Back to Build/check report for BioC 3.18: simplified long |
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This page was generated on 2023-06-06 11:00:40 -0000 (Tue, 06 Jun 2023).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.3.0 (2023-04-21) -- "Already Tomorrow" | 4366 |
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 ribor package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/ribor.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. Note: If "R CMD check" recently failed on the Linux builder over a missing dependency, add the missing dependency to "Suggests" in your DESCRIPTION file. See the Renviron.bioc for details. |
Package 1691/2199 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
ribor 1.13.0 (landing page) Michael Geng
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | |||||||||
Package: ribor |
Version: 1.13.0 |
Command: /home/biocbuild/R/R-4.3.0/bin/R CMD check --install=check:ribor.install-out.txt --library=/home/biocbuild/R/R-4.3.0/site-library --timings ribor_1.13.0.tar.gz |
StartedAt: 2023-06-06 05:20:30 -0000 (Tue, 06 Jun 2023) |
EndedAt: 2023-06-06 05:23:38 -0000 (Tue, 06 Jun 2023) |
EllapsedTime: 188.3 seconds |
RetCode: 0 |
Status: OK |
CheckDir: ribor.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R-4.3.0/bin/R CMD check --install=check:ribor.install-out.txt --library=/home/biocbuild/R/R-4.3.0/site-library --timings ribor_1.13.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.18-bioc/meat/ribor.Rcheck’ * using R version 4.3.0 (2023-04-21) * using platform: aarch64-unknown-linux-gnu (64-bit) * R was compiled by gcc (GCC) 10.3.1 GNU Fortran (GCC) 10.3.1 * running under: openEuler 22.03 (LTS-SP1) * using session charset: UTF-8 * checking for file ‘ribor/DESCRIPTION’ ... OK * this is package ‘ribor’ version ‘1.13.0’ * 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 ... NOTE Found the following hidden files and directories: .travis.yml These were most likely included in error. See section ‘Package structure’ in the ‘Writing R Extensions’ manual. * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘ribor’ can be installed ... OK * checking installed package size ... NOTE installed size is 5.1Mb sub-directories of 1Mb or more: extdata 4.7Mb * 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 * 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 ... ‘ribor.Rmd’ using ‘UTF-8’... OK NONE * checking re-building of vignette outputs ... OK * checking PDF version of manual ... OK * DONE Status: 2 NOTEs See ‘/home/biocbuild/bbs-3.18-bioc/meat/ribor.Rcheck/00check.log’ for details.
ribor.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R-4.3.0/bin/R CMD INSTALL ribor ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.3.0/site-library’ * installing *source* package ‘ribor’ ... ** 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 (ribor)
ribor.Rcheck/tests/testthat.Rout
R version 4.3.0 (2023-04-21) -- "Already Tomorrow" Copyright (C) 2023 The R Foundation for Statistical Computing Platform: aarch64-unknown-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(ribor) > > test_check("ribor") [ FAIL 0 | WARN 3 | SKIP 0 | PASS 96 ] [ FAIL 0 | WARN 3 | SKIP 0 | PASS 96 ] > > proc.time() user system elapsed 29.187 1.021 30.256
ribor.Rcheck/ribor-Ex.timings
name | user | system | elapsed | |
get_coverage | 0.399 | 0.020 | 0.422 | |
get_experiments | 0.159 | 0.012 | 0.171 | |
get_info | 0.185 | 0.016 | 0.202 | |
get_internal_region_coordinates | 2.497 | 0.032 | 2.609 | |
get_internal_region_lengths | 2.668 | 0.092 | 2.765 | |
get_length_distribution | 0.366 | 0.004 | 0.371 | |
get_metadata | 0.146 | 0.000 | 0.147 | |
get_metagene | 0.559 | 0.004 | 0.563 | |
get_original_region_coordinates | 2.979 | 0.036 | 3.020 | |
get_original_region_lengths | 2.895 | 0.036 | 2.936 | |
get_reference_names | 0.894 | 0.004 | 0.899 | |
get_region_counts | 0.269 | 0.008 | 0.278 | |
get_rnaseq | 0.316 | 0.004 | 0.321 | |
get_tidy_metagene | 0.875 | 0.016 | 0.893 | |
plot_length_distribution | 1.419 | 0.036 | 1.458 | |
plot_metagene | 1.753 | 0.020 | 1.777 | |
plot_region_counts | 1.464 | 0.023 | 1.491 | |
rename_default | 0.000 | 0.001 | 0.000 | |
rename_transcripts | 2.531 | 0.012 | 2.549 | |
ribo-class | 1.784 | 0.051 | 1.841 | |
set_aliases | 1.725 | 0.012 | 1.741 | |