Back to Multiple platform build/check report for BioC 3.16:   simplified   long
ABCDEFGHIJKL[M]NOPQRSTUVWXYZ

This page was generated on 2023-04-12 11:06:14 -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 MethReg on lconway


To the developers/maintainers of the MethReg package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/MethReg.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 1166/2183HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
MethReg 1.8.0  (landing page)
Tiago Silva
Snapshot Date: 2023-04-10 14:00:05 -0400 (Mon, 10 Apr 2023)
git_url: https://git.bioconductor.org/packages/MethReg
git_branch: RELEASE_3_16
git_last_commit: 6235257
git_last_commit_date: 2022-11-01 11:22:54 -0400 (Tue, 01 Nov 2022)
nebbiolo2Linux (Ubuntu 20.04.5 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
palomino4Windows Server 2022 Datacenter / x64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
lconwaymacOS 12.5.1 Monterey / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published

Summary

Package: MethReg
Version: 1.8.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:MethReg.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings MethReg_1.8.0.tar.gz
StartedAt: 2023-04-10 21:07:41 -0400 (Mon, 10 Apr 2023)
EndedAt: 2023-04-10 21:13:45 -0400 (Mon, 10 Apr 2023)
EllapsedTime: 363.7 seconds
RetCode: 0
Status:   WARNINGS  
CheckDir: MethReg.Rcheck
Warnings: 2

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:MethReg.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings MethReg_1.8.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.16-bioc/meat/MethReg.Rcheck’
* using R version 4.2.3 (2023-03-15)
* using platform: x86_64-apple-darwin17.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘MethReg/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘MethReg’ version ‘1.8.0’
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘MethReg’ 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 ... WARNING
'::' or ':::' imports not declared from:
  ‘data.table’ ‘openxlsx’
Missing or unexported object: ‘downloader::download.file’
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
readRemap2022: no visible binding for global variable ‘biotype’
Undefined global functions or variables:
  biotype
* 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 ... WARNING
Undocumented arguments in documentation object 'methReg_analysis'
  ‘tf.dnam.classifier.pval.threshold’

Functions with \usage entries need to have the appropriate \alias
entries, and all their arguments documented.
The \usage entries must correspond to syntactically valid R code.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* 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 R/sysdata.rda ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                                user system elapsed
create_triplet_distance_based 28.451  2.269  30.871
create_triplet_regulon_based  20.833  1.155  22.043
get_tf_in_region              20.038  1.131  21.221
* 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: 2 WARNINGs, 1 NOTE
See
  ‘/Users/biocbuild/bbs-3.16-bioc/meat/MethReg.Rcheck/00check.log’
for details.



Installation output

MethReg.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL MethReg
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.2/Resources/library’
* installing *source* package ‘MethReg’ ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** 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 (MethReg)

Tests output

MethReg.Rcheck/tests/testthat.Rout


R version 4.2.3 (2023-03-15) -- "Shortstop Beagle"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin17.0 (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(MethReg)
> 
> test_check("MethReg")

|                                                    |  0%                      
|====================================================|100% ~0 s remaining       
|====================================================|100%                      Completed after 0 s 

|                                                    |  0%                      
|====================================================|100% ~0 s remaining       
|====================================================|100%                      Completed after 0 s 

|                                                    |  0%                      
|====================================================|100% ~0 s remaining       
|====================================================|100%                      Completed after 0 s 

|                                                    |  0%                      
|====================================================|100% ~0 s remaining       
|====================================================|100%                      Completed after 0 s 

