From 61ebe8b6c4848664e15c3465e7e2dbe9ba466af0 Mon Sep 17 00:00:00 2001
From: Gibran Hemani <explodecomputer@gmail.com>
Date: Wed, 13 Mar 2024 00:04:30 +0000
Subject: [PATCH] trying to fix codecov

---
 .Rbuildignore                      |  1 +
 .github/workflows/R-CMD-check.yaml |  3 ---
 DESCRIPTION                        |  4 ++--
 README.md                          |  2 +-
 codecov.yml                        | 14 ++++++++++++++
 5 files changed, 18 insertions(+), 6 deletions(-)
 create mode 100644 codecov.yml

diff --git a/.Rbuildignore b/.Rbuildignore
index c4f1d2c..9d0c9d7 100644
--- a/.Rbuildignore
+++ b/.Rbuildignore
@@ -10,3 +10,4 @@
 ^\.Rproj\.user$
 ^cran-comments\.md$
 ^CRAN-SUBMISSION$
+^codecov\.yml$
diff --git a/.github/workflows/R-CMD-check.yaml b/.github/workflows/R-CMD-check.yaml
index 9edc36d..a5ffd72 100644
--- a/.github/workflows/R-CMD-check.yaml
+++ b/.github/workflows/R-CMD-check.yaml
@@ -25,14 +25,11 @@ jobs:
           - {os: macOS-latest,   r: 'release'}
 
           - {os: windows-latest, r: 'release'}
-          # Use 3.6 to trigger usage of RTools35
-          - {os: windows-latest, r: '3.6'}
 
           # Use older ubuntu to maximise backward compatibility
           - {os: ubuntu-18.04,   r: 'devel', http-user-agent: 'release'}
           - {os: ubuntu-18.04,   r: 'release'}
           - {os: ubuntu-18.04,   r: 'oldrel-1'}
-          - {os: ubuntu-18.04,   r: 'oldrel-2'}
 
     env:
       GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
diff --git a/DESCRIPTION b/DESCRIPTION
index d4bb2e7..d0d1331 100644
--- a/DESCRIPTION
+++ b/DESCRIPTION
@@ -1,5 +1,5 @@
 Package: ieugwasr
-Title: R Interface to the OpenGWAS Database API
+Title: R Interface to the 'OpenGWAS' Database API
 Version: 0.1.7
 Authors@R: c(
     person("Gibran", "Hemani", , "g.hemani@bristol.ac.uk", role = c("aut", "cre", "cph"),
@@ -11,7 +11,7 @@ Authors@R: c(
     person("Rita", "Rasteiro", , "rita.rasteiro@bristol.ac.uk", role = "aut",
            comment = c(ORCID = "0000-0002-4217-3060"))
     )
-Description: R interface to the OpenGWAS database API. Includes a wrapper
+Description: R interface to the 'OpenGWAS' database API. Includes a wrapper
     to make generic calls to the API, plus convenience functions for
     specific queries.
 License: MIT + file LICENSE
diff --git a/README.md b/README.md
index 63a18d0..70e244c 100644
--- a/README.md
+++ b/README.md
@@ -4,7 +4,7 @@
 [![Lifecycle:
 experimental](https://img.shields.io/badge/lifecycle-experimental-orange.svg)](https://lifecycle.r-lib.org/articles/stages.html#experimental)
 [![R build status](https://github.com/MRCIEU/ieugwasr/workflows/R-CMD-check/badge.svg)](https://github.com/MRCIEU/ieugwasr/actions)
-[![codecov](https://codecov.io/github/mrcieu/ieugwasr/branch/master/graphs/badge.svg)](https://codecov.io/github/mrcieu/ieugwasr) 
+[![Codecov test coverage](https://codecov.io/gh/MRCIEU/ieugwasr/branch/master/graph/badge.svg)](https://app.codecov.io/gh/MRCIEU/ieugwasr?branch=master)
 <!-- badges: end -->
 
 The [IEU GWAS database](https://gwas.mrcieu.ac.uk/) comprises over 10,000 curated, QC'd and harmonised complete GWAS summary datasets and can be queried using an API. See [here](https://gwas-api.mrcieu.ac.uk/docs) for documentation on the API itself. This R package is a wrapper to make generic calls to the API, plus convenience functions for specific queries. 
diff --git a/codecov.yml b/codecov.yml
new file mode 100644
index 0000000..04c5585
--- /dev/null
+++ b/codecov.yml
@@ -0,0 +1,14 @@
+comment: false
+
+coverage:
+  status:
+    project:
+      default:
+        target: auto
+        threshold: 1%
+        informational: true
+    patch:
+      default:
+        target: auto
+        threshold: 1%
+        informational: true