| Back to Build/check report for BioC 3.17 |
|
This page was generated on 2023-01-02 09:00:29 -0500 (Mon, 02 Jan 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| palomino5 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2022-12-25 r83502 ucrt) -- "Unsuffered Consequences" | 4165 |
| 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: Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 685/2158 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| flowGraph 1.7.0 (landing page) Alice Yue
| palomino5 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | ||||||||
| Package: flowGraph |
| Version: 1.7.0 |
| Command: F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:flowGraph.install-out.txt --library=F:\biocbuild\bbs-3.17-bioc\R\library --no-vignettes --timings flowGraph_1.7.0.tar.gz |
| StartedAt: 2022-12-28 23:51:13 -0500 (Wed, 28 Dec 2022) |
| EndedAt: 2022-12-28 23:54:52 -0500 (Wed, 28 Dec 2022) |
| EllapsedTime: 218.4 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: flowGraph.Rcheck |
| Warnings: 0 |
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###
### Running command:
###
### F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:flowGraph.install-out.txt --library=F:\biocbuild\bbs-3.17-bioc\R\library --no-vignettes --timings flowGraph_1.7.0.tar.gz
###
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* using log directory 'F:/biocbuild/bbs-3.17-bioc-rtools43/meat/flowGraph.Rcheck'
* using R Under development (unstable) (2022-12-25 r83502 ucrt)
* using platform: x86_64-w64-mingw32 (64-bit)
* R was compiled by
gcc.exe (GCC) 10.4.0
GNU Fortran (GCC) 10.4.0
* running under: Windows Server x64 (build 20348)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'flowGraph/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'flowGraph' version '1.7.0'
* 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_plots 39.72 0.75 40.49
fg_save 38.25 0.82 39.10
fg_load 35.83 0.92 36.77
* 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-3.17-bioc-rtools43/meat/flowGraph.Rcheck/00check.log'
for details.
flowGraph.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD INSTALL flowGraph ### ############################################################################## ############################################################################## * installing to library 'F:/biocbuild/bbs-3.17-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 Under development (unstable) (2022-12-25 r83502 ucrt) -- "Unsuffered Consequences"
Copyright (C) 2022 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
4.04 0.34 4.76
flowGraph.Rcheck/flowGraph-Ex.timings
| name | user | system | elapsed | |
| cell_type_layers | 0.01 | 0.00 | 0.01 | |
| fg_add_feature | 0.24 | 0.02 | 0.25 | |
| fg_add_summary | 0.67 | 0.01 | 0.69 | |
| fg_clean_phen | 0 | 0 | 0 | |
| fg_clear_features | 0.62 | 0.02 | 0.64 | |
| fg_clear_summary | 0.25 | 0.00 | 0.25 | |
| fg_extract_phenotypes | 0.21 | 0.00 | 0.20 | |
| fg_extract_raw | 0.61 | 0.03 | 0.65 | |
| fg_extract_samples | 0.18 | 0.01 | 0.20 | |
| fg_feat_cumsum | 0.21 | 0.00 | 0.20 | |
| fg_feat_edge_specenr | 0.36 | 0.00 | 0.36 | |
| fg_feat_mean_class | 0.29 | 0.04 | 0.33 | |
| fg_feat_node_prop | 0.16 | 0.03 | 0.19 | |
| fg_feat_node_specenr | 0.28 | 0.01 | 0.29 | |
| fg_feat_prop_edge | 0.3 | 0.0 | 0.3 | |
| fg_get_feature | 0.19 | 0.00 | 0.19 | |
| fg_get_feature_desc | 0.67 | 0.05 | 0.72 | |
| fg_get_feature_means | 0.90 | 0.05 | 0.95 | |
| fg_get_graph | 0.21 | 0.00 | 0.20 | |
| fg_get_markers | 0.20 | 0.00 | 0.21 | |
| fg_get_meta | 0.2 | 0.0 | 0.2 | |
| fg_get_summary | 1.80 | 0.03 | 1.83 | |
| fg_get_summary_desc | 0.59 | 0.01 | 0.61 | |
| fg_get_summary_index | 1.60 | 0.03 | 1.62 | |
| fg_get_summary_tables | 1.17 | 0.04 | 1.20 | |
| fg_gsub_ids | 0.19 | 0.00 | 0.19 | |
| fg_gsub_markers | 0.20 | 0.01 | 0.22 | |
| fg_load | 35.83 | 0.92 | 36.77 | |
| fg_merge | 0.25 | 0.00 | 0.25 | |
| fg_merge_samples | 0.33 | 0.02 | 0.34 | |
| fg_plot | 0.36 | 0.03 | 0.39 | |
| fg_plot_box | 0.57 | 0.03 | 0.61 | |
| fg_plot_pVSdiff | 0.31 | 0.00 | 0.31 | |
| fg_plot_qq | 0.97 | 0.03 | 1.23 | |
| fg_replace_meta | 0.22 | 0.00 | 0.22 | |
| fg_rm_feature | 0.78 | 0.01 | 0.79 | |
| fg_rm_summary | 0.28 | 0.00 | 0.29 | |
| fg_save | 38.25 | 0.82 | 39.10 | |
| fg_save_plots | 39.72 | 0.75 | 40.49 | |
| fg_set_layout | 0.20 | 0.00 | 0.21 | |
| fg_summary | 0.37 | 0.00 | 0.37 | |
| flowGraph-class | 0 | 0 | 0 | |
| flowGraph | 1 | 0 | 1 | |
| flowGraphSubset | 0 | 0 | 0 | |
| flowGraphSubset_summary_adjust | 0 | 0 | 0 | |
| flowGraphSubset_summary_pars | 0 | 0 | 0 | |
| get_phen_list | 0.02 | 0.00 | 0.02 | |
| get_phen_meta | 0 | 0 | 0 | |
| ggdf | 0.22 | 0.01 | 0.23 | |
| loop_ind_f | 0 | 0 | 0 | |
| meandiff | 0 | 0 | 0 | |
| plot_gr | 1.08 | 0.05 | 1.47 | |
| set_layout_graph | 0.26 | 0.01 | 0.28 | |
| summary_table | 0 | 0 | 0 | |
| time_output | 0 | 0 | 0 | |
| tstr | 0 | 0 | 0 | |