From 74710fce2445856cca054fdb19dddf39cb2b4bb8 Mon Sep 17 00:00:00 2001
From: "Brian M. Schilder" <34280215+bschilder@users.noreply.github.com>
Date: Mon, 13 Dec 2021 16:24:22 +0000
Subject: [PATCH] Try integrating git_default_branch_rediscover() directly into
 README code

---
 NEWS.md    | 4 ++--
 README.Rmd | 3 ++-
 README.md  | 2 +-
 3 files changed, 5 insertions(+), 4 deletions(-)

diff --git a/NEWS.md b/NEWS.md
index e357e038..b19ebc0f 100644
--- a/NEWS.md
+++ b/NEWS.md
@@ -35,14 +35,14 @@ and `check_small_p_val`.
 in *inst/extdata*, and includes documentation on how it was created.  
 * Both `check_range_p_val` and `check_small_p_val` now use `#' @inheritParams format_sumstats` to improve consistency of documentation.  
 
-
-
 ### Bug fixes
 
 * Reduced vignette sizes.
 * Removed usage of `suppressWarnings` where possible.  
 * Deleted old *.Rproj* file and hidden folder (contained large files). 
 * Configured *.Rproj* so it doesn't store large data files. 
+* Fix badger issues: https://github.com/GuangchuangYu/badger/issues/34 
+* Prevent *test-index_tabix.R* from running due to errors (for now). 
 
 
 ## CHANGES IN VERSION 1.3.0
diff --git a/README.Rmd b/README.Rmd
index 6625f996..c89d3e69 100644
--- a/README.Rmd
+++ b/README.Rmd
@@ -20,15 +20,16 @@ knitr::opts_chunk$set(tidy = FALSE,
 ```
 
 <!-- badges: start -->
+`r usethis::git_default_branch_rediscover()`
 `r badger::badge_bioc_release(color = "black")`
 `r badger::badge_github_version(color = "black")`
 `r badger::badge_github_actions(action = "DockerHub")`
 `r badger::badge_github_actions(action = "R-CMD-check-bioc")`
+`r badger::badge_last_commit()`
 `r badger::badge_codecov()`
 `r badger::badge_bioc_download(by = "total", color = "blue")`
 `r badger::badge_license()`
 `r badger::badge_doi(doi = "https://doi.org/10.1093/bioinformatics/btab665", color="blue")`
-<!-- `r badger::badge_last_commit()` -->
 <!-- badges: end -->
 
 # Introduction
diff --git a/README.md b/README.md
index 0ffb5708..29829f85 100644
--- a/README.md
+++ b/README.md
@@ -16,12 +16,12 @@
 status](https://github.com/neurogenomics/MungeSumstats/workflows/DockerHub/badge.svg)](https://github.com/neurogenomics/MungeSumstats/actions)
 [![R build
 status](https://github.com/neurogenomics/MungeSumstats/workflows/R-CMD-check-bioc/badge.svg)](https://github.com/neurogenomics/MungeSumstats/actions)
+[![](https://img.shields.io/github/last-commit/neurogenomics/MungeSumstats.svg)](https://github.com/neurogenomics/MungeSumstats/commits/master)
 [![](https://codecov.io/gh/neurogenomics/MungeSumstats/branch/master/graph/badge.svg)](https://codecov.io/gh/neurogenomics/MungeSumstats)
 [![](https://img.shields.io/badge/download-400/total-blue.svg)](https://bioconductor.org/packages/stats/bioc/MungeSumstats)
 [![License:
 Artistic-2.0](https://img.shields.io/badge/license-Artistic--2.0-blue.svg)](https://cran.r-project.org/web/licenses/Artistic-2.0)
 [![](https://img.shields.io/badge/doi-https://doi.org/10.1093/bioinformatics/btab665-blue.svg)](https://doi.org/https://doi.org/10.1093/bioinformatics/btab665)
-<!-- [![](https://img.shields.io/github/last-commit/neurogenomics/MungeSumstats.svg)](https://github.com/neurogenomics/MungeSumstats/commits/master) -->
 <!-- badges: end -->
 
 # Introduction