|                                                    |  0%                      
|                                                    |0.16% ~1 s remaining      
|                                                    |0.32% ~1 s remaining      
|                                                    |0.48% ~1 s remaining      
|                                                    |0.64% ~1 s remaining      
|                                                    |0.8% ~1 s remaining       
|                                                    |0.96% ~1 s remaining      
|                                                    |1.12% ~1 s remaining      
|                                                    |1.28% ~1 s remaining      
|                                                    |1.44% ~1 s remaining      
|                                                    |1.6% ~1 s remaining       
|                                                    |1.76% ~1 s remaining      
|                                                    |1.92% ~1 s remaining      
|=                                                   |2.08% ~1 s remaining      
|=                                                   |2.24% ~1 s remaining      
|=                                                   |2.4% ~1 s remaining       
|=                                                   |2.56% ~1 s remaining      
|=                                                   |2.72% ~1 s remaining      
|=                                                   |2.88% ~1 s remaining      
|=                                                   |3.04% ~1 s remaining      
|=                                                   |3.2% ~1 s remaining       
|=                                                   |3.36% ~1 s remaining      
|=                                                   |3.52% ~1 s remaining      
|=                                                   |3.68% ~1 s remaining      
|=                                                   |3.84% ~1 s remaining      
|==                                                  |  4% ~1 s remaining       
|==                                                  |4.16% ~1 s remaining      
|==                                                  |4.32% ~1 s remaining      
|==                                                  |4.48% ~1 s remaining      
|==                                                  |4.64% ~1 s remaining      
|==                                                  |4.8% ~1 s remaining       
|==                                                  |4.96% ~1 s remaining      
|==                                                  |5.12% ~1 s remaining      
|==                                                  |5.28% ~1 s remaining      
|==                                                  |5.44% ~1 s remaining      
|==                                                  |5.6% ~1 s remaining       
|==                                                  |5.76% ~1 s remaining      
|===                                                 |5.92% ~1 s remaining      
|===                                                 |6.08% ~1 s remaining      
|===                                                 |6.24% ~1 s remaining      
|===                                                 |6.4% ~1 s remaining       
|===                                                 |6.56% ~1 s remaining      
|===                                                 |6.72% ~1 s remaining      
|===                                                 |6.88% ~1 s remaining      
|===                                                 |7.04% ~1 s remaining      
|===                                                 |7.2% ~1 s remaining       
|===                                                 |7.36% ~1 s remaining      
|===                                                 |7.52% ~1 s remaining      
|===                                                 |7.68% ~1 s remaining      
|====                                                |7.84% ~1 s remaining      
|====                                                |  8% ~1 s remaining       
|====                                                |8.16% ~1 s remaining      
|====                                                |8.32% ~1 s remaining      
|====                                                |8.48% ~1 s remaining      
|====                                                |8.64% ~1 s remaining      
|====                                                |8.8% ~1 s remaining       
|====                                                |8.96% ~1 s remaining      
|====                                                |9.12% ~1 s remaining      
|====                                                |9.28% ~1 s remaining      
|====                                                |9.44% ~1 s remaining      
|====                                                |9.6% ~1 s remaining       
|=====                                               |9.76% ~1 s remaining      
|=====                                               |9.92% ~1 s remaining      
|=====                                               |10.08% ~1 s remaining     
|=====                                               |10.24% ~1 s remaining     
|=====                                               |10.4% ~1 s remaining      
|=====                                               |10.56% ~1 s remaining     
|=====                                               |10.72% ~1 s remaining     
|=====                                               |10.88% ~1 s remaining     
|=====                                               |11.04% ~1 s remaining     
|=====                                               |11.2% ~1 s remaining      
|=====                                               |11.36% ~1 s remaining     
|=====                                               |11.52% ~1 s remaining     
|======                                              |11.68% ~1 s remaining     
|======                                              |11.84% ~1 s remaining     
|======                                              | 12% ~1 s remaining       
|======                                              |12.16% ~1 s remaining     
|======                                              |12.32% ~1 s remaining     
|======                                              |12.48% ~1 s remaining     
|======                                              |12.64% ~1 s remaining     
|======                                              |12.8% ~1 s remaining      
|======                                              |12.96% ~1 s remaining     
|======                                              |13.12% ~1 s remaining     
|======                                              |13.28% ~1 s remaining     
|======                                              |13.44% ~1 s remaining     
|=======                                             |13.6% ~1 s remaining      
|=======                                             |13.76% ~1 s remaining     
|=======                                             |13.92% ~1 s remaining     
|=======                                             |14.08% ~1 s remaining     
|=======                                             |14.24% ~1 s remaining     
|=======                                             |14.4% ~1 s remaining      
|=======                                             |14.56% ~1 s remaining     
|=======                                             |14.72% ~1 s remaining     
|=======                                             |14.88% ~1 s remaining     
|=======                                             |15.04% ~1 s remaining     
|=======                                             |15.2% ~1 s remaining      
|=======                                             |15.36% ~1 s remaining     
|========                                            |15.52% ~1 s remaining     
|========                                            |15.68% ~1 s remaining     
|========                                            |15.84% ~1 s remaining     
|========                                            | 16% ~1 s remaining       
|========                                            |16.16% ~1 s remaining     
|========                                            |16.32% ~1 s remaining     
|========                                            |16.48% ~1 s remaining     
|========                                            |16.64% ~1 s remaining     
|========                                            |16.8% ~1 s remaining      
|========                                            |16.96% ~1 s remaining     
|========                                            |17.12% ~1 s remaining     
|========                                            |17.28% ~1 s remaining     
|=========                                           |17.44% ~1 s remaining     
|=========                                           |17.6% ~1 s remaining      
|=========                                           |17.76% ~1 s remaining     
|=========                                           |17.92% ~1 s remaining     
|=========                                           |18.08% ~1 s remaining     
|=========                                           |18.24% ~1 s remaining     
|=========                                           |18.4% ~1 s remaining      
|=========                                           |18.56% ~1 s remaining     
|=========                                           |18.72% ~1 s remaining     
|=========                                           |18.88% ~1 s remaining     
|=========                                           |19.04% ~1 s remaining     
|=========                                           |19.2% ~1 s remaining      
|==========                                          |19.36% ~1 s remaining     
|==========                                          |19.52% ~1 s remaining     
|==========                                          |19.68% ~1 s remaining     
|==========                                          |19.84% ~1 s remaining     
|==========                                          | 20% ~1 s remaining       
