Merge pull request #25 from databio/dev

release 0.4.0

.github/workflows/run-pytest.yml

@@ -5,21 +5,24 @@ on:
     branches: [master, dev]
   pull_request:
     branches: [master, dev]
+  workflow_dispatch:
+    inputs: null
 
 jobs:
   pytest:
     strategy:
       matrix:
-        python-version: [3.6, 3.7, 3.8]
+        python-version: ["3.8", "3.11"]
         os: [ubuntu-latest] # can't use macOS when using service containers or container jobs
     runs-on: ${{ matrix.os }}
     services:
         postgres:
           image: postgres
           env:
             POSTGRES_USER: postgres
-            POSTGRES_PASSWORD: pipestat-password
+            POSTGRES_PASSWORD: dockerpassword
             POSTGRES_DB: pipestat-test
+            POSTGRES_HOST: localhost
           ports:
           - 5432:5432
           options: --health-cmd pg_isready --health-interval 10s --health-timeout 5s --health-retries 5
@@ -31,20 +34,14 @@ jobs:
       with:
         python-version: ${{ matrix.python-version }}
 
-    - name: Install dev dependancies
+    - name: Install dev dependencies
       run: if [ -f requirements/requirements-dev.txt ]; then pip install -r requirements/requirements-dev.txt; fi
 
-    - name: Install test dependancies
+    - name: Install test dependencies
       run: if [ -f requirements/requirements-test.txt ]; then pip install -r requirements/requirements-test.txt; fi
 
-    - name: Install bbconf
+    - name: Install package
       run: python -m pip install .
 
     - name: Run pytest tests
-      run: pytest tests -x -vv --cov=./ --cov-report=xml
-
-    - name: Upload coverage to Codecov
-      uses: codecov/codecov-action@v1
-      with:
-        file: ./coverage.xml
-        name: py-${{ matrix.python-version }}-${{ matrix.os }}
+      run: pytest tests -x -vv

.gitignore

@@ -74,6 +74,7 @@ open_pipelines/
 # Build-related stuff
 dist/
 *.egg-info/
+build/
 
 
 #ipynm checkpoints

bbconf/__init__.py

@@ -1,12 +1,4 @@
-# Project configuration, particularly for logging.
-
-import logmuse
-
+from bbconf.bbconf import BedBaseConf, get_bedbase_cfg
 from ._version import __version__
-from .bbconf import *
-from .const import *
-
-__classes__ = ["BedBaseConf"]
-__all__ = __classes__ + ["get_bedbase_cfg"]
 
-logmuse.init_logger("bbconf")
+__all__ = ["BedBaseConf", "get_bedbase_cfg", "__version__"]

bbconf/_version.py

@@ -1 +1 @@
-__version__ = "0.3.1"
+__version__ = "0.4.0"