Merge pull request #72 from PRIDE-Archive/python3

merge from pride, delete API

.Dockerfile

@@ -30,5 +30,5 @@ COPY parser ./parser
 COPY tests ./tests
 COPY *.py .
 COPY default.database.ini .
-COPY logging.ini .
+COPY config/logging.ini .
 COPY .kubernetes.yml .

.github/workflows/pythonpublish.yml

@@ -0,0 +1,44 @@
+# This workflow will upload a Python Package using Twine when a release is created
+# For more information see: https://help.github.com/en/actions/language-and-framework-guides/using-python-with-github-actions#publishing-to-package-registries
+
+# This workflow uses actions that are not certified by GitHub.
+# They are provided by a third-party and are governed by
+# separate terms of service, privacy policy, and support
+# documentation.
+
+name: Upload Python Package
+
+#on:
+#  release:
+#    types: [published]
+on:
+  push:
+    branches:
+      - pride
+  workflow_dispatch:
+
+permissions:
+  contents: read
+
+jobs:
+  deploy:
+
+    runs-on: ubuntu-latest
+
+    steps:
+    - uses: actions/checkout@v3
+    - name: Set up Python
+      uses: actions/setup-python@v3
+      with:
+        python-version: '3.x'
+    - name: Install dependencies
+      run: |
+        python -m pip install --upgrade pip
+        pip install build
+    - name: Build package
+      run: python -m build
+    - name: Publish package
+      uses: pypa/gh-action-pypi-publish@27b31702a0e7fc50959f5ad993c78deac1bdfc29
+      with:
+        user: __token__
+        password: ${{ secrets.PYPI_API_TOKEN }}

.gitignore

@@ -14,6 +14,7 @@ logs/*
 logs/xi_mzidentml_converter.log
 !logs/.gitkeep
 .DS_Store
+/dist
 
 tests/test.db
 dbs/xiSPEC\.db
@@ -31,3 +32,5 @@ test.db
 database.ini
 kubernetes.yml
 Dockerfile
+xi_mzidentml_converter.egg-info
+build