|==========                                          |20.16% ~1 s remaining     
|==========                                          |20.32% ~1 s remaining     
|==========                                          |20.48% ~1 s remaining     
|==========                                          |20.64% ~1 s remaining     
|==========                                          |20.8% ~1 s remaining      
|==========                                          |20.96% ~1 s remaining     
|==========                                          |21.12% ~1 s remaining     
|===========                                         |21.28% ~1 s remaining     
|===========                                         |21.44% ~1 s remaining     
|===========                                         |21.6% ~1 s remaining      
|===========                                         |21.76% ~1 s remaining     
|===========                                         |21.92% ~1 s remaining     
|===========                                         |22.08% ~1 s remaining     
|===========                                         |22.24% ~1 s remaining     
|===========                                         |22.4% ~1 s remaining      
|===========                                         |22.56% ~1 s remaining     
|===========                                         |22.72% ~1 s remaining     
|===========                                         |22.88% ~1 s remaining     
|===========                                         |23.04% ~1 s remaining     
|============                                        |23.2% ~1 s remaining      
|============                                        |23.36% ~1 s remaining     
|============                                        |23.52% ~1 s remaining     
|============                                        |23.68% ~1 s remaining     
|============                                        |23.84% ~1 s remaining     
|============                                        | 24% ~1 s remaining       
|============                                        |24.16% ~1 s remaining     
|============                                        |24.32% ~1 s remaining     
|============                                        |24.48% ~1 s remaining     
|============                                        |24.64% ~1 s remaining     
|============                                        |24.8% ~1 s remaining      
|============                                        |24.96% ~1 s remaining     
|=============                                       |25.12% ~1 s remaining     
|=============                                       |25.28% ~1 s remaining     
|=============                                       |25.44% ~1 s remaining     
|=============                                       |25.6% ~1 s remaining      
|=============                                       |25.76% ~1 s remaining     
|=============                                       |25.92% ~1 s remaining     
|=============                                       |26.08% ~1 s remaining     
|=============                                       |26.24% ~1 s remaining     
|=============                                       |26.4% ~1 s remaining      
|=============                                       |26.56% ~1 s remaining     
|=============                                       |26.72% ~1 s remaining     
|=============                                       |26.88% ~1 s remaining     
|==============                                      |27.04% ~1 s remaining     
|==============                                      |27.2% ~1 s remaining      
|==============                                      |27.36% ~1 s remaining     
|==============                                      |27.52% ~1 s remaining     
|==============                                      |27.68% ~0 s remaining     
|==============                                      |27.84% ~0 s remaining     
|==============                                      | 28% ~0 s remaining       
|==============                                      |28.16% ~0 s remaining     
|==============                                      |28.32% ~0 s remaining     
|==============                                      |28.48% ~0 s remaining     
|==============                                      |28.64% ~0 s remaining     
|==============                                      |28.8% ~0 s remaining      
|===============                                     |28.96% ~0 s remaining     
|===============                                     |29.12% ~0 s remaining     
|===============                                     |29.28% ~0 s remaining     
|===============                                     |29.44% ~0 s remaining     
|===============                                     |29.6% ~0 s remaining      
|===============                                     |29.76% ~0 s remaining     
|===============                                     |29.92% ~0 s remaining     
|===============                                     |30.08% ~0 s remaining     
|===============                                     |30.24% ~0 s remaining     
|===============                                     |30.4% ~0 s remaining      
|===============                                     |30.56% ~0 s remaining     
|===============                                     |30.72% ~0 s remaining     
|================                                    |30.88% ~0 s remaining     
|================                                    |31.04% ~0 s remaining     
|================                                    |31.2% ~0 s remaining      
|================                                    |31.36% ~0 s remaining     
|================                                    |31.52% ~0 s remaining     
|================                                    |31.68% ~0 s remaining     
|================                                    |31.84% ~0 s remaining     
|================                                    | 32% ~0 s remaining       
|================                                    |32.16% ~0 s remaining     
|================                                    |32.32% ~0 s remaining     
|================                                    |32.48% ~0 s remaining     
|================                                    |32.64% ~0 s remaining     
|=================                                   |32.8% ~0 s remaining      
|=================                                   |32.96% ~0 s remaining     
|=================                                   |33.12% ~0 s remaining     
|=================                                   |33.28% ~0 s remaining     
|=================                                   |33.44% ~0 s remaining     
|=================                                   |33.6% ~0 s remaining      
|=================                                   |33.76% ~0 s remaining     
|=================                                   |33.92% ~0 s remaining     
|=================                                   |34.08% ~0 s remaining     
|=================                                   |34.24% ~0 s remaining     
|=================                                   |34.4% ~0 s remaining      
|=================                                   |34.56% ~0 s remaining     
|==================                                  |34.72% ~0 s remaining     
|==================                                  |34.88% ~0 s remaining     
|==================                                  |35.04% ~0 s remaining     
|==================                                  |35.2% ~0 s remaining      
|==================                                  |35.36% ~0 s remaining     
|==================                                  |35.52% ~0 s remaining     
|==================                                  |35.68% ~0 s remaining     
|==================                                  |35.84% ~0 s remaining     
|==================                                  | 36% ~0 s remaining       
|==================                                  |36.16% ~0 s remaining     
|==================                                  |36.32% ~0 s remaining     
|==================                                  |36.48% ~0 s remaining     
|===================                                 |36.64% ~0 s remaining     
|===================                                 |36.8% ~0 s remaining      
|===================                                 |36.96% ~0 s remaining     
|===================                                 |37.12% ~0 s remaining     
|===================                                 |37.28% ~0 s remaining     
|===================                                 |37.44% ~0 s remaining     
|===================                                 |37.6% ~0 s remaining      
|===================                                 |37.76% ~0 s remaining     
|===================                                 |37.92% ~0 s remaining     
|===================                                 |38.08% ~0 s remaining     
|===================                                 |38.24% ~0 s remaining     
|===================                                 |38.4% ~0 s remaining      
|====================                                |38.56% ~0 s remaining     
|====================                                |38.72% ~0 s remaining     
|====================                                |38.88% ~0 s remaining     
|====================                                |39.04% ~0 s remaining     
|====================                                |39.2% ~0 s remaining      
|====================                                |39.36% ~0 s remaining     
|====================                                |39.52% ~0 s remaining     
|====================                                |39.68% ~0 s remaining     
|====================                                |39.84% ~0 s remaining     
|====================                                | 40% ~0 s remaining       
|====================                                |40.16% ~0 s remaining     
