Back to Multiple platform build/check report for BioC 3.18: simplified long |
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This page was generated on 2024-03-04 11:37:09 -0500 (Mon, 04 Mar 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.3.2 Patched (2023-11-13 r85521) -- "Eye Holes" | 4692 |
palomino4 | Windows Server 2022 Datacenter | x64 | 4.3.2 (2023-10-31 ucrt) -- "Eye Holes" | 4445 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.3.2 Patched (2023-11-01 r85457) -- "Eye Holes" | 4466 |
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 184/2266 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
BioCor 1.26.0 (landing page) Lluís Revilla Sancho
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson1 | macOS 13.6.1 Ventura / arm64 | see weekly results here | ||||||||||||
To the developers/maintainers of the BioCor package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/BioCor.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: BioCor |
Version: 1.26.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:BioCor.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings BioCor_1.26.0.tar.gz |
StartedAt: 2024-03-03 19:12:29 -0500 (Sun, 03 Mar 2024) |
EndedAt: 2024-03-03 19:15:52 -0500 (Sun, 03 Mar 2024) |
EllapsedTime: 203.2 seconds |
RetCode: 0 |
Status: OK |
CheckDir: BioCor.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:BioCor.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings BioCor_1.26.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.18-bioc/meat/BioCor.Rcheck’ * using R version 4.3.2 Patched (2023-11-01 r85457) * using platform: x86_64-apple-darwin20 (64-bit) * R was compiled by Apple clang version 14.0.3 (clang-1403.0.22.14.1) GNU Fortran (GCC) 12.2.0 * running under: macOS Monterey 12.7.1 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘BioCor/DESCRIPTION’ ... OK * this is package ‘BioCor’ version ‘1.26.0’ * 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 ‘BioCor’ 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 R/sysdata.rda ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘spelling.R’ Running ‘testthat.R’ OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes in ‘inst/doc’ ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: OK
BioCor.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL BioCor ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library’ * installing *source* package ‘BioCor’ ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading Creating a generic function from function ‘clusterGeneSim’ in package ‘BioCor’ Creating a generic function from function ‘clusterSim’ in package ‘BioCor’ Creating a generic function from function ‘geneSim’ in package ‘BioCor’ Creating a generic function from function ‘mclusterGeneSim’ in package ‘BioCor’ Creating a generic function from function ‘mclusterSim’ in package ‘BioCor’ Creating a generic function from function ‘mgeneSim’ in package ‘BioCor’ Creating a generic function from function ‘mpathSim’ in package ‘BioCor’ Creating a generic function from function ‘pathSim’ in package ‘BioCor’ ** help *** installing help indices *** copying figures ** 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 (BioCor)
BioCor.Rcheck/tests/spelling.Rout
R version 4.3.2 Patched (2023-11-01 r85457) -- "Eye Holes" Copyright (C) 2023 The R Foundation for Statistical Computing Platform: x86_64-apple-darwin20 (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. > if(requireNamespace('spelling', quietly = TRUE)) + spelling::spell_check_test(vignettes = TRUE, error = FALSE, + skip_on_cran = TRUE) NULL > > proc.time() user system elapsed 0.219 0.081 0.296
BioCor.Rcheck/tests/testthat.Rout
R version 4.3.2 Patched (2023-11-01 r85457) -- "Eye Holes" Copyright (C) 2023 The R Foundation for Statistical Computing Platform: x86_64-apple-darwin20 (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("BioCor") > > if (requireNamespace("testthat", quietly = TRUE)) { + library("testthat") + test_check("BioCor") + } [ FAIL 0 | WARN 0 | SKIP 0 | PASS 322 ] > > proc.time() user system elapsed 18.560 1.016 20.079
BioCor.Rcheck/BioCor-Ex.timings
name | user | system | elapsed | |
AintoB | 0.001 | 0.007 | 0.008 | |
addSimilarities | 0.008 | 0.002 | 0.009 | |
clusterGeneSim | 3.133 | 0.182 | 3.357 | |
clusterSim | 2.124 | 0.083 | 2.237 | |
combinadic | 0.001 | 0.000 | 0.001 | |
combineScores | 0.008 | 0.001 | 0.009 | |
combineSources | 0.003 | 0.001 | 0.004 | |
conversions | 0.001 | 0.001 | 0.000 | |
diceSim | 0.001 | 0.001 | 0.001 | |
duplicateIndices | 0.001 | 0.001 | 0.001 | |
geneSim | 4.658 | 0.179 | 4.901 | |
mclusterGeneSim | 2.251 | 0.073 | 2.408 | |
mclusterSim | 1.756 | 0.065 | 1.838 | |
mgeneSim | 3.140 | 0.113 | 3.287 | |
mpathSim | 4.208 | 0.132 | 4.388 | |
pathSim | 2.203 | 0.062 | 2.288 | |
plot_similarity | 3.595 | 0.125 | 3.748 | |
removeDup | 0.004 | 0.000 | 0.005 | |
seq2mat | 0.001 | 0.001 | 0.001 | |
similarities | 0.005 | 0.001 | 0.006 | |
weighted | 0.000 | 0.000 | 0.002 | |