From 8154253a37bdbaa2c5ba6d0e0f98e55ac069f530 Mon Sep 17 00:00:00 2001
From: Thomas Bishop <tactonbishop@gmail.com>
Date: Sun, 20 Oct 2024 19:02:25 +0100
Subject: [PATCH 01/10] Update publish-neuron.yml

---
 .github/workflows/publish-neuron.yml | 17 +++++++++++++++--
 1 file changed, 15 insertions(+), 2 deletions(-)

diff --git a/.github/workflows/publish-neuron.yml b/.github/workflows/publish-neuron.yml
index 40d4525..0ba20af 100644
--- a/.github/workflows/publish-neuron.yml
+++ b/.github/workflows/publish-neuron.yml
@@ -11,8 +11,21 @@ jobs:
     - name: Build neuron site 🔧
       run: |
         mkdir -p .neuron/output && touch .neuron/output/.nojekyll
-        NEURON_FILE=$(ls eolas/neuron/*.md | head -n 1)
-        docker run -v $PWD:/notes sridca/neuron neuron gen --pretty-urls /notes/$NEURON_FILE
+        NEURON_DIR=$(find eolas/neuron -maxdepth 1 -type d -regex '.*/[a-f0-9-]\{36\}' | head -n 1)
+        if [ -n "$NEURON_DIR" ]; then
+          echo "Found Neuron directory: $NEURON_DIR"
+          NEURON_FILE=$(find "$NEURON_DIR" -name "*.md" | head -n 1)
+          if [ -n "$NEURON_FILE" ]; then
+            echo "Found Neuron file: $NEURON_FILE"
+            docker run -v $PWD:/notes sridca/neuron neuron gen --pretty-urls /notes
+          else
+            echo "No .md files found in $NEURON_DIR"
+            exit 1
+          fi
+        else
+          echo "No matching directory found in eolas/neuron"
+          exit 1
+        fi
     - name: Deploy to gh-pages 🚀
       uses: peaceiris/actions-gh-pages@v3
       with:

From 9f30a914c21a468a81a83f367f7c66f37992aed9 Mon Sep 17 00:00:00 2001
From: Thomas Bishop <tactonbishop@gmail.com>
Date: Sun, 20 Oct 2024 19:04:43 +0100
Subject: [PATCH 02/10] Update publish-neuron.yml

---
 .github/workflows/publish-neuron.yml | 6 +++---
 1 file changed, 3 insertions(+), 3 deletions(-)

diff --git a/.github/workflows/publish-neuron.yml b/.github/workflows/publish-neuron.yml
index 0ba20af..e4bd2e5 100644
--- a/.github/workflows/publish-neuron.yml
+++ b/.github/workflows/publish-neuron.yml
@@ -2,7 +2,7 @@ name: "Publish Neuron Site"
 on:
   push:
     branches:
-      - master  # or your main branch name
+      - master
 jobs:
   neuron:
     runs-on: ubuntu-latest
@@ -11,7 +11,7 @@ jobs:
     - name: Build neuron site 🔧
       run: |
         mkdir -p .neuron/output && touch .neuron/output/.nojekyll
-        NEURON_DIR=$(find eolas/neuron -maxdepth 1 -type d -regex '.*/[a-f0-9-]\{36\}' | head -n 1)
+        NEURON_DIR=$(find neuron -maxdepth 1 -type d -regex '.*/[a-f0-9-]\{36\}' | head -n 1)
         if [ -n "$NEURON_DIR" ]; then
           echo "Found Neuron directory: $NEURON_DIR"
           NEURON_FILE=$(find "$NEURON_DIR" -name "*.md" | head -n 1)
@@ -23,7 +23,7 @@ jobs:
             exit 1
           fi
         else
-          echo "No matching directory found in eolas/neuron"
+          echo "No matching directory found in neuron/"
           exit 1
         fi
     - name: Deploy to gh-pages 🚀