|====================                                |40.32% ~0 s remaining     
|=====================                               |40.48% ~0 s remaining     
|=====================                               |40.64% ~0 s remaining     
|=====================                               |40.8% ~0 s remaining      
|=====================                               |40.96% ~0 s remaining     
|=====================                               |41.12% ~0 s remaining     
|=====================                               |41.28% ~0 s remaining     
|=====================                               |41.44% ~0 s remaining     
|=====================                               |41.6% ~0 s remaining      
|=====================                               |41.76% ~0 s remaining     
|=====================                               |41.92% ~0 s remaining     
|=====================                               |42.08% ~0 s remaining     
|=====================                               |42.24% ~0 s remaining     
|======================                              |42.4% ~0 s remaining      
|======================                              |42.56% ~0 s remaining     
|======================                              |42.72% ~0 s remaining     
|======================                              |42.88% ~0 s remaining     
|======================                              |43.04% ~0 s remaining     
|======================                              |43.2% ~0 s remaining      
|======================                              |43.36% ~0 s remaining     
|======================                              |43.52% ~0 s remaining     
|======================                              |43.68% ~0 s remaining     
|======================                              |43.84% ~0 s remaining     
|======================                              | 44% ~0 s remaining       
|======================                              |44.16% ~0 s remaining     
|=======================                             |44.32% ~0 s remaining     
|=======================                             |44.48% ~0 s remaining     
|=======================                             |44.64% ~0 s remaining     
|=======================                             |44.8% ~0 s remaining      
|=======================                             |44.96% ~0 s remaining     
|=======================                             |45.12% ~0 s remaining     
|=======================                             |45.28% ~0 s remaining     
|=======================                             |45.44% ~0 s remaining     
|=======================                             |45.6% ~0 s remaining      
|=======================                             |45.76% ~0 s remaining     
|=======================                             |45.92% ~0 s remaining     
|=======================                             |46.08% ~0 s remaining     
|========================                            |46.24% ~0 s remaining     
|========================                            |46.4% ~0 s remaining      
|========================                            |46.56% ~0 s remaining     
|========================                            |46.72% ~0 s remaining     
|========================                            |46.88% ~0 s remaining     
|========================                            |47.04% ~0 s remaining     
|========================                            |47.2% ~0 s remaining      
|========================                            |47.36% ~0 s remaining     
|========================                            |47.52% ~0 s remaining     
|========================                            |47.68% ~0 s remaining     
|========================                            |47.84% ~0 s remaining     
|========================                            | 48% ~0 s remaining       
|=========================                           |48.16% ~0 s remaining     
|=========================                           |48.32% ~0 s remaining     
|=========================                           |48.48% ~0 s remaining     
|=========================                           |48.64% ~0 s remaining     
|=========================                           |48.8% ~0 s remaining      
|=========================                           |48.96% ~0 s remaining     
|=========================                           |49.12% ~0 s remaining     
|=========================                           |49.28% ~0 s remaining     
|=========================                           |49.44% ~0 s remaining     
|=========================                           |49.6% ~0 s remaining      
|=========================                           |49.76% ~0 s remaining     
|=========================                           |49.92% ~0 s remaining     
|==========================                          |50.08% ~0 s remaining     
|==========================                          |50.24% ~0 s remaining     
|==========================                          |50.4% ~0 s remaining      
|==========================                          |50.56% ~0 s remaining     
|==========================                          |50.72% ~0 s remaining     
|==========================                          |50.88% ~0 s remaining     
|==========================                          |51.04% ~0 s remaining     
|==========================                          |51.2% ~0 s remaining      
|==========================                          |51.36% ~0 s remaining     
|==========================                          |51.52% ~0 s remaining     
|==========================                          |51.68% ~0 s remaining     
|==========================                          |51.84% ~0 s remaining     
|===========================                         | 52% ~0 s remaining       
|===========================                         |52.16% ~0 s remaining     
|===========================                         |52.32% ~0 s remaining     
|===========================                         |52.48% ~0 s remaining     
|===========================                         |52.64% ~0 s remaining     
|===========================                         |52.8% ~0 s remaining      
|===========================                         |52.96% ~0 s remaining     
|===========================                         |53.12% ~0 s remaining     
|===========================                         |53.28% ~0 s remaining     
|===========================                         |53.44% ~0 s remaining     
|===========================                         |53.6% ~0 s remaining      
|===========================                         |53.76% ~0 s remaining     
|============================                        |53.92% ~0 s remaining     
|============================                        |54.08% ~0 s remaining     
|============================                        |54.24% ~0 s remaining     
|============================                        |54.4% ~0 s remaining      
|============================                        |54.56% ~0 s remaining     
|============================                        |54.72% ~0 s remaining     
|============================                        |54.88% ~0 s remaining     
|============================                        |55.04% ~0 s remaining     
|============================                        |55.2% ~0 s remaining      
|============================                        |55.36% ~0 s remaining     
|============================                        |55.52% ~0 s remaining     
|============================                        |55.68% ~0 s remaining     
|=============================                       |55.84% ~0 s remaining     
|=============================                       | 56% ~0 s remaining       
|=============================                       |56.16% ~0 s remaining     
|=============================                       |56.32% ~0 s remaining     
|=============================                       |56.48% ~0 s remaining     
|=============================                       |56.64% ~0 s remaining     
|=============================                       |56.8% ~0 s remaining      
|=============================                       |56.96% ~0 s remaining     
|=============================                       |57.12% ~0 s remaining     
|=============================                       |57.28% ~0 s remaining     
|=============================                       |57.44% ~0 s remaining     
|=============================                       |57.6% ~0 s remaining      
|==============================                      |57.76% ~0 s remaining     
|==============================                      |57.92% ~0 s remaining     
|==============================                      |58.08% ~0 s remaining     
|==============================                      |58.24% ~0 s remaining     
|==============================                      |58.4% ~0 s remaining      
|==============================                      |58.56% ~0 s remaining     
|==============================                      |58.72% ~0 s remaining     
|==============================                      |58.88% ~0 s remaining     
|==============================                      |59.04% ~0 s remaining     
|==============================                      |59.2% ~0 s remaining      
|==============================                      |59.36% ~0 s remaining     
|==============================                      |59.52% ~0 s remaining     
|===============================                     |59.68% ~0 s remaining     
|===============================                     |59.84% ~0 s remaining     
|===============================                     | 60% ~0 s remaining       
|===============================                     |60.16% ~0 s remaining     
|===============================                     |60.32% ~0 s remaining     
