Back to Multiple platform build/check report for BioC 3.19: simplified long |
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This page was generated on 2024-03-04 11:39:12 -0500 (Mon, 04 Mar 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | R Under development (unstable) (2024-01-16 r85808) -- "Unsuffered Consequences" | 4676 |
palomino3 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-01-14 r85805 ucrt) -- "Unsuffered Consequences" | 4414 |
merida1 | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-01-16 r85808) -- "Unsuffered Consequences" | 4441 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-01-16 r85812) -- "Unsuffered Consequences" | 4417 |
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 730/2251 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
flowGraph 1.11.0 (landing page) Alice Yue
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
merida1 | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
To the developers/maintainers of the flowGraph package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/flowGraph.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: flowGraph |
Version: 1.11.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:flowGraph.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings flowGraph_1.11.0.tar.gz |
StartedAt: 2024-03-02 04:07:55 -0500 (Sat, 02 Mar 2024) |
EndedAt: 2024-03-02 04:17:18 -0500 (Sat, 02 Mar 2024) |
EllapsedTime: 563.7 seconds |
RetCode: 0 |
Status: OK |
CheckDir: flowGraph.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:flowGraph.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings flowGraph_1.11.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.19-bioc/meat/flowGraph.Rcheck’ * using R Under development (unstable) (2024-01-16 r85808) * 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 12.7.1 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘flowGraph/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘flowGraph’ version ‘1.11.0’ * 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 ‘flowGraph’ 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 ... NOTE get_child: no visible binding for global variable ‘no_cores’ get_paren: no visible binding for global variable ‘no_cores’ ms_psig: no visible binding for global variable ‘meta’ Undefined global functions or variables: meta no_cores * 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 fg_save_plots 82.909 1.028 102.284 fg_save 82.073 0.957 100.116 fg_load 79.686 1.168 97.865 fg_get_summary 4.324 0.037 5.249 * 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/flowGraph.Rcheck/00check.log’ for details.
flowGraph.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL flowGraph ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library’ * installing *source* package ‘flowGraph’ ... ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help Loading required namespace: flowGraph *** 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 (flowGraph)
flowGraph.Rcheck/tests/testthat.Rout
R Under development (unstable) (2024-01-16 r85808) -- "Unsuffered Consequences" 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(testthat) > library(flowGraph) > > test_check("flowGraph") [ FAIL 0 | WARN 0 | SKIP 0 | PASS 34 ] > > proc.time() user system elapsed 11.529 0.582 14.605
flowGraph.Rcheck/flowGraph-Ex.timings
name | user | system | elapsed | |
cell_type_layers | 0.006 | 0.001 | 0.007 | |
fg_add_feature | 0.757 | 0.019 | 0.895 | |
fg_add_summary | 2.157 | 0.027 | 2.529 | |
fg_clean_phen | 0 | 0 | 0 | |
fg_clear_features | 2.068 | 0.024 | 2.445 | |
fg_clear_summary | 0.807 | 0.012 | 0.934 | |
fg_extract_phenotypes | 0.639 | 0.010 | 0.748 | |
fg_extract_raw | 2.013 | 0.020 | 2.351 | |
fg_extract_samples | 0.635 | 0.011 | 0.746 | |
fg_feat_cumsum | 0.616 | 0.009 | 0.734 | |
fg_feat_edge_specenr | 1.004 | 0.013 | 1.319 | |
fg_feat_mean_class | 0.627 | 0.009 | 0.818 | |
fg_feat_node_prop | 0.617 | 0.009 | 0.811 | |
fg_feat_node_specenr | 0.985 | 0.013 | 1.242 | |
fg_feat_prop_edge | 0.638 | 0.010 | 0.813 | |
fg_get_feature | 0.615 | 0.007 | 0.778 | |
fg_get_feature_desc | 2.041 | 0.022 | 2.490 | |
fg_get_feature_means | 3.104 | 0.030 | 3.798 | |
fg_get_graph | 0.628 | 0.011 | 0.776 | |
fg_get_markers | 0.605 | 0.007 | 0.727 | |
fg_get_meta | 0.624 | 0.009 | 0.742 | |
fg_get_summary | 4.324 | 0.037 | 5.249 | |
fg_get_summary_desc | 1.926 | 0.016 | 2.040 | |
fg_get_summary_index | 3.193 | 0.045 | 3.304 | |
fg_get_summary_tables | 2.253 | 0.038 | 2.326 | |
fg_gsub_ids | 0.498 | 0.008 | 0.520 | |
fg_gsub_markers | 0.672 | 0.015 | 0.754 | |
fg_load | 79.686 | 1.168 | 97.865 | |
fg_merge | 0.617 | 0.011 | 0.711 | |
fg_merge_samples | 0.649 | 0.010 | 0.754 | |
fg_plot | 0.947 | 0.012 | 1.101 | |
fg_plot_box | 1.428 | 0.016 | 1.670 | |
fg_plot_pVSdiff | 0.883 | 0.009 | 1.018 | |
fg_plot_qq | 2.454 | 0.404 | 3.430 | |
fg_replace_meta | 0.634 | 0.011 | 0.748 | |
fg_rm_feature | 2.050 | 0.026 | 2.388 | |
fg_rm_summary | 0.831 | 0.012 | 0.981 | |
fg_save | 82.073 | 0.957 | 100.116 | |
fg_save_plots | 82.909 | 1.028 | 102.284 | |
fg_set_layout | 0.635 | 0.014 | 0.787 | |
fg_summary | 0.897 | 0.014 | 1.114 | |
flowGraph-class | 0.001 | 0.001 | 0.003 | |
flowGraph | 2.952 | 0.040 | 3.556 | |
flowGraphSubset | 0.000 | 0.000 | 0.001 | |
flowGraphSubset_summary_adjust | 0.001 | 0.001 | 0.003 | |
flowGraphSubset_summary_pars | 0.000 | 0.002 | 0.003 | |
get_phen_list | 0.026 | 0.001 | 0.031 | |
get_phen_meta | 0.004 | 0.001 | 0.005 | |
ggdf | 0.632 | 0.013 | 0.742 | |
loop_ind_f | 0.001 | 0.001 | 0.002 | |
meandiff | 0.001 | 0.000 | 0.002 | |
plot_gr | 2.966 | 0.073 | 3.564 | |
set_layout_graph | 0.654 | 0.105 | 0.867 | |
summary_table | 0.008 | 0.001 | 0.009 | |
time_output | 0.001 | 0.001 | 0.002 | |
tstr | 0.000 | 0.001 | 0.000 | |