Revert "Add ancestry normalisation to calclib (#4)"

This reverts commit ac15d59.

Author: nebfield

.github/workflows/calcapp-pytest.yml

@@ -43,7 +43,7 @@ jobs:
       - uses: actions/cache@v4
         with:
           path: ${{ inputs.package-directory }}/.venv
-          key: venv-${{ hashFiles('**/poetry.lock') }}
+          key: venv-${{ hashFiles('poetry.lock') }}
 
       - run: pip install poetry
 

.github/workflows/pytest.yaml

@@ -21,7 +21,7 @@ If you write  code to work with PGS, we publish some libraries that might be hel
 
 | Library                | Description                                              | Link                                              |
 |------------------------|----------------------------------------------------------|---------------------------------------------------|
-| `pgscatalog-corelib`   | Core classes and functions                               | [README](pgscatalog.corelib/README.md) |
+| `pgscatalog-corelib`   | Core classes and functions                               | [README](pgscatalog.corelib/pgscatalog/README.md) |
 | `pgscatalog-matchlib`  | Variant matching across scoring files and target genomes |
 | `pgscatalog-calclib`   | Ancestry estimation and normalisation                    |
 
@@ -49,4 +49,4 @@ Full documentation is provided..
 
 ## License
 
-All of our code is open source and licensed with [Apache 2](LICENSE).
+All of our code is open source and licensed with [Apache 2](LICENSE).

README.md

@@ -29,7 +29,6 @@
 autoapi_dirs = [
     "../pgscatalog.corelib/src/pgscatalog",
     "../pgscatalog.matchlib/src/pgscatalog",
-    "../pgscatalog.calclib/src/pgscatalog",
 ]
 # see _templates/autoapi/index.rst for autoapi fix
 autoapi_template_dir = "_templates/autoapi"

docs/conf.py

@@ -1,3 +1,9 @@
 from .polygenicscore import PolygenicScore
 
+from .polygenicscore import PolygenicScore
+
+log_fmt = "%(name)s: %(asctime)s %(levelname)-8s %(message)s"
+logging.basicConfig(format=log_fmt, datefmt="%Y-%m-%d %H:%M:%S")
+logger = logging.getLogger(__name__)
+
 __all__ = ["PolygenicScore"]