|===============================                     |60.48% ~0 s remaining     
|===============================                     |60.64% ~0 s remaining     
|===============================                     |60.8% ~0 s remaining      
|===============================                     |60.96% ~0 s remaining     
|===============================                     |61.12% ~0 s remaining     
|===============================                     |61.28% ~0 s remaining     
|===============================                     |61.44% ~0 s remaining     
|================================                    |61.6% ~0 s remaining      
|================================                    |61.76% ~0 s remaining     
|================================                    |61.92% ~0 s remaining     
|================================                    |62.08% ~0 s remaining     
|================================                    |62.24% ~0 s remaining     
|================================                    |62.4% ~0 s remaining      
|================================                    |62.56% ~0 s remaining     
|================================                    |62.72% ~0 s remaining     
|================================                    |62.88% ~0 s remaining     
|================================                    |63.04% ~0 s remaining     
|================================                    |63.2% ~0 s remaining      
|================================                    |63.36% ~0 s remaining     
|=================================                   |63.52% ~0 s remaining     
|=================================                   |63.68% ~0 s remaining     
|=================================                   |63.84% ~0 s remaining     
|=================================                   | 64% ~0 s remaining       
|=================================                   |64.16% ~0 s remaining     
|=================================                   |64.32% ~0 s remaining     
|=================================                   |64.48% ~0 s remaining     
|=================================                   |64.64% ~0 s remaining     
|=================================                   |64.8% ~0 s remaining      
|=================================                   |64.96% ~0 s remaining     
|=================================                   |65.12% ~0 s remaining     
|=================================                   |65.28% ~0 s remaining     
|==================================                  |65.44% ~0 s remaining     
|==================================                  |65.6% ~0 s remaining      
|==================================                  |65.76% ~0 s remaining     
|==================================                  |65.92% ~0 s remaining     
|==================================                  |66.08% ~0 s remaining     
|==================================                  |66.24% ~0 s remaining     
|==================================                  |66.4% ~0 s remaining      
|==================================                  |66.56% ~0 s remaining     
|==================================                  |66.72% ~0 s remaining     
|==================================                  |66.88% ~0 s remaining     
|==================================                  |67.04% ~0 s remaining     
|==================================                  |67.2% ~0 s remaining      
|===================================                 |67.36% ~0 s remaining     
|===================================                 |67.52% ~0 s remaining     
|===================================                 |67.68% ~0 s remaining     
|===================================                 |67.84% ~0 s remaining     
|===================================                 | 68% ~0 s remaining       
|===================================                 |68.16% ~0 s remaining     
|===================================                 |68.32% ~0 s remaining     
|===================================                 |68.48% ~0 s remaining     
|===================================                 |68.64% ~0 s remaining     
|===================================                 |68.8% ~0 s remaining      
|===================================                 |68.96% ~0 s remaining     
|===================================                 |69.12% ~0 s remaining     
|====================================                |69.28% ~0 s remaining     
|====================================                |69.44% ~0 s remaining     
|====================================                |69.6% ~0 s remaining      
|====================================                |69.76% ~0 s remaining     
|====================================                |69.92% ~0 s remaining     
|====================================                |70.08% ~0 s remaining     
|====================================                |70.24% ~0 s remaining     
|====================================                |70.4% ~0 s remaining      
|====================================                |70.56% ~0 s remaining     
|====================================                |70.72% ~0 s remaining     
|====================================                |70.88% ~0 s remaining     
|====================================                |71.04% ~0 s remaining     
|=====================================               |71.2% ~0 s remaining      
|=====================================               |71.36% ~0 s remaining     
|=====================================               |71.52% ~0 s remaining     
|=====================================               |71.68% ~0 s remaining     
|=====================================               |71.84% ~0 s remaining     
|=====================================               | 72% ~0 s remaining       
|=====================================               |72.16% ~0 s remaining     
|=====================================               |72.32% ~0 s remaining     
|=====================================               |72.48% ~0 s remaining     
|=====================================               |72.64% ~0 s remaining     
|=====================================               |72.8% ~0 s remaining      
|=====================================               |72.96% ~0 s remaining     
|======================================              |73.12% ~0 s remaining     
|======================================              |73.28% ~0 s remaining     
|======================================              |73.44% ~0 s remaining     
|======================================              |73.6% ~0 s remaining      
|======================================              |73.76% ~0 s remaining     
|======================================              |73.92% ~0 s remaining     
|======================================              |74.08% ~0 s remaining     
|======================================              |74.24% ~0 s remaining     
|======================================              |74.4% ~0 s remaining      
|======================================              |74.56% ~0 s remaining     
|======================================              |74.72% ~0 s remaining     
|======================================              |74.88% ~0 s remaining     
|=======================================             |75.04% ~0 s remaining     
|=======================================             |75.2% ~0 s remaining      
|=======================================             |75.36% ~0 s remaining     
|=======================================             |75.52% ~0 s remaining     
|=======================================             |75.68% ~0 s remaining     
|=======================================             |75.84% ~0 s remaining     
|=======================================             | 76% ~0 s remaining       
|=======================================             |76.16% ~0 s remaining     
|=======================================             |76.32% ~0 s remaining     
|=======================================             |76.48% ~0 s remaining     
|=======================================             |76.64% ~0 s remaining     
|=======================================             |76.8% ~0 s remaining      
|========================================            |76.96% ~0 s remaining     
|========================================            |77.12% ~0 s remaining     
|========================================            |77.28% ~0 s remaining     
|========================================            |77.44% ~0 s remaining     
|========================================            |77.6% ~0 s remaining      
|========================================            |77.76% ~0 s remaining     
|========================================            |77.92% ~0 s remaining     
|========================================            |78.08% ~0 s remaining     
|========================================            |78.24% ~0 s remaining     
|========================================            |78.4% ~0 s remaining      
|========================================            |78.56% ~0 s remaining     
|========================================            |78.72% ~0 s remaining     
|=========================================           |78.88% ~0 s remaining     
|=========================================           |79.04% ~0 s remaining     
|=========================================           |79.2% ~0 s remaining      
|=========================================           |79.36% ~0 s remaining     
|=========================================           |79.52% ~0 s remaining     
|=========================================           |79.68% ~0 s remaining     
|=========================================           |79.84% ~0 s remaining     
|=========================================           | 80% ~0 s remaining       
|=========================================           |80.16% ~0 s remaining     
|=========================================           |80.32% ~0 s remaining     
|=========================================           |80.48% ~0 s remaining     
|=========================================           |80.64% ~0 s remaining     
