Back to Multiple platform build/check report for BioC 3.16:   simplified   long
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This page was generated on 2023-04-12 11:05:33 -0400 (Wed, 12 Apr 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.5 LTS)x86_644.2.3 (2023-03-15) -- "Shortstop Beagle" 4502
palomino4Windows Server 2022 Datacenterx644.2.3 (2023-03-15 ucrt) -- "Shortstop Beagle" 4282
lconwaymacOS 12.5.1 Montereyx86_644.2.3 (2023-03-15) -- "Shortstop Beagle" 4310
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

CHECK results for flowGraph on palomino4


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.

raw results

Package 696/2183HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
flowGraph 1.6.0  (landing page)
Alice Yue
Snapshot Date: 2023-04-10 14:00:05 -0400 (Mon, 10 Apr 2023)
git_url: https://git.bioconductor.org/packages/flowGraph
git_branch: RELEASE_3_16
git_last_commit: d0d96a7
git_last_commit_date: 2022-11-01 11:23:33 -0400 (Tue, 01 Nov 2022)
nebbiolo2Linux (Ubuntu 20.04.5 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino4Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.5.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: flowGraph
Version: 1.6.0
Command: F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:flowGraph.install-out.txt --library=F:\biocbuild\bbs-3.16-bioc\R\library --no-vignettes --timings flowGraph_1.6.0.tar.gz
StartedAt: 2023-04-11 01:33:12 -0400 (Tue, 11 Apr 2023)
EndedAt: 2023-04-11 01:37:24 -0400 (Tue, 11 Apr 2023)
EllapsedTime: 251.5 seconds
RetCode: 0
Status:   OK  
CheckDir: flowGraph.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:flowGraph.install-out.txt --library=F:\biocbuild\bbs-3.16-bioc\R\library --no-vignettes --timings flowGraph_1.6.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'F:/biocbuild/bbs-3.16-bioc/meat/flowGraph.Rcheck'
* using R version 4.2.3 (2023-03-15 ucrt)
* using platform: x86_64-w64-mingw32 (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 '1.6.0'
* 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 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       43.96   0.97   44.95
fg_load       42.15   1.30   43.49
fg_save_plots 41.24   0.98   42.25
* 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
  'F:/biocbuild/bbs-3.16-bioc/meat/flowGraph.Rcheck/00check.log'
for details.



Installation output

flowGraph.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD INSTALL flowGraph
###
##############################################################################
##############################################################################


* installing to library 'F:/biocbuild/bbs-3.16-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)

Tests output

flowGraph.Rcheck/tests/testthat.Rout


R version 4.2.3 (2023-03-15 ucrt) -- "Shortstop Beagle"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (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 
   5.71    0.43    6.14 

Example timings

flowGraph.Rcheck/flowGraph-Ex.timings

nameusersystemelapsed
cell_type_layers000
fg_add_feature0.370.020.39
fg_add_summary0.910.010.92
fg_clean_phen000
fg_clear_features0.760.020.78
fg_clear_summary0.390.000.39
fg_extract_phenotypes0.250.020.27
fg_extract_raw0.910.010.92
fg_extract_samples0.30.00.3
fg_feat_cumsum0.370.020.39
fg_feat_edge_specenr0.470.000.47
fg_feat_mean_class0.270.000.26
fg_feat_node_prop0.260.000.27
fg_feat_node_specenr0.410.000.41
fg_feat_prop_edge0.340.000.34
fg_get_feature0.320.020.33
fg_get_feature_desc0.980.031.02
fg_get_feature_means1.220.031.25
fg_get_graph0.250.020.26
fg_get_markers0.330.000.33
fg_get_meta0.260.000.27
fg_get_summary1.720.071.79
fg_get_summary_desc0.780.040.82
fg_get_summary_index2.050.032.08
fg_get_summary_tables1.300.031.32
fg_gsub_ids0.260.000.27
fg_gsub_markers0.300.010.31
fg_load42.15 1.3043.49
fg_merge0.250.020.26
fg_merge_samples0.270.010.28
fg_plot0.450.020.47
fg_plot_box0.630.010.64
fg_plot_pVSdiff0.360.020.38
fg_plot_qq1.320.061.64
fg_replace_meta0.280.020.30
fg_rm_feature0.980.001.00
fg_rm_summary0.390.000.41
fg_save43.96 0.9744.95
fg_save_plots41.24 0.9842.25
fg_set_layout0.420.000.42
fg_summary0.360.020.37
flowGraph-class000
flowGraph1.260.011.28
flowGraphSubset000
flowGraphSubset_summary_adjust000
flowGraphSubset_summary_pars000
get_phen_list0.020.000.02
get_phen_meta000
ggdf0.390.000.40
loop_ind_f000
meandiff000
plot_gr1.570.061.96
set_layout_graph0.380.000.39
summary_table000
time_output000
tstr000