mkdocs workflow & config first try

.github/workflows/make-mkdocs.yaml

@@ -0,0 +1,21 @@
+name: mk-docs 
+on:
+  push:
+    branches:
+      - main
+      - master
+jobs:
+  deploy:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v2
+      - uses: actions/setup-python@v2
+        with:
+          python-version: 3.x
+      - run: pip install mkdocs-material 
+      - run: pip install mkdocs-macros-plugin
+      - run: pip install pymdown-extensions
+      - run: pip install mkdocs-mermaid2-plugin
+      - run: pip install mdx_gh_links
+      - run: pip install mkdocs-with-pdf
+      - run: mkdocs gh-deploy --force

README.md

@@ -1,2 +1,7 @@
-# cnv-reference-resources
-Data & tools for hCNV analysis with a focus on the distributed normal
+# hCNV Reference Resources
+##### Data & tools for hCNV analysis with a focus on the distributed normal
+
+The site was started as a project of the [ELIXIR hCNV Community](https://cnvar.org)
+at the [Biohackathon Europe 2023](https://biohackathon-europe.org):
+
+    [A "batteries-included" open reference resource for human genomic copy number variants (CNV)](https://github.com/elixir-europe/biohackathon-projects-2023/tree/main/1)

docs/beacon-queries.md

@@ -0,0 +1,3 @@
+# Beacon CNV Queries
+
+==TBD==

mkdocs.yml

@@ -1 +1,61 @@
-site_name: My Docs
+site_name: hCNV Reference Resources
+site_description: 'Data & tools for hCNV analysis with a focus on the distributed normal'
+site_author: Michael Baudis
+repo_name: 'cnv-reference-resources'
+repo_url: https://github.com/hCNV/cnv-reference-resources
+edit_uri: edit/main/docs/
+
+###############################################################################
+
+nav:
+  - Home: /
+  - Topic Pages:
+    - Input Data: data-resources
+    - Parameters & Mappings: parameters-and-mappings
+    - Beacon Queries: beacon-queries
+  - Biohack 2023 Page: https://github.com/elixir-europe/biohackathon-projects-2023/tree/main/1
+  - Beacon Documentation: 'https://docs.genomebeacons.org'
+
+###############################################################################
+
+markdown_extensions:
+  - toc:
+      toc_depth: 2-3
+      permalink: true
+  - admonition
+  - attr_list
+  - footnotes
+  - md_in_html
+  - pymdownx.critic
+  - pymdownx.caret
+  - pymdownx.details
+  - pymdownx.keys
+  - pymdownx.magiclink:
+      hide_protocol: true
+  - pymdownx.mark
+  - pymdownx.tilde
+  - pymdownx.saneheaders
+  - pymdownx.superfences:
+      custom_fences:
+        - name: mermaid
+          class: mermaid
+          format: !!python/name:mermaid2.fence_mermaid   
+  - pymdownx.tabbed:
+      alternate_style: true
+  - pymdownx.tasklist:
+      custom_checkbox: true
+  - tables
+  - mdx_gh_links:
+      user: hCNV
+      repo: hcnv.github.io
+  - pymdownx.emoji:
+        emoji_index: !!python/name:materialx.emoji.twemoji
+        emoji_generator: !!python/name:materialx.emoji.to_svg
+
+###############################################################################
+
+theme:
+  name: material
+plugins:
+    - search
+    - macros