From f3c4a948bc0876e788f73c90196974d439816886 Mon Sep 17 00:00:00 2001
From: IanCa <ianrcallanan@gmail.com>
Date: Fri, 21 Jun 2024 16:29:29 -0500
Subject: [PATCH 1/5] Try adding link checker v1

---
 .github/workflows/codespell.yaml |  2 +-
 .github/workflows/links.yaml     | 24 ++++++++++++++++++++++++
 2 files changed, 25 insertions(+), 1 deletion(-)
 create mode 100644 .github/workflows/links.yaml

diff --git a/.github/workflows/codespell.yaml b/.github/workflows/codespell.yaml
index 3deac45..9c6511f 100644
--- a/.github/workflows/codespell.yaml
+++ b/.github/workflows/codespell.yaml
@@ -17,6 +17,6 @@ jobs:
 
     steps:
       - name: Checkout
-        uses: actions/checkout@v3
+        uses: actions/checkout@v4
       - name: Codespell
         uses: codespell-project/actions-codespell@v2
\ No newline at end of file
diff --git a/.github/workflows/links.yaml b/.github/workflows/links.yaml
new file mode 100644
index 0000000..79f1dec
--- /dev/null
+++ b/.github/workflows/links.yaml
@@ -0,0 +1,24 @@
+---
+name: Codespell
+
+on:
+  push:
+    branches: [develop]
+  pull_request:
+    branches: [develop]
+
+permissions:
+  contents: read
+
+jobs:
+  codespell:
+    name: Check for spelling errors
+    runs-on: ubuntu-latest
+
+    steps:
+      - name: Checkout
+        uses: actions/checkout@v4
+
+      - name: Link Checker
+        id: lychee
+        uses: lycheeverse/lychee-action@v1
\ No newline at end of file

From 657664a21f73b251adf509f91314bd60e4e11608 Mon Sep 17 00:00:00 2001
From: IanCa <ianrcallanan@gmail.com>
Date: Fri, 21 Jun 2024 16:39:02 -0500
Subject: [PATCH 2/5] update link params and name

---
 .github/workflows/links.yaml | 7 +++++--
 1 file changed, 5 insertions(+), 2 deletions(-)

diff --git a/.github/workflows/links.yaml b/.github/workflows/links.yaml
index 79f1dec..81ee6a4 100644
--- a/.github/workflows/links.yaml
+++ b/.github/workflows/links.yaml
@@ -1,5 +1,5 @@
 ---
-name: Codespell
+name: Lychee link checker
 
 on:
   push:
@@ -21,4 +21,7 @@ jobs:
 
       - name: Link Checker
         id: lychee
-        uses: lycheeverse/lychee-action@v1
\ No newline at end of file
+        uses: lycheeverse/lychee-action@v1
+        with:
+          # Check all markdown, html and reStructuredText files in repo (default)
+          args: --base . --verbose --no-progress './**/*.md' './**/*.html' './**/*.rst' --exclude (_anchor|-anchor)
\ No newline at end of file

From a616a3f0a44a5d217ccfcaa71cdfda788758a7da Mon Sep 17 00:00:00 2001
From: IanCa <ianrcallanan@gmail.com>
Date: Fri, 21 Jun 2024 16:40:42 -0500
Subject: [PATCH 3/5] tweak param

---
 .github/workflows/links.yaml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/.github/workflows/links.yaml b/.github/workflows/links.yaml
index 81ee6a4..66ec138 100644
--- a/.github/workflows/links.yaml
+++ b/.github/workflows/links.yaml
@@ -24,4 +24,4 @@ jobs:
         uses: lycheeverse/lychee-action@v1
         with:
           # Check all markdown, html and reStructuredText files in repo (default)
-          args: --base . --verbose --no-progress './**/*.md' './**/*.html' './**/*.rst' --exclude (_anchor|-anchor)
\ No newline at end of file
+          args: --base . --verbose --no-progress './**/*.md' './**/*.html' './**/*.rst' --exclude '(_anchor|-anchor)'
\ No newline at end of file

From fe28c5a8c39490d63e71f8cf807e29a90fc8d17f Mon Sep 17 00:00:00 2001
From: IanCa <ianrcallanan@gmail.com>
Date: Fri, 21 Jun 2024 16:49:05 -0500
Subject: [PATCH 4/5] Fix name in workflow

---
 .github/workflows/links.yaml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/.github/workflows/links.yaml b/.github/workflows/links.yaml
index 66ec138..fada9f8 100644
--- a/.github/workflows/links.yaml
+++ b/.github/workflows/links.yaml
@@ -12,7 +12,7 @@ permissions:
 
 jobs:
   codespell:
-    name: Check for spelling errors
+    name: Lychee link checker
     runs-on: ubuntu-latest
 
     steps:

From c60d95735d1cfa834e19a32d21d80191339b5381 Mon Sep 17 00:00:00 2001
From: IanCa <ianrcallanan@gmail.com>
Date: Mon, 24 Jun 2024 11:20:35 -0500
Subject: [PATCH 5/5] Move ignored links to file

---
 .github/workflows/links.yaml | 7 ++-----
 .lycheeignore                | 5 +++++
 2 files changed, 7 insertions(+), 5 deletions(-)
 create mode 100644 .lycheeignore

diff --git a/.github/workflows/links.yaml b/.github/workflows/links.yaml
index fada9f8..b1e9891 100644
--- a/.github/workflows/links.yaml
+++ b/.github/workflows/links.yaml
@@ -2,10 +2,7 @@
 name: Lychee link checker
 
 on:
-  push:
-    branches: [develop]
-  pull_request:
-    branches: [develop]
+  workflow_dispatch:
 
 permissions:
   contents: read
@@ -24,4 +21,4 @@ jobs:
         uses: lycheeverse/lychee-action@v1
         with:
           # Check all markdown, html and reStructuredText files in repo (default)
-          args: --base . --verbose --no-progress './**/*.md' './**/*.html' './**/*.rst' --exclude '(_anchor|-anchor)'
\ No newline at end of file
+          args: --base . --verbose --no-progress './**/*.md' './**/*.html' './**/*.rst'
\ No newline at end of file
diff --git a/.lycheeignore b/.lycheeignore
new file mode 100644
index 0000000..0b18600
--- /dev/null
+++ b/.lycheeignore
@@ -0,0 +1,5 @@
+<!-- This file lists all links/regex to be ignored by lychee in the link checker -->
+https://www.sciencedirect.com/science/article/pii/S1053811921010387
+https://www.sciencedirect.com/science/article/pii/S0010945221001106
+(_anchor|-anchor)
+