_bed | 0.214 | 0.002 | 0.217 | |
supported_genesets | 0.006 | 0.000 | 0.006 | |
supported_genomes | 0.001 | 0.001 | 0.003 | |
supported_locusdefs | 0.004 | 0.003 | 0.008 | |
supported_methods | 0.002 | 0.000 | 0.001 | |
supported_read_lengths | 0.003 | 0.002 | 0.006 | |