| Back to Mac ARM64 build report for BioC 3.18 |
|
This page was generated on 2024-04-18 11:32:10 -0400 (Thu, 18 Apr 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kjohnson1 | macOS 13.6.1 Ventura | arm64 | 4.3.3 (2024-02-29) -- "Angel Food Cake" | 4388 |
| 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
| kjohnson1 | macOS 13.6.1 Ventura / arm64 | OK | OK | OK | OK | ||||||||
|
To the developers/maintainers of the flowGraph package: - 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: 1.10.0 |
| 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_1.10.0.tar.gz |
| StartedAt: 2024-04-17 13:55:42 -0400 (Wed, 17 Apr 2024) |
| EndedAt: 2024-04-17 14:00:10 -0400 (Wed, 17 Apr 2024) |
| EllapsedTime: 267.9 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: flowGraph.Rcheck |
| Warnings: 0 |
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###
### 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_1.10.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.18-bioc-mac-arm64/meat/flowGraph.Rcheck’
* using R version 4.3.3 (2024-02-29)
* using platform: aarch64-apple-darwin20 (64-bit)
* R was compiled by
Apple clang version 14.0.0 (clang-1400.0.29.202)
GNU Fortran (GCC) 12.2.0
* running under: macOS Ventura 13.6.1
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘flowGraph/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘flowGraph’ version ‘1.10.0’
* 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 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 49.689 0.374 52.885
fg_save 48.116 0.313 49.029
fg_load 46.711 0.382 47.468
* 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
‘/Users/biocbuild/bbs-3.18-bioc-mac-arm64/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/4.3-arm64/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 version 4.3.3 (2024-02-29) -- "Angel Food Cake"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: aarch64-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(testthat)
> library(flowGraph)
>
> test_check("flowGraph")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 34 ]
>
> proc.time()
user system elapsed
5.42 0.29 5.79
flowGraph.Rcheck/flowGraph-Ex.timings
| name | user | system | elapsed | |
| cell_type_layers | 0.005 | 0.001 | 0.009 | |
| fg_add_feature | 0.314 | 0.009 | 0.331 | |
| fg_add_summary | 0.789 | 0.010 | 0.800 | |
| fg_clean_phen | 0.001 | 0.001 | 0.000 | |
| fg_clear_features | 0.759 | 0.008 | 0.767 | |
| fg_clear_summary | 0.280 | 0.004 | 0.284 | |
| fg_extract_phenotypes | 0.238 | 0.005 | 0.245 | |
| fg_extract_raw | 0.752 | 0.006 | 0.763 | |
| fg_extract_samples | 0.228 | 0.004 | 0.234 | |
| fg_feat_cumsum | 0.225 | 0.003 | 0.228 | |
| fg_feat_edge_specenr | 0.398 | 0.006 | 0.411 | |
| fg_feat_mean_class | 0.239 | 0.005 | 0.252 | |
| fg_feat_node_prop | 0.222 | 0.004 | 0.227 | |
| fg_feat_node_specenr | 0.397 | 0.007 | 0.406 | |
| fg_feat_prop_edge | 0.220 | 0.005 | 0.230 | |
| fg_get_feature | 0.222 | 0.004 | 0.227 | |
| fg_get_feature_desc | 0.780 | 0.007 | 0.790 | |
| fg_get_feature_means | 1.144 | 0.008 | 1.161 | |
| fg_get_graph | 0.220 | 0.003 | 0.223 | |
| fg_get_markers | 0.210 | 0.004 | 0.215 | |
| fg_get_meta | 0.223 | 0.003 | 0.226 | |
| fg_get_summary | 1.555 | 0.010 | 1.569 | |
| fg_get_summary_desc | 0.759 | 0.006 | 0.766 | |
| fg_get_summary_index | 1.759 | 0.021 | 1.780 | |
| fg_get_summary_tables | 0.999 | 0.009 | 1.008 | |
| fg_gsub_ids | 0.202 | 0.005 | 0.206 | |
| fg_gsub_markers | 0.255 | 0.005 | 0.260 | |
| fg_load | 46.711 | 0.382 | 47.468 | |
| fg_merge | 0.267 | 0.005 | 0.275 | |
| fg_merge_samples | 0.294 | 0.004 | 0.300 | |
| fg_plot | 0.394 | 0.005 | 0.402 | |
| fg_plot_box | 0.578 | 0.007 | 0.589 | |
| fg_plot_pVSdiff | 0.336 | 0.004 | 0.340 | |
| fg_plot_qq | 1.107 | 0.057 | 1.186 | |
| fg_replace_meta | 0.242 | 0.004 | 0.245 | |
| fg_rm_feature | 0.998 | 0.009 | 1.018 | |
| fg_rm_summary | 0.365 | 0.004 | 0.371 | |
| fg_save | 48.116 | 0.313 | 49.029 | |
| fg_save_plots | 49.689 | 0.374 | 52.885 | |
| fg_set_layout | 0.277 | 0.005 | 0.282 | |
| fg_summary | 0.321 | 0.005 | 0.349 | |
| flowGraph-class | 0.001 | 0.001 | 0.001 | |
| flowGraph | 1.256 | 0.013 | 1.498 | |
| flowGraphSubset | 0.000 | 0.000 | 0.001 | |
| flowGraphSubset_summary_adjust | 0.000 | 0.001 | 0.001 | |
| flowGraphSubset_summary_pars | 0.000 | 0.001 | 0.001 | |
| get_phen_list | 0.013 | 0.001 | 0.014 | |
| get_phen_meta | 0.002 | 0.000 | 0.001 | |
| ggdf | 0.275 | 0.007 | 0.355 | |
| loop_ind_f | 0.001 | 0.000 | 0.001 | |
| meandiff | 0.001 | 0.000 | 0.001 | |
| plot_gr | 1.482 | 0.029 | 1.894 | |
| set_layout_graph | 0.295 | 0.040 | 0.410 | |
| summary_table | 0.004 | 0.000 | 0.005 | |
| time_output | 0.001 | 0.001 | 0.000 | |
| tstr | 0 | 0 | 0 | |