From 36b8c843215651cfc529aa55b5dc12cbf5f69a57 Mon Sep 17 00:00:00 2001
From: Thomas Bishop <tactonbishop@gmail.com>
Date: Sun, 20 Oct 2024 19:07:15 +0100
Subject: [PATCH 03/10] Update publish-neuron.yml

---
 .github/workflows/publish-neuron.yml | 13 +++----------
 1 file changed, 3 insertions(+), 10 deletions(-)

diff --git a/.github/workflows/publish-neuron.yml b/.github/workflows/publish-neuron.yml
index e4bd2e5..2d07ab6 100644
--- a/.github/workflows/publish-neuron.yml
+++ b/.github/workflows/publish-neuron.yml
@@ -11,19 +11,12 @@ jobs:
     - name: Build neuron site 🔧
       run: |
         mkdir -p .neuron/output && touch .neuron/output/.nojekyll
-        NEURON_DIR=$(find neuron -maxdepth 1 -type d -regex '.*/[a-f0-9-]\{36\}' | head -n 1)
+        NEURON_DIR=$(find neuron -maxdepth 1 -type d -regex 'neuron/[a-f0-9-]\{36\}' | head -n 1)
         if [ -n "$NEURON_DIR" ]; then
           echo "Found Neuron directory: $NEURON_DIR"
-          NEURON_FILE=$(find "$NEURON_DIR" -name "*.md" | head -n 1)
-          if [ -n "$NEURON_FILE" ]; then
-            echo "Found Neuron file: $NEURON_FILE"
-            docker run -v $PWD:/notes sridca/neuron neuron gen --pretty-urls /notes
-          else
-            echo "No .md files found in $NEURON_DIR"
-            exit 1
-          fi
+          docker run -v $PWD:/notes sridca/neuron neuron gen --pretty-urls /notes
         else
-          echo "No matching directory found in neuron/"
+          echo "No directory matching neuron/UUID format found"
           exit 1
         fi
     - name: Deploy to gh-pages 🚀

From 13b2bd3de574ac5c60d53cdb816be57f77558b0e Mon Sep 17 00:00:00 2001
From: Thomas Bishop <tactonbishop@gmail.com>
Date: Sun, 20 Oct 2024 19:08:50 +0100
Subject: [PATCH 04/10] Update publish-neuron.yml

---
 .github/workflows/publish-neuron.yml | 6 +++---
 1 file changed, 3 insertions(+), 3 deletions(-)

diff --git a/.github/workflows/publish-neuron.yml b/.github/workflows/publish-neuron.yml
index 2d07ab6..a3da4e1 100644
--- a/.github/workflows/publish-neuron.yml
+++ b/.github/workflows/publish-neuron.yml
@@ -11,12 +11,12 @@ jobs:
     - name: Build neuron site 🔧
       run: |
         mkdir -p .neuron/output && touch .neuron/output/.nojekyll
-        NEURON_DIR=$(find neuron -maxdepth 1 -type d -regex 'neuron/[a-f0-9-]\{36\}' | head -n 1)
+        NEURON_DIR=$(ls -d neuron/*/ | head -n 1)
         if [ -n "$NEURON_DIR" ]; then
           echo "Found Neuron directory: $NEURON_DIR"
-          docker run -v $PWD:/notes sridca/neuron neuron gen --pretty-urls /notes
+          docker run -v $PWD:/notes sridca/neuron neuron gen --pretty-urls
         else
-          echo "No directory matching neuron/UUID format found"
+          echo "No subdirectory found in neuron/"
           exit 1
         fi
     - name: Deploy to gh-pages 🚀

From a71f6737c6d89d0135c399ac9a6e476a83c05030 Mon Sep 17 00:00:00 2001
From: Thomas Bishop <tactonbishop@gmail.com>
Date: Sun, 20 Oct 2024 19:23:19 +0100
Subject: [PATCH 05/10] Update publish-neuron.yml

