Gwenaëlle Lemoine
| Snapshot Date: 2022-03-17 13:55:23 -0400 (Thu, 17 Mar 2022) |
| git_url: https://git.bioconductor.org/packages/GWENA |
| git_branch: master |
| git_last_commit: e9a9b10 |
| git_last_commit_date: 2021-10-26 13:00:52 -0400 (Tue, 26 Oct 2021) |
| Back to Multiple platform build/check report for BioC 3.15 |
|
This page was generated on 2022-03-18 11:07:43 -0400 (Fri, 18 Mar 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | R Under development (unstable) (2022-02-17 r81757) -- "Unsuffered Consequences" | 4334 |
| riesling1 | Windows Server 2019 Standard | x64 | R Under development (unstable) (2021-11-21 r81221) -- "Unsuffered Consequences" | 4097 |
| palomino3 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2022-02-17 r81757 ucrt) -- "Unsuffered Consequences" | 4083 |
| merida1 | macOS 10.14.6 Mojave | x86_64 | R Under development (unstable) (2022-03-02 r81842) -- "Unsuffered Consequences" | 4134 |
| 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 GWENA package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/GWENA.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 851/2090 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| GWENA 1.5.0 (landing page) Gwenaëlle Lemoine
| nebbiolo1 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||||
| riesling1 | Windows Server 2019 Standard / x64 | OK | 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: GWENA |
| Version: 1.5.0 |
| Command: D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:GWENA.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings GWENA_1.5.0.tar.gz |
| StartedAt: 2022-03-17 19:17:03 -0400 (Thu, 17 Mar 2022) |
| EndedAt: 2022-03-17 19:24:46 -0400 (Thu, 17 Mar 2022) |
| EllapsedTime: 463.4 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: GWENA.Rcheck |
| Warnings: 0 |
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### Running command:
###
### D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:GWENA.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings GWENA_1.5.0.tar.gz
###
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* using log directory 'D:/biocbuild/bbs-3.15-bioc/meat/GWENA.Rcheck'
* using R Under development (unstable) (2021-11-21 r81221)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'GWENA/DESCRIPTION' ... OK
* this is package 'GWENA' version '1.5.0'
* package encoding: UTF-8
* 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 'GWENA' 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 ... OK
* 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 LazyData ... 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
z_summary 11.41 0.05 13.11
compare_conditions 7.30 0.03 8.16
plot_enrichment 1.25 0.17 8.53
bio_enrich 0.09 0.04 13.46
* 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: OK
GWENA.Rcheck/00install.out
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###
### Running command:
###
### D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL GWENA
###
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* installing to library 'D:/biocbuild/bbs-3.15-bioc/R/library'
* installing *source* package 'GWENA' ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'GWENA'
finding HTML links ... done
associate_phenotype html
bio_enrich html
build_graph_from_sq_mat html
build_net html
finding level-2 HTML links ... done
compare_conditions html
detect_modules html
dot-check_data_expr html
dot-check_gost html
dot-check_module html
dot-check_network html
dot-contingencyTable html
dot-cor_func_match html
filter_RNA_seq html
filter_low_var html
get_fit.cor html
get_fit.expr html
get_hub_degree html
get_hub_genes html
get_hub_high_co html
get_hub_kleinberg html
get_sub_clusters html
gg_palette html
gtex_expr html
gtex_traits html
is_data_expr html
is_gost html
is_module html
is_network html
join_gost html
kuehne_expr html
kuehne_traits html
matchsub html
orderAsNumeric html
plot_comparison_stats html
plot_enrichment html
plot_expression_profiles html
plot_module html
plot_modules_merge html
plot_modules_phenotype html
quiet html
z_summary html
** 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 (GWENA)
Making 'packages.html' ...Warning in packageDescription(i, lib.loc = lib, fields = "Title", encoding = "UTF-8") :
DESCRIPTION file of package 'metabCombiner' is missing or broken
done
GWENA.Rcheck/tests/testthat.Rout
R Under development (unstable) (2021-11-21 r81221) -- "Unsuffered Consequences"
Copyright (C) 2021 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(GWENA)
>
> test_check("GWENA")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 278 ]
>
> proc.time()
user system elapsed
421.28 9.98 207.39
GWENA.Rcheck/GWENA-Ex.timings
| name | user | system | elapsed | |
| associate_phenotype | 0.02 | 0.01 | 0.04 | |
| bio_enrich | 0.09 | 0.04 | 13.46 | |
| build_graph_from_sq_mat | 0.75 | 0.00 | 0.75 | |
| build_net | 2.17 | 0.03 | 2.20 | |
| compare_conditions | 7.30 | 0.03 | 8.16 | |
| detect_modules | 1.23 | 0.03 | 1.27 | |
| filter_RNA_seq | 0 | 0 | 0 | |
| filter_low_var | 0.02 | 0.00 | 0.01 | |
| get_fit.cor | 0.54 | 0.00 | 0.55 | |
| get_fit.expr | 0.60 | 0.00 | 0.59 | |
| get_hub_degree | 0.04 | 0.00 | 0.05 | |
| get_hub_genes | 0 | 0 | 0 | |
| get_hub_high_co | 0 | 0 | 0 | |
| get_hub_kleinberg | 0.13 | 0.00 | 0.12 | |
| get_sub_clusters | 1.17 | 0.03 | 1.21 | |
| is_data_expr | 0 | 0 | 0 | |
| is_gost | 0.03 | 0.00 | 3.75 | |
| is_module | 0 | 0 | 0 | |
| is_network | 0 | 0 | 0 | |
| join_gost | 0.02 | 0.00 | 1.00 | |
| plot_comparison_stats | 0.31 | 0.00 | 0.31 | |
| plot_enrichment | 1.25 | 0.17 | 8.53 | |
| plot_expression_profiles | 2.16 | 0.08 | 2.23 | |
| plot_module | 0.11 | 0.00 | 0.11 | |
| plot_modules_merge | 1.50 | 0.03 | 1.54 | |
| plot_modules_phenotype | 0.18 | 0.00 | 0.18 | |
| z_summary | 11.41 | 0.05 | 13.11 | |