| Back to Multiple platform build/check report for BioC 3.15 |
|
This page was generated on 2022-10-19 13:20:16 -0400 (Wed, 19 Oct 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | 4.2.1 (2022-06-23) -- "Funny-Looking Kid" | 4386 |
| palomino3 | Windows Server 2022 Datacenter | x64 | 4.2.1 (2022-06-23 ucrt) -- "Funny-Looking Kid" | 4138 |
| merida1 | macOS 10.14.6 Mojave | x86_64 | 4.2.1 (2022-06-23) -- "Funny-Looking Kid" | 4205 |
| 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 | ||||
|
To the developers/maintainers of the flowGraph package: - Please 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 How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 683/2140 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| flowGraph 1.4.0 (landing page) Alice Yue
| nebbiolo1 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | OK | OK | OK | |||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
| merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |||||||||
| Package: flowGraph |
| Version: 1.4.0 |
| Command: /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD check --install=check:flowGraph.install-out.txt --library=/home/biocbuild/bbs-3.15-bioc/R/library --no-vignettes --timings flowGraph_1.4.0.tar.gz |
| StartedAt: 2022-10-18 19:46:38 -0400 (Tue, 18 Oct 2022) |
| EndedAt: 2022-10-18 19:50:09 -0400 (Tue, 18 Oct 2022) |
| EllapsedTime: 211.6 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: flowGraph.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD check --install=check:flowGraph.install-out.txt --library=/home/biocbuild/bbs-3.15-bioc/R/library --no-vignettes --timings flowGraph_1.4.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.15-bioc/meat/flowGraph.Rcheck’
* using R version 4.2.1 (2022-06-23)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘flowGraph/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘flowGraph’ version ‘1.4.0’
* 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 37.890 0.592 38.482
fg_save 36.733 0.624 37.357
fg_load 35.360 0.664 36.025
* 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-3.15-bioc/meat/flowGraph.Rcheck/00check.log’
for details.
flowGraph.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD INSTALL flowGraph ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.15-bioc/R/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 4.2.1 (2022-06-23) -- "Funny-Looking Kid"
Copyright (C) 2022 The R Foundation for Statistical Computing
Platform: x86_64-pc-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
4.771 0.206 4.961
flowGraph.Rcheck/flowGraph-Ex.timings
| name | user | system | elapsed | |
| cell_type_layers | 0.003 | 0.000 | 0.003 | |
| fg_add_feature | 0.320 | 0.004 | 0.323 | |
| fg_add_summary | 0.768 | 0.000 | 0.767 | |
| fg_clean_phen | 0.000 | 0.001 | 0.000 | |
| fg_clear_features | 0.733 | 0.019 | 0.752 | |
| fg_clear_summary | 0.287 | 0.000 | 0.287 | |
| fg_extract_phenotypes | 0.216 | 0.000 | 0.216 | |
| fg_extract_raw | 0.682 | 0.012 | 0.694 | |
| fg_extract_samples | 0.216 | 0.000 | 0.216 | |
| fg_feat_cumsum | 0.222 | 0.004 | 0.225 | |
| fg_feat_edge_specenr | 0.328 | 0.004 | 0.332 | |
| fg_feat_mean_class | 0.218 | 0.000 | 0.219 | |
| fg_feat_node_prop | 0.211 | 0.004 | 0.215 | |
| fg_feat_node_specenr | 0.344 | 0.032 | 0.375 | |
| fg_feat_prop_edge | 0.279 | 0.008 | 0.287 | |
| fg_get_feature | 0.228 | 0.000 | 0.228 | |
| fg_get_feature_desc | 0.686 | 0.008 | 0.694 | |
| fg_get_feature_means | 1.109 | 0.004 | 1.112 | |
| fg_get_graph | 0.230 | 0.000 | 0.231 | |
| fg_get_markers | 0.227 | 0.000 | 0.227 | |
| fg_get_meta | 0.228 | 0.004 | 0.233 | |
| fg_get_summary | 1.547 | 0.000 | 1.547 | |
| fg_get_summary_desc | 0.729 | 0.000 | 0.730 | |
| fg_get_summary_index | 1.718 | 0.080 | 1.799 | |
| fg_get_summary_tables | 0.973 | 0.008 | 0.980 | |
| fg_gsub_ids | 0.198 | 0.001 | 0.201 | |
| fg_gsub_markers | 0.231 | 0.006 | 0.237 | |
| fg_load | 35.360 | 0.664 | 36.025 | |
| fg_merge | 0.233 | 0.004 | 0.237 | |
| fg_merge_samples | 0.338 | 0.004 | 0.342 | |
| fg_plot | 0.361 | 0.000 | 0.360 | |
| fg_plot_box | 0.630 | 0.000 | 0.631 | |
| fg_plot_pVSdiff | 0.388 | 0.000 | 0.388 | |
| fg_plot_qq | 1.193 | 0.012 | 1.204 | |
| fg_replace_meta | 0.243 | 0.003 | 0.247 | |
| fg_rm_feature | 0.773 | 0.003 | 0.777 | |
| fg_rm_summary | 0.329 | 0.000 | 0.328 | |
| fg_save | 36.733 | 0.624 | 37.357 | |
| fg_save_plots | 37.890 | 0.592 | 38.482 | |
| fg_set_layout | 0.224 | 0.000 | 0.223 | |
| fg_summary | 0.319 | 0.000 | 0.319 | |
| flowGraph-class | 0.000 | 0.002 | 0.002 | |
| flowGraph | 1.064 | 0.010 | 1.075 | |
| flowGraphSubset | 0.000 | 0.001 | 0.001 | |
| flowGraphSubset_summary_adjust | 0.000 | 0.001 | 0.001 | |
| flowGraphSubset_summary_pars | 0 | 0 | 0 | |
| get_phen_list | 0.010 | 0.000 | 0.011 | |
| get_phen_meta | 0.002 | 0.000 | 0.002 | |
| ggdf | 0.225 | 0.000 | 0.225 | |
| loop_ind_f | 0.001 | 0.000 | 0.001 | |
| meandiff | 0.000 | 0.000 | 0.001 | |
| plot_gr | 1.344 | 0.004 | 1.348 | |
| set_layout_graph | 0.262 | 0.032 | 0.294 | |
| summary_table | 0.004 | 0.000 | 0.003 | |
| time_output | 0.001 | 0.000 | 0.001 | |
| tstr | 0 | 0 | 0 | |