Back to Build/check report for BioC 3.17: simplified long |
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This page was generated on 2023-03-01 07:38:45 -0000 (Wed, 01 Mar 2023).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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kunpeng1 | Linux (Ubuntu 22.04.1 LTS) | aarch64 | R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences" | 4266 |
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To the developers/maintainers of the multicrispr package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/multicrispr.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 1289/2171 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
multicrispr 1.9.0 (landing page) Aditya Bhagwat
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) / aarch64 | OK | OK | OK | |||||||||
Package: multicrispr |
Version: 1.9.0 |
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:multicrispr.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings multicrispr_1.9.0.tar.gz |
StartedAt: 2023-02-28 09:20:14 -0000 (Tue, 28 Feb 2023) |
EndedAt: 2023-02-28 09:29:33 -0000 (Tue, 28 Feb 2023) |
EllapsedTime: 559.7 seconds |
RetCode: 0 |
Status: OK |
CheckDir: multicrispr.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:multicrispr.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings multicrispr_1.9.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/multicrispr.Rcheck’ * using R Under development (unstable) (2023-01-14 r83615) * using platform: aarch64-unknown-linux-gnu (64-bit) * R was compiled by gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0 GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0 * running under: Ubuntu 22.04.1 LTS * using session charset: UTF-8 * checking for file ‘multicrispr/DESCRIPTION’ ... OK * this is package ‘multicrispr’ version ‘1.9.0’ * 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 ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘multicrispr’ 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 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 find_primespacers 22.353 1.579 23.922 score_ontargets 22.298 0.756 23.034 index_genome 18.483 0.352 18.868 up_flank 16.465 0.136 16.600 find_spacers 14.689 0.836 15.517 add_genome_matches 13.355 0.863 14.220 add_target_matches 11.891 0.770 12.373 plot_intervals 11.666 0.825 12.488 extend_for_pe 11.006 0.673 11.676 * 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 ... ‘crispr_grna_design.Rmd’ using ‘UTF-8’... OK ‘genome_arithmetics.Rmd’ using ‘UTF-8’... OK ‘prime_editing.Rmd’ using ‘UTF-8’... OK NONE * checking re-building of vignette outputs ... OK * checking PDF version of manual ... OK * DONE Status: OK
multicrispr.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL multicrispr ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.17-bioc/R/library’ * installing *source* package ‘multicrispr’ ... ** 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 (multicrispr)
multicrispr.Rcheck/tests/testthat.Rout
R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences" 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(multicrispr) > > test_check("multicrispr") [ FAIL 0 | WARN 0 | SKIP 0 | PASS 13 ] > > proc.time() user system elapsed 17.627 1.128 18.741
multicrispr.Rcheck/multicrispr-Ex.timings
name | user | system | elapsed | |
add_genome_matches | 13.355 | 0.863 | 14.220 | |
add_inverse_strand | 2.404 | 0.028 | 2.431 | |
add_seq | 2.947 | 0.144 | 3.090 | |
add_target_matches | 11.891 | 0.770 | 12.373 | |
bed_to_granges | 0.878 | 0.052 | 0.930 | |
char_to_granges | 1.185 | 0.020 | 1.206 | |
double_flank | 3.470 | 0.072 | 3.541 | |
extend_for_pe | 11.006 | 0.673 | 11.676 | |
extend_pe_to_gg | 0.626 | 0.059 | 0.685 | |
extract_matchranges | 3.740 | 0.229 | 3.963 | |
extract_subranges | 0.773 | 0.040 | 0.813 | |
find_gg | 1.455 | 0.084 | 1.539 | |
find_primespacers | 22.353 | 1.579 | 23.922 | |
find_spacers | 14.689 | 0.836 | 15.517 | |
genes_to_granges | 4.441 | 0.212 | 4.658 | |
gr2dt | 0.236 | 0.008 | 0.244 | |
has_been_indexed | 0 | 0 | 0 | |
index_genome | 18.483 | 0.352 | 18.868 | |
index_targets | 2.762 | 0.417 | 3.176 | |
plot_intervals | 11.666 | 0.825 | 12.488 | |
plot_karyogram | 1.489 | 0.028 | 1.517 | |
score_ontargets | 22.298 | 0.756 | 23.034 | |
up_flank | 16.465 | 0.136 | 16.600 | |
write_ranges | 0.205 | 0.003 | 0.208 | |