fix unit tests

.github/workflows/test.yml

@@ -0,0 +1,42 @@
+name: CI
+
+on:
+  pull_request:
+  push:
+    paths-ignore:
+      - '**.md'
+      - 'doc/*'
+    branches:
+      - master
+
+jobs:
+  build:
+    runs-on: ubuntu-latest
+    strategy:
+      matrix:
+        python-version: ['3.10', '3.11']
+    steps:
+      - name: Checkout reposistory
+        uses: actions/checkout@v3
+        with:
+          submodules: recursive
+
+      - name: Set up Python
+        uses: actions/setup-python@v3
+        with:
+          python-version: ${{ matrix.python-version }}
+
+      - name: Display Python version
+        run: python -c "import sys; print(sys.version)"
+
+      # https://github.com/nmslib/nmslib/issues/538
+      - name: Install an available library from the abandoned nmslib project
+        run: >-
+          [ $(python --version | sed -E 's/Python ([0-9]+\.[0-9]+)\.[0-9]+.*/\1/') == '3.11' ] && \
+            pip install https://raw.githubusercontent.com/plandes/mednlp/master/test-resources/github-workflow-lib/nmslib-2.1.2-cp311-cp311-linux_x86_64.whl || true
+
+      - name: Prepare tests
+        run: 'make info deps'
+
+      - name: Run tests
+        run: 'make test'

README.md

@@ -3,6 +3,7 @@
 [![PyPI][pypi-badge]][pypi-link]
 [![Python 3.10][python310-badge]][python310-link]
 [![Python 3.11][python311-badge]][python311-link]
+[![Build Status][build-badge]][build-link]
 
 This repository contains the a Python package to automatically segment and
 identify sections of clinical notes, such as electronic health record (EHR)
@@ -425,6 +426,8 @@ Copyright (c) 2022 - 2024 Paul Landes
 [python310-link]: https://www.python.org/downloads/release/python-3100
 [python311-badge]: https://img.shields.io/badge/python-3.11-blue.svg
 [python311-link]: https://www.python.org/downloads/release/python-3110
+[build-badge]: https://github.com/plandes/mimicsid/workflows/CI/badge.svg
+[build-link]: https://github.com/plandes/mimicsid/actions
 
 [MedCat]: https://github.com/CogStack/MedCAT
 [spaCy]: https://spacy.io