|==========================================          |80.8% ~0 s remaining      
|==========================================          |80.96% ~0 s remaining     
|==========================================          |81.12% ~0 s remaining     
|==========================================          |81.28% ~0 s remaining     
|==========================================          |81.44% ~0 s remaining     
|==========================================          |81.6% ~0 s remaining      
|==========================================          |81.76% ~0 s remaining     
|==========================================          |81.92% ~0 s remaining     
|==========================================          |82.08% ~0 s remaining     
|==========================================          |82.24% ~0 s remaining     
|==========================================          |82.4% ~0 s remaining      
|==========================================          |82.56% ~0 s remaining     
|===========================================         |82.72% ~0 s remaining     
|===========================================         |82.88% ~0 s remaining     
|===========================================         |83.04% ~0 s remaining     
|===========================================         |83.2% ~0 s remaining      
|===========================================         |83.36% ~0 s remaining     
|===========================================         |83.52% ~0 s remaining     
|===========================================         |83.68% ~0 s remaining     
|===========================================         |83.84% ~0 s remaining     
|===========================================         | 84% ~0 s remaining       
|===========================================         |84.16% ~0 s remaining     
|===========================================         |84.32% ~0 s remaining     
|===========================================         |84.48% ~0 s remaining     
|============================================        |84.64% ~0 s remaining     
|============================================        |84.8% ~0 s remaining      
|============================================        |84.96% ~0 s remaining     
|============================================        |85.12% ~0 s remaining     
|============================================        |85.28% ~0 s remaining     
|============================================        |85.44% ~0 s remaining     
|============================================        |85.6% ~0 s remaining      
|============================================        |85.76% ~0 s remaining     
|============================================        |85.92% ~0 s remaining     
|============================================        |86.08% ~0 s remaining     
|============================================        |86.24% ~0 s remaining     
|============================================        |86.4% ~0 s remaining      
|=============================================       |86.56% ~0 s remaining     
|=============================================       |86.72% ~0 s remaining     
|=============================================       |86.88% ~0 s remaining     
|=============================================       |87.04% ~0 s remaining     
|=============================================       |87.2% ~0 s remaining      
|=============================================       |87.36% ~0 s remaining     
|=============================================       |87.52% ~0 s remaining     
|=============================================       |87.68% ~0 s remaining     
|=============================================       |87.84% ~0 s remaining     
|=============================================       | 88% ~0 s remaining       
|=============================================       |88.16% ~0 s remaining     
|=============================================       |88.32% ~0 s remaining     
|==============================================      |88.48% ~0 s remaining     
|==============================================      |88.64% ~0 s remaining     
|==============================================      |88.8% ~0 s remaining      
|==============================================      |88.96% ~0 s remaining     
|==============================================      |89.12% ~0 s remaining     
|==============================================      |89.28% ~0 s remaining     
|==============================================      |89.44% ~0 s remaining     
|==============================================      |89.6% ~0 s remaining      
|==============================================      |89.76% ~0 s remaining     
|==============================================      |89.92% ~0 s remaining     
|==============================================      |90.08% ~0 s remaining     
|==============================================      |90.24% ~0 s remaining     
|===============================================     |90.4% ~0 s remaining      
|===============================================     |90.56% ~0 s remaining     
|===============================================     |90.72% ~0 s remaining     
|===============================================     |90.88% ~0 s remaining     
|===============================================     |91.04% ~0 s remaining     
|===============================================     |91.2% ~0 s remaining      
|===============================================     |91.36% ~0 s remaining     
|===============================================     |91.52% ~0 s remaining     
|===============================================     |91.68% ~0 s remaining     
|===============================================     |91.84% ~0 s remaining     
|===============================================     | 92% ~0 s remaining       
|===============================================     |92.16% ~0 s remaining     
|================================================    |92.32% ~0 s remaining     
|================================================    |92.48% ~0 s remaining     
|================================================    |92.64% ~0 s remaining     
|================================================    |92.8% ~0 s remaining      
|================================================    |92.96% ~0 s remaining     
|================================================    |93.12% ~0 s remaining     
|================================================    |93.28% ~0 s remaining     
|================================================    |93.44% ~0 s remaining     
|================================================    |93.6% ~0 s remaining      
|================================================    |93.76% ~0 s remaining     
|================================================    |93.92% ~0 s remaining     
|================================================    |94.08% ~0 s remaining     
|=================================================   |94.24% ~0 s remaining     
|=================================================   |94.4% ~0 s remaining      
|=================================================   |94.56% ~0 s remaining     
|=================================================   |94.72% ~0 s remaining     
|=================================================   |94.88% ~0 s remaining     
|=================================================   |95.04% ~0 s remaining     
|=================================================   |95.2% ~0 s remaining      
|=================================================   |95.36% ~0 s remaining     
|=================================================   |95.52% ~0 s remaining     
|=================================================   |95.68% ~0 s remaining     
|=================================================   |95.84% ~0 s remaining     
|=================================================   | 96% ~0 s remaining       
|==================================================  |96.16% ~0 s remaining     
|==================================================  |96.32% ~0 s remaining     
|==================================================  |96.48% ~0 s remaining     
|==================================================  |96.64% ~0 s remaining     
|==================================================  |96.8% ~0 s remaining      
|==================================================  |96.96% ~0 s remaining     
|==================================================  |97.12% ~0 s remaining     
|==================================================  |97.28% ~0 s remaining     
|==================================================  |97.44% ~0 s remaining     
|==================================================  |97.6% ~0 s remaining      
|==================================================  |97.76% ~0 s remaining     
|==================================================  |97.92% ~0 s remaining     
|=================================================== |98.08% ~0 s remaining     
|=================================================== |98.24% ~0 s remaining     
|=================================================== |98.4% ~0 s remaining      
|=================================================== |98.56% ~0 s remaining     
|=================================================== |98.72% ~0 s remaining     
|=================================================== |98.88% ~0 s remaining     
|=================================================== |99.04% ~0 s remaining     
|=================================================== |99.2% ~0 s remaining      
|=================================================== |99.36% ~0 s remaining     
|=================================================== |99.52% ~0 s remaining     
|=================================================== |99.68% ~0 s remaining     
|=================================================== |99.84% ~0 s remaining     
|====================================================|100% ~0 s remaining       
|====================================================|100%                      Completed after 1 s 
                   Status freq
1 Regions below threshold    1
2 Regions above threshold    1
                   Status freq
1 Regions below threshold    1
2 Regions above threshold    1
                   Status freq
1 Regions below threshold    1
2 Regions above threshold    1

