Merge pull request #60 from djarecka/library_source

adding source_library_generation with templates needed to generate ya…

.github/workflows/generate_yaml_model.yaml

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+name: generating yaml file
+
+on:
+  push:
+    branches:
+      - main
+    paths:
+      - 'linkml-schema/source_library_generation/**'
+
+permissions:
+  contents: write
+
+jobs:
+  generate:
+    runs-on: ubuntu-latest
+    steps:
+      - name: Checkout this repository
+        uses: actions/checkout@v3
+
+      - name: Set up Python
+        uses: actions/setup-python@v4
+        with:
+          python-version: 3.9
+
+      - name: Install the required python packages
+        run: |
+          python -m pip install .[test]
+          pip install git+https://github.com/brain-bican/bkbit.git
+
+      - name: Other installations
+        run: |
+          sudo apt-get update
+          sudo apt-get install -y build-essential git wget curl
+
+      - name: Generate yaml model
+        run: |
+          cd linkml-schema
+          bkbit schema2model -o library_generation.yaml --template source_library_generation/classes_base.yaml --gsheet --gsheet-download-dir source_library_generation/gsheet_output  source_library_generation/gsheet.yaml
+          cd ..
+
+      - name: Adding other model representations to git
+        run: |
+          git config --local user.email "[email protected]"
+          git config --local user.name "GitHub Action"
+          git add linkml-schema/library_generation.yaml
+          git add linkml-schema/source_library_generation/gsheet_output
+          git commit -m "generate library_generation yaml file"
+          git push

linkml-schema/source_library_generation/README.md

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+## Sources to build the library geenration model
+
+- metadata from [Google Sheet](https://docs.google.com/spreadsheets/d/11OcQz1Vk3ofny3Ql7wN-XlHkZwub-hojt-fO094SxiI/edit?usp=sharing)

linkml-schema/source_library_generation/classes_base.yaml

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+classes:
+  ProvActivity:
+    mixin: true
+    description: >-
+      An activity is something that occurs over a period of time and acts upon or with entities; 
+      it may include consuming, processing, transforming, modifying, relocating, using, or generating entities.
+    slots:
+      - used
+    class_uri: prov:Activity
+
+  ProvEntity:
+    mixin: true
+    description: >-
+      An entity is a physical, digital, conceptual, or other kind of thing with some fixed aspects; 
+      entities may be real or imaginary.
+    slots:
+      - was_derived_from
+      - was_generated_by
+    class_uri: prov:Entity
+
+slots:
+  used:
+    description: >-
+      Usage is the beginning of utilizing an entity by an activity.
+      Before usage, the activity had not begun to utilize this entity and could not have been affected by the entity.
+    slot_uri: prov:used
+    range: ProvEntity
+  was_derived_from:
+    description: >-
+      A derivation is a transformation of an entity into another, an update of an entity
+      resulting in a new one, or the construction of a new entity based on a pre-existing entity.
+    slot_uri: prov:wasDerivedFrom
+    range: ProvEntity
+  was_generated_by:
+    description: >-
+      Generation is the completion of production of a new entity by an activity.
+      This entity did not exist before generation and becomes available for usage after this generation.
+    slot_uri: prov:wasGeneratedBy
+    range: ProvActivity

linkml-schema/source_library_generation/gsheet.yaml

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+gsheet_id: "11OcQz1Vk3ofny3Ql7wN-XlHkZwub-hojt-fO094SxiI"
+sheets:
+  - name: "Classes"
+    gid: "1511023596"
+  - name: "Relations"
+    gid: "503493337"
+  - name: "LocalNames"
+    gid: "1773206664"
+  - name: "Slots"
+    gid: "990672642"
+  - name: "Subsets"
+    gid: "1299830797"
+  - name: "Prefixes"
+    gid: "621222810"
+  - name: "ValueSets"
+    gid: "475538568"