Back to Multiple platform build/check report for BioC 3.18: simplified long |
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This page was generated on 2023-11-02 11:40:41 -0400 (Thu, 02 Nov 2023).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 22.04.2 LTS) | x86_64 | 4.3.1 (2023-06-16) -- "Beagle Scouts" | 4729 |
palomino4 | Windows Server 2022 Datacenter | x64 | 4.3.1 (2023-06-16 ucrt) -- "Beagle Scouts" | 4463 |
lconway | macOS 12.6.5 Monterey | x86_64 | 4.3.1 Patched (2023-06-17 r84564) -- "Beagle Scouts" | 4478 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.3.1 (2023-06-16) -- "Beagle Scouts" | 4464 |
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 730/2266 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
flowGraph 1.10.0 (landing page) Alice Yue
| nebbiolo2 | Linux (Ubuntu 22.04.2 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
lconway | macOS 12.6.5 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson1 | macOS 13.6.1 Ventura / arm64 | see weekly results here | ||||||||||||
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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
Package: flowGraph |
Version: 1.10.0 |
Command: /home/biocbuild/R/R-4.3.1/bin/R CMD check --install=check:flowGraph.install-out.txt --library=/home/biocbuild/R/R-4.3.1/site-library --no-vignettes --timings flowGraph_1.10.0.tar.gz |
StartedAt: 2023-11-02 10:34:21 -0000 (Thu, 02 Nov 2023) |
EndedAt: 2023-11-02 10:39:13 -0000 (Thu, 02 Nov 2023) |
EllapsedTime: 291.7 seconds |
RetCode: 0 |
Status: OK |
CheckDir: flowGraph.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R-4.3.1/bin/R CMD check --install=check:flowGraph.install-out.txt --library=/home/biocbuild/R/R-4.3.1/site-library --no-vignettes --timings flowGraph_1.10.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.18-bioc/meat/flowGraph.Rcheck’ * using R version 4.3.1 (2023-06-16) * using platform: aarch64-unknown-linux-gnu (64-bit) * R was compiled by gcc (GCC) 10.3.1 GNU Fortran (GCC) 10.3.1 * running under: openEuler 22.03 (LTS-SP1) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘flowGraph/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘flowGraph’ version ‘1.10.0’ * 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 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 ... 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 53.725 0.674 54.500 fg_load 52.621 0.847 53.573 fg_save_plots 52.580 0.655 53.342 * 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 ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 1 NOTE See ‘/home/biocbuild/bbs-3.18-bioc/meat/flowGraph.Rcheck/00check.log’ for details.
flowGraph.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R-4.3.1/bin/R CMD INSTALL flowGraph ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.3.1/site-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 version 4.3.1 (2023-06-16) -- "Beagle Scouts" Copyright (C) 2023 The R Foundation for Statistical Computing Platform: aarch64-unknown-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(flowGraph) > > test_check("flowGraph") [ FAIL 0 | WARN 0 | SKIP 0 | PASS 34 ] > > proc.time() user system elapsed 6.760 0.303 7.110
flowGraph.Rcheck/flowGraph-Ex.timings
name | user | system | elapsed | |
cell_type_layers | 0.004 | 0.000 | 0.004 | |
fg_add_feature | 0.457 | 0.000 | 0.466 | |
fg_add_summary | 1.219 | 0.000 | 1.221 | |
fg_clean_phen | 0.000 | 0.000 | 0.001 | |
fg_clear_features | 1.210 | 0.000 | 1.213 | |
fg_clear_summary | 0.475 | 0.032 | 0.508 | |
fg_extract_phenotypes | 0.373 | 0.004 | 0.377 | |
fg_extract_raw | 1.135 | 0.000 | 1.137 | |
fg_extract_samples | 0.387 | 0.000 | 0.387 | |
fg_feat_cumsum | 0.367 | 0.000 | 0.367 | |
fg_feat_edge_specenr | 0.524 | 0.004 | 0.529 | |
fg_feat_mean_class | 0.372 | 0.000 | 0.373 | |
fg_feat_node_prop | 0.373 | 0.000 | 0.375 | |
fg_feat_node_specenr | 0.524 | 0.000 | 0.526 | |
fg_feat_prop_edge | 0.390 | 0.028 | 0.419 | |
fg_get_feature | 0.373 | 0.016 | 0.389 | |
fg_get_feature_desc | 1.165 | 0.004 | 1.172 | |
fg_get_feature_means | 1.837 | 0.000 | 1.840 | |
fg_get_graph | 0.365 | 0.000 | 0.366 | |
fg_get_markers | 0.373 | 0.000 | 0.373 | |
fg_get_meta | 0.359 | 0.000 | 0.359 | |
fg_get_summary | 2.566 | 0.020 | 2.591 | |
fg_get_summary_desc | 1.181 | 0.000 | 1.183 | |
fg_get_summary_index | 2.788 | 0.012 | 2.804 | |
fg_get_summary_tables | 1.723 | 0.000 | 1.726 | |
fg_gsub_ids | 0.353 | 0.000 | 0.354 | |
fg_gsub_markers | 0.433 | 0.004 | 0.438 | |
fg_load | 52.621 | 0.847 | 53.573 | |
fg_merge | 0.379 | 0.004 | 0.383 | |
fg_merge_samples | 0.398 | 0.000 | 0.399 | |
fg_plot | 0.569 | 0.004 | 0.574 | |
fg_plot_box | 0.966 | 0.000 | 0.968 | |
fg_plot_pVSdiff | 0.539 | 0.004 | 0.545 | |
fg_plot_qq | 1.649 | 0.008 | 1.676 | |
fg_replace_meta | 0.389 | 0.000 | 0.390 | |
fg_rm_feature | 1.225 | 0.036 | 1.263 | |
fg_rm_summary | 0.513 | 0.000 | 0.514 | |
fg_save | 53.725 | 0.674 | 54.500 | |
fg_save_plots | 52.580 | 0.655 | 53.342 | |
fg_set_layout | 0.420 | 0.000 | 0.422 | |
fg_summary | 0.525 | 0.003 | 0.530 | |
flowGraph-class | 0.001 | 0.000 | 0.001 | |
flowGraph | 1.736 | 0.000 | 1.739 | |
flowGraphSubset | 0.001 | 0.000 | 0.000 | |
flowGraphSubset_summary_adjust | 0 | 0 | 0 | |
flowGraphSubset_summary_pars | 0.000 | 0.000 | 0.001 | |
get_phen_list | 0.016 | 0.000 | 0.016 | |
get_phen_meta | 0.002 | 0.000 | 0.002 | |
ggdf | 0.402 | 0.000 | 0.403 | |
loop_ind_f | 0.001 | 0.000 | 0.000 | |
meandiff | 0.001 | 0.000 | 0.000 | |
plot_gr | 1.989 | 0.012 | 2.025 | |
set_layout_graph | 0.405 | 0.008 | 0.414 | |
summary_table | 0.004 | 0.000 | 0.004 | |
time_output | 0.001 | 0.000 | 0.001 | |
tstr | 0.001 | 0.000 | 0.000 | |