---
 .github/workflows/publish-neuron.yml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/.github/workflows/publish-neuron.yml b/.github/workflows/publish-neuron.yml
index a3da4e1..fed1472 100644
--- a/.github/workflows/publish-neuron.yml
+++ b/.github/workflows/publish-neuron.yml
@@ -14,7 +14,7 @@ jobs:
         NEURON_DIR=$(ls -d neuron/*/ | head -n 1)
         if [ -n "$NEURON_DIR" ]; then
           echo "Found Neuron directory: $NEURON_DIR"
-          docker run -v $PWD:/notes sridca/neuron neuron gen --pretty-urls
+          docker run -v $PWD:/notes sridca/neuron neuron gen --pretty-urls /neuron/*/
         else
           echo "No subdirectory found in neuron/"
           exit 1

From 6683ab403f53005af6eb82b82a71e82cc309932d Mon Sep 17 00:00:00 2001
From: Thomas Bishop <tactonbishop@gmail.com>
Date: Sun, 20 Oct 2024 19:24:42 +0100
Subject: [PATCH 06/10] Update publish-neuron.yml

---
 .github/workflows/publish-neuron.yml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/.github/workflows/publish-neuron.yml b/.github/workflows/publish-neuron.yml
index fed1472..657696f 100644
--- a/.github/workflows/publish-neuron.yml
+++ b/.github/workflows/publish-neuron.yml
@@ -14,7 +14,7 @@ jobs:
         NEURON_DIR=$(ls -d neuron/*/ | head -n 1)
         if [ -n "$NEURON_DIR" ]; then
           echo "Found Neuron directory: $NEURON_DIR"
-          docker run -v $PWD:/notes sridca/neuron neuron gen --pretty-urls /neuron/*/
+          docker run -v $PWD:/notes sridca/neuron neuron gen --pretty-urls /neuron/$(ls -d neuron/*/ | sed 's/neuron\///' | head -n 1)
         else
           echo "No subdirectory found in neuron/"
           exit 1

From 780675f746bddb4448f61c83e94bc63060c89966 Mon Sep 17 00:00:00 2001
From: Thomas Bishop <tactonbishop@gmail.com>
Date: Sun, 20 Oct 2024 19:26:16 +0100
Subject: [PATCH 07/10] Update publish-neuron.yml

---
 .github/workflows/publish-neuron.yml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/.github/workflows/publish-neuron.yml b/.github/workflows/publish-neuron.yml
index 657696f..3f96e51 100644
--- a/.github/workflows/publish-neuron.yml
+++ b/.github/workflows/publish-neuron.yml
@@ -14,7 +14,7 @@ jobs:
         NEURON_DIR=$(ls -d neuron/*/ | head -n 1)
         if [ -n "$NEURON_DIR" ]; then
           echo "Found Neuron directory: $NEURON_DIR"
-          docker run -v $PWD:/notes sridca/neuron neuron gen --pretty-urls /neuron/$(ls -d neuron/*/ | sed 's/neuron\///' | head -n 1)
+          docker run -v $PWD:/notes sridca/neuron neuron gen --pretty-urls /neuron/$(ls -d neuron/*/ | sed 's/neuron\///' | sed 's/\///' | head -n 1)
         else
           echo "No subdirectory found in neuron/"
           exit 1

From dda19934db708e239bb0d5aaa0df9ae7dbf98bdd Mon Sep 17 00:00:00 2001
From: Thomas Bishop <tactonbishop@gmail.com>
Date: Sun, 20 Oct 2024 19:27:56 +0100
Subject: [PATCH 08/10] Update publish-neuron.yml

