Merge pull request #2 from TalusBio/first-release

First release

.github/workflows/lint.yml

@@ -1,16 +1,22 @@
 name: Lint
 
-on: [push, pull_request]
+on:
+  push:
+    branches: [ main ]
+  pull_request:
+    branches: [ main ]
+
+
 
 jobs:
   lint:
     runs-on: ubuntu-latest
     steps:
       - uses: actions/checkout@v2
-      - name: Setup Python 3.8
+      - name: Setup Python 3
         uses: actions/setup-python@v2
         with:
-          python-version: "3.8"
+          python-version: "3.x"
 
       - name: Run black
         uses: psf/black@stable

.github/workflows/tests.yml

@@ -1,15 +1,10 @@
-# This workflow will install Python dependencies, run tests and lint with a single version of Python
-# For more information see: https://help.github.com/actions/language-and-framework-guides/using-python-with-github-actions
-
 name: tests
 
 on:
   push:
     branches: [ main ]
   pull_request:
     branches: [ main ]
-  schedule:
-  - cron: "0 0 1 1/1 *" # Run monthly
 
 jobs:
   build:
@@ -19,9 +14,9 @@ jobs:
         os: [ubuntu-latest, windows-latest, macos-latest]
 
     steps:
-    - uses: actions/checkout@v2
+    - uses: actions/checkout@v3
     - name: Set up Python 3.8
-      uses: actions/setup-python@v2
+      uses: actions/setup-python@v4
       with:
         python-version: "3.8"
     - name: Install dependencies
@@ -37,8 +32,8 @@ jobs:
         flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics
     - name: Run unit and system tests
       run: |
-        pytest --cov=ppx tests/
-    #- name: Upload coverage to codecov
-    #  uses: codecov/codecov-action@v1
-    #  with:
-    #    fail_ci_if_error: true
+        pytest --cov=vizta tests/
+    - name: Upload coverage to codecov
+      uses: codecov/codecov-action@v3
+      with:
+        fail_ci_if_error: true

.pre-commit-config.yaml

@@ -1,6 +1,6 @@
 repos:
   - repo: https://github.com/psf/black
-    rev: 22.3.0 # Replace by any tag/version: https://github.com/psf/black/tags
+    rev: 22.10.0 # Replace by any tag/version: https://github.com/psf/black/tags
     hooks:
       - id: black
         language_version: python3 # Should be a command that runs python3.6+

CHANGELOG.md

@@ -1,4 +1,7 @@
 # Changelog for vizta
 
-## [Unreleased]
-
+## [unreleased]
+
+## [0.0.1] 2022-11-08
+### Added
+- The first release! :tada:

README.md

@@ -1,3 +1,5 @@
 # vizta
 
 Talus themes for data visualization in Python.
+
+See the documentation at https://TalusBio.github.io/vizta

codecov.yml

@@ -0,0 +1,6 @@
+# Only allow commits that increase or maintain test coverage.
+coverage:
+  status:
+    project:
+      default:
+        target: auto  # auto compares coverage to the previous base commit

pyproject.toml

@@ -1,7 +1,54 @@
 [build-system]
-requires = ["setuptools>=42", "wheel", "setuptools_scm[toml]>=3.4"]
+requires = ["setuptools>=61", "wheel", "setuptools_scm[toml]>=3.4"]
 build-backend = "setuptools.build_meta"
 
+[project]
+name = "vizta"
+authors = [{name = "William E. Fondrie", email = "[email protected]"}]
+description = "Fast and flexible semi-supervised learning for peptide detection"
+license = {text = "Apache 2.0"}
+classifiers = [
+    "Programming Language :: Python :: 3",
+    "License :: OSI Approved :: Apache Software License",
+    "Operating System :: OS Independent",
+    "Topic :: Scientific/Engineering :: Bio-Informatics",
+]
+requires-python = ">=3.6"
+dependencies = [
+    "matplotlib>=3.5.1",
+    "seaborn>=0.11.2",
+]
+dynamic = ["version"]
+
+[project.readme]
+file = "README.md"
+content-type = "text/markdown"
+
+[project.urls]
+Homepage = "https://github.com/TalusBio/vizta"
+Documentation = "https://TalusBio.github.io/vizta"
+"Bug Tracker" = "https://github.com/TalusBio/vizta/issues"
+"