|                                                    |  0%                      
|==========================                          | 50% ~0 s remaining       
|====================================================|100% ~0 s remaining       
|====================================================|100%                      Completed after 0 s 
                 Status freq
1 Genes above threshold    1
2                  <NA>    1

|                                                    |  0%                      
|=================                                   |33.33333% ~0 s remaining  
|==================================                  |66.66667% ~0 s remaining  
|====================================================|100% ~0 s remaining       
|====================================================|100%                      Completed after 0 s 

|                                                    |  0%                      
|==========================                          | 50% ~0 s remaining       
|====================================================|100% ~0 s remaining       
|====================================================|100%                      Completed after 0 s 

|                                                    |  0%                      
|=================                                   |33.33333% ~0 s remaining  
|==================================                  |66.66667% ~0 s remaining  
|====================================================|100% ~0 s remaining       
|====================================================|100%                      Completed after 0 s 

|                                                    |  0%                      
|=======                                             |14.28571% ~0 s remaining  
|==============                                      |28.57143% ~0 s remaining  
|======================                              |42.85714% ~0 s remaining  
|=============================                       |57.14286% ~0 s remaining  
|=====================================               |71.42857% ~0 s remaining  
|============================================        |85.71429% ~0 s remaining  
|====================================================|100% ~0 s remaining       
|====================================================|100%                      Completed after 0 s 