---
 .github/workflows/publish-neuron.yml | 10 +++-------
 1 file changed, 3 insertions(+), 7 deletions(-)

diff --git a/.github/workflows/publish-neuron.yml b/.github/workflows/publish-neuron.yml
index 3f96e51..b1e6a17 100644
--- a/.github/workflows/publish-neuron.yml
+++ b/.github/workflows/publish-neuron.yml
@@ -12,13 +12,9 @@ jobs:
       run: |
         mkdir -p .neuron/output && touch .neuron/output/.nojekyll
         NEURON_DIR=$(ls -d neuron/*/ | head -n 1)
-        if [ -n "$NEURON_DIR" ]; then
-          echo "Found Neuron directory: $NEURON_DIR"
-          docker run -v $PWD:/notes sridca/neuron neuron gen --pretty-urls /neuron/$(ls -d neuron/*/ | sed 's/neuron\///' | sed 's/\///' | head -n 1)
-        else
-          echo "No subdirectory found in neuron/"
-          exit 1
-        fi
+        cd $NEURON_DIR
+        docker run -v $PWD:/notes sridca/neuron neuron gen --pretty-urls
+        mv .neuron ../../.neuron
     - name: Deploy to gh-pages 🚀
       uses: peaceiris/actions-gh-pages@v3
       with:

From 4b5f4a9173bcf7f1e8a5ede083e06f6edd71e6a0 Mon Sep 17 00:00:00 2001
From: Thomas Bishop <tactonbishop@gmail.com>
Date: Sun, 20 Oct 2024 19:31:07 +0100
Subject: [PATCH 09/10] Update publish-neuron.yml

---
 .github/workflows/publish-neuron.yml | 7 +++++++
 1 file changed, 7 insertions(+)

diff --git a/.github/workflows/publish-neuron.yml b/.github/workflows/publish-neuron.yml
index b1e6a17..37e251d 100644
--- a/.github/workflows/publish-neuron.yml
+++ b/.github/workflows/publish-neuron.yml
@@ -12,9 +12,16 @@ jobs:
       run: |
         mkdir -p .neuron/output && touch .neuron/output/.nojekyll
         NEURON_DIR=$(ls -d neuron/*/ | head -n 1)
+        echo "Neuron directory: $NEURON_DIR"
         cd $NEURON_DIR
         docker run -v $PWD:/notes sridca/neuron neuron gen --pretty-urls
+        echo "Contents of current directory after Neuron generation:"
+        ls -R
+        echo "Moving .neuron directory..."
         mv .neuron ../../.neuron
+        cd ../..
+        echo "Contents of .neuron directory:"
+        ls -R .neuron
     - name: Deploy to gh-pages 🚀
       uses: peaceiris/actions-gh-pages@v3
       with:

From 50fb035d0053f67b2e8aa5d33aafa7f8e467c781 Mon Sep 17 00:00:00 2001
From: Thomas Bishop <tactonbishop@gmail.com>
Date: Sun, 20 Oct 2024 19:33:32 +0100
Subject: [PATCH 10/10] Update publish-neuron.yml

---
 .github/workflows/publish-neuron.yml | 12 +++++-------
 1 file changed, 5 insertions(+), 7 deletions(-)

diff --git a/.github/workflows/publish-neuron.yml b/.github/workflows/publish-neuron.yml
index 37e251d..123134a 100644
--- a/.github/workflows/publish-neuron.yml
+++ b/.github/workflows/publish-neuron.yml
@@ -10,18 +10,16 @@ jobs:
     - uses: actions/checkout@v2
     - name: Build neuron site 🔧
       run: |
-        mkdir -p .neuron/output && touch .neuron/output/.nojekyll
         NEURON_DIR=$(ls -d neuron/*/ | head -n 1)
         echo "Neuron directory: $NEURON_DIR"
         cd $NEURON_DIR
         docker run -v $PWD:/notes sridca/neuron neuron gen --pretty-urls
-        echo "Contents of current directory after Neuron generation:"
-        ls -R
-        echo "Moving .neuron directory..."
-        mv .neuron ../../.neuron
+        echo "Copying generated files..."
+        mkdir -p ../../.neuron/output
+        docker cp $(docker ps -lq):/notes/.neuron/output/. ../../.neuron/output/
         cd ../..
-        echo "Contents of .neuron directory:"
-        ls -R .neuron
+        echo "Contents of .neuron/output directory:"
+        ls -R .neuron/output
     - name: Deploy to gh-pages 🚀
       uses: peaceiris/actions-gh-pages@v3
       with: