Back to Multiple platform build/check report for BioC 3.19: simplified long |
|
This page was generated on 2024-10-04 20:41 -0400 (Fri, 04 Oct 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4763 |
palomino7 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4500 |
merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4529 |
kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4479 |
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 424/2300 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
condiments 1.12.0 (landing page) Hector Roux de Bezieux
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | OK | OK | |||||||||
To the developers/maintainers of the condiments package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/condiments.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: condiments |
Version: 1.12.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:condiments.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings condiments_1.12.0.tar.gz |
StartedAt: 2024-10-03 03:05:00 -0400 (Thu, 03 Oct 2024) |
EndedAt: 2024-10-03 03:21:41 -0400 (Thu, 03 Oct 2024) |
EllapsedTime: 1000.2 seconds |
RetCode: 0 |
Status: OK |
CheckDir: condiments.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:condiments.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings condiments_1.12.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.19-bioc/meat/condiments.Rcheck’ * using R version 4.4.1 (2024-06-14) * using platform: x86_64-apple-darwin20 * R was compiled by Apple clang version 14.0.0 (clang-1400.0.29.202) GNU Fortran (GCC) 12.2.0 * running under: macOS Monterey 12.7.6 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘condiments/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘condiments’ version ‘1.12.0’ * 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 ‘condiments’ 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 code 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 ... NOTE .condition_sling: no visible binding for global variable ‘.’ .condition_sling : <anonymous>: no visible binding for global variable ‘.’ .distinct_inputs: no visible binding for global variable ‘Samples’ .distinct_inputs: no visible binding for global variable ‘.’ .fateSelectionTest: no visible binding for global variable ‘pair’ .fateSelectionTest: no visible binding for global variable ‘statistic’ .fateSelectionTest: no visible binding for global variable ‘p.value’ .multiple_samples: no visible binding for global variable ‘p.value’ .progressionTest: no visible binding for global variable ‘lineage’ .progressionTest: no visible binding for global variable ‘statistic’ .progressionTest: no visible binding for global variable ‘p.value’ .topologyTest_multipleSamples: no visible binding for global variable ‘p.value’ fateSelectionTest_multipleSamples,SlingshotDataSet: no visible binding for global variable ‘condition’ progressionTest_multipleSamples,SlingshotDataSet: no visible binding for global variable ‘condition’ Undefined global functions or variables: . Samples condition lineage p.value pair statistic * 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 topologyTest_multipleSamples 9.465 0.074 11.549 topologyTest 9.241 0.109 11.232 fateSelectionTest_multipleSamples 4.113 0.068 5.021 * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘testthat.R’ OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 1 NOTE See ‘/Users/biocbuild/bbs-3.19-bioc/meat/condiments.Rcheck/00check.log’ for details.
condiments.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL condiments ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library’ * installing *source* package ‘condiments’ ... ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** 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 (condiments)
condiments.Rcheck/tests/testthat.Rout
R version 4.4.1 (2024-06-14) -- "Race for Your Life" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: x86_64-apple-darwin20 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(condiments) > library(testthat) > test_check("condiments") note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 2 unique complexity parameters in default grid. Truncating the grid to 2 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 2 unique complexity parameters in default grid. Truncating the grid to 2 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 . [ FAIL 0 | WARN 0 | SKIP 0 | PASS 112 ] > > proc.time() user system elapsed 306.812 8.007 394.548
condiments.Rcheck/condiments-Ex.timings
name | user | system | elapsed | |
create_differential_topology | 0.009 | 0.001 | 0.011 | |
differentiationTest | 3.551 | 0.100 | 4.437 | |
fateSelectionTest | 3.621 | 0.080 | 4.429 | |
fateSelectionTest_multipleSamples | 4.113 | 0.068 | 5.021 | |
imbalance_score | 0.481 | 0.036 | 0.637 | |
merge_sds | 0.711 | 0.011 | 0.871 | |
nLineages | 0.619 | 0.020 | 0.780 | |
progressionTest | 0.848 | 0.092 | 1.139 | |
progressionTest_multipleSamples | 0.735 | 0.053 | 0.961 | |
slingshot_conditions | 1.596 | 0.032 | 1.951 | |
topologyTest | 9.241 | 0.109 | 11.232 | |
topologyTest_multipleSamples | 9.465 | 0.074 | 11.549 | |
weights_from_pst | 0.665 | 0.018 | 0.807 | |