Back to Build/check report for BioC 3.17: simplified long |
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This page was generated on 2023-03-01 07:38:49 -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 |
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 rifiComparative package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/rifiComparative.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 1674/2171 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
rifiComparative 0.99.5 (landing page) Loubna Youssar
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) / aarch64 | OK | OK | OK | |||||||||
Package: rifiComparative |
Version: 0.99.5 |
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:rifiComparative.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings rifiComparative_0.99.5.tar.gz |
StartedAt: 2023-02-28 13:07:53 -0000 (Tue, 28 Feb 2023) |
EndedAt: 2023-02-28 13:31:16 -0000 (Tue, 28 Feb 2023) |
EllapsedTime: 1402.8 seconds |
RetCode: 0 |
Status: OK |
CheckDir: rifiComparative.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:rifiComparative.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings rifiComparative_0.99.5.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/rifiComparative.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 ‘rifiComparative/DESCRIPTION’ ... OK * this is package ‘rifiComparative’ version ‘0.99.5’ * 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: .BBSoptions .man 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 ‘rifiComparative’ can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking ‘build’ directory ... OK * checking DESCRIPTION meta-information ... NOTE Malformed Title field: should not end in a period. Warning in person1(given = given[[i]], family = family[[i]], middle = middle[[i]], : It is recommended to use ‘given’ instead of ‘middle’. * 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 contents of ‘data’ directory ... OK * checking data for non-ASCII characters ... OK * checking data for ASCII and uncompressed saves ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed penalties 492.373 273.615 416.175 make_pen 163.091 90.779 137.882 rifi_visualization_comparison 52.551 2.379 54.847 fragmentation 30.374 1.733 45.474 gff3_preprocess 21.881 1.423 0.606 figures_fun 5.126 0.104 5.131 * checking for unstated dependencies in vignettes ... OK * checking package vignettes in ‘inst/doc’ ... OK * checking running R code from vignettes ... ‘rifiComparative.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-3.17-bioc/meat/rifiComparative.Rcheck/00check.log’ for details.
rifiComparative.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL rifiComparative ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.17-bioc/R/library’ * installing *source* package ‘rifiComparative’ ... ** using staged installation Warning in person1(given = given[[i]], family = family[[i]], middle = middle[[i]], : It is recommended to use ‘given’ instead of ‘middle’. Warning in person1(given = given[[i]], family = family[[i]], middle = middle[[i]], : It is recommended to use ‘given’ instead of ‘middle’. ** R ** data ** 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 (rifiComparative)
rifiComparative.Rcheck/rifiComparative-Ex.timings
name | user | system | elapsed | |
adjusting_HLToInt | 2.228 | 0.036 | 2.264 | |
figures_fun | 5.126 | 0.104 | 5.131 | |
fragmentation | 30.374 | 1.733 | 45.474 | |
gff3_preprocess | 21.881 | 1.423 | 0.606 | |
joining_data_column | 0.038 | 0.004 | 0.042 | |
joining_data_row | 0.018 | 0.004 | 0.022 | |
loading_fun | 0.422 | 0.020 | 0.441 | |
make_pen | 163.091 | 90.779 | 137.882 | |
penalties | 492.373 | 273.615 | 416.175 | |
rifi_visualization_comparison | 52.551 | 2.379 | 54.847 | |
statistics | 0.079 | 0.000 | 0.079 | |