refactor: Fix paths

beiko-lab · Oct 11, 2023 · 2922740 · 2922740
2 parents 94be680 + 543a7cd
commit 2922740
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diff --git a/.github/.dockstore.yml b/.github/.dockstore.yml
diff --git a/.github/ISSUE_TEMPLATE/bug_report.md b/.github/ISSUE_TEMPLATE/bug_report.md
diff --git a/.github/ISSUE_TEMPLATE/config.yml b/.github/ISSUE_TEMPLATE/config.yml
diff --git a/.github/ISSUE_TEMPLATE/feature_request.md b/.github/ISSUE_TEMPLATE/feature_request.md
diff --git a/.github/PULL_REQUEST_TEMPLATE.md b/.github/PULL_REQUEST_TEMPLATE.md
diff --git a/.github/markdownlint.yml b/.github/markdownlint.yml
diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
@@ -19,7 +19,7 @@ jobs:
     strategy:
       matrix:
         NXF_VER:
-          - "latest-everything"
+          - "latest-stable"
     steps:
       - name: Check out pipeline code
         uses: actions/checkout@v2
@@ -42,7 +42,7 @@ jobs:
       matrix:
         profile: ["docker", "singularity"]
         NXF_VER:
-          - "latest-everything"
+          - "latest-stable"
     steps:
       - name: Check out pipeline code
         uses: actions/checkout@v2

diff --git a/.github/workflows/docs.yml b/.github/workflows/docs.yml
@@ -0,0 +1,32 @@
+# This workflow will automatically deploy the mkdocs documentation
+# while installing the necessary Python dependencies.
+# See https://parkererickson.github.io/portfolio/blog/MkDocsCD/
+
+name: docs
+
+on:
+  push:
+    branches: [master]
+  workflow_dispatch:
+
+jobs:
+  build:
+    name: Build and Deploy Documentation
+    runs-on: ubuntu-latest
+    steps:
+      - name: Checkout Master
+        uses: actions/checkout@v2
+
+      - name: Set up Python 3
+        uses: actions/setup-python@v2
+        with:
+          python-version: "3.10.8"
+
+      - name: Install dependencies
+        run: |
+          python -m pip install --upgrade pip
+          pip install mkdocs
+      - name: Deploy
+        run: |
+          git pull
+          mkdocs gh-deploy
diff --git a/.github/workflows/linting.yml b/.github/workflows/linting.yml
diff --git a/.github/workflows/linting_comment.yml b/.github/workflows/linting_comment.yml
diff --git a/.github/workflows/test.yml b/.github/workflows/test.yml
@@ -1,7 +1,6 @@
 name: nf-test CI
 # This workflow runs the nf-test test suite
 on:
-  push:
   pull_request:
   release:
     types: [published]
@@ -16,7 +15,7 @@ jobs:
     strategy:
       matrix:
         NXF_VER:
-          - "latest-everything"
+          - "latest-stable"
         profile: ["docker"] # TODO , "singularity", "conda"]
     steps:
       - name: Check out pipeline code

diff --git a/.gitignore b/.gitignore
@@ -7,3 +7,4 @@ testing/
 testing*
 *.pyc
 .nf-test
+test.nf
-Original file line number
+Diff line change
@@ Expand Up / @@ -7,3 +7,4 @@ testing/ @@
     testing*
     *.pyc
     .nf-test
+    test.nf