Back to Multiple platform build/check report for BioC 3.17 |
|
This page was generated on 2023-04-12 10:55:39 -0400 (Wed, 12 Apr 2023).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 22.04.1 LTS) | x86_64 | 4.3.0 alpha (2023-04-03 r84154) | 4547 |
nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | R Under development (unstable) (2023-02-14 r83833) -- "Unsuffered Consequences" | 4333 |
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 multicrispr package: - 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 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 1318/2207 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
multicrispr 1.9.0 (landing page) Aditya Bhagwat
| nebbiolo1 | Linux (Ubuntu 22.04.1 LTS) / x86_64 | OK | OK | OK | |||||||||
nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | 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/site-library --timings multicrispr_1.9.0.tar.gz |
StartedAt: 2023-04-12 07:45:50 -0400 (Wed, 12 Apr 2023) |
EndedAt: 2023-04-12 07:54:29 -0400 (Wed, 12 Apr 2023) |
EllapsedTime: 518.6 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/site-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) (2023-02-14 r83833) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by gcc (Ubuntu 9.4.0-1ubuntu1~20.04.1) 9.4.0 GNU Fortran (Ubuntu 9.4.0-1ubuntu1~20.04.1) 9.4.0 * running under: Ubuntu 20.04.6 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 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 find_primespacers 18.318 0.611 19.009 index_genome 18.197 0.228 18.426 score_ontargets 15.904 0.449 16.288 up_flank 11.027 0.028 11.030 add_target_matches 10.260 0.703 10.445 add_genome_matches 10.020 0.724 10.711 find_spacers 10.263 0.388 10.716 plot_intervals 9.327 0.187 9.544 extend_for_pe 7.883 0.351 8.283 * 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/site-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) (2023-02-14 r83833) -- "Unsuffered Consequences" 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(multicrispr) > > test_check("multicrispr") [ FAIL 0 | WARN 0 | SKIP 0 | PASS 13 ] > > proc.time() user system elapsed 14.321 0.666 14.973
multicrispr.Rcheck/multicrispr-Ex.timings
name | user | system | elapsed | |
add_genome_matches | 10.020 | 0.724 | 10.711 | |
add_inverse_strand | 1.907 | 0.121 | 2.027 | |
add_seq | 2.521 | 0.064 | 2.586 | |
add_target_matches | 10.260 | 0.703 | 10.445 | |
bed_to_granges | 0.640 | 0.016 | 0.656 | |
char_to_granges | 0.804 | 0.008 | 0.812 | |
double_flank | 2.648 | 0.024 | 2.648 | |
extend_for_pe | 7.883 | 0.351 | 8.283 | |
extend_pe_to_gg | 0.496 | 0.032 | 0.528 | |
extract_matchranges | 3.379 | 0.072 | 3.424 | |
extract_subranges | 0.605 | 0.004 | 0.608 | |
find_gg | 1.427 | 0.019 | 1.448 | |
find_primespacers | 18.318 | 0.611 | 19.009 | |
find_spacers | 10.263 | 0.388 | 10.716 | |
genes_to_granges | 3.186 | 0.136 | 3.324 | |
gr2dt | 0.158 | 0.000 | 0.158 | |
has_been_indexed | 0.000 | 0.000 | 0.001 | |
index_genome | 18.197 | 0.228 | 18.426 | |
index_targets | 1.887 | 0.156 | 2.039 | |
plot_intervals | 9.327 | 0.187 | 9.544 | |
plot_karyogram | 1.232 | 0.008 | 1.240 | |
score_ontargets | 15.904 | 0.449 | 16.288 | |
up_flank | 11.027 | 0.028 | 11.030 | |
write_ranges | 0.201 | 0.000 | 0.202 | |