|                                                    |  0%                      
|====================================================|100% ~0 s remaining       
|====================================================|100%                      Completed after 0 s 

|                                                    |  0%                      
|====================================================|100% ~0 s remaining       
|====================================================|100%                      Completed after 0 s 

|                                                    |  0%                      
|====================================================|100% ~0 s remaining       
|====================================================|100%                      Completed after 0 s 

|                                                    |  0%                      
|====================================================|100% ~0 s remaining       
|====================================================|100%                      Completed after 0 s 
[ FAIL 0 | WARN 4 | SKIP 10 | PASS 152 ]

══ Skipped tests ═══════════════════════════════════════════════════════════════
• On Bioconductor (6)
• On CRAN (2)
• empty test (2)

[ FAIL 0 | WARN 4 | SKIP 10 | PASS 152 ]
> 
> proc.time()
   user  system elapsed 
 81.696   6.145  89.122 

Example timings

MethReg.Rcheck/MethReg-Ex.timings

nameusersystemelapsed
cor_dnam_target_gene0.0420.0080.051
cor_tf_target_gene0.0170.0040.020
create_triplet_distance_based28.451 2.26930.871
create_triplet_regulon_based20.833 1.15522.043
filter_dnam_by_quant_diff0.0750.0030.079
filter_exp_by_quant_mean_FC0.6260.0310.660
get_human_tfs0.4030.1420.465
get_met_probes_info0.0140.0000.014
get_promoter_avg000
get_region_target_gene2.5820.1132.700
get_residuals0.0340.0030.037
get_tf_ES1.0470.1031.156
get_tf_in_region20.038 1.13121.221
interaction_model0.2120.0030.216
make_dnam_se0.0510.0010.052
make_exp_se0.0620.0010.063
make_granges_from_names0.0110.0000.011
make_names_from_granges0.0110.0000.011
plot_interaction_model1.4110.0531.468
stratified_model0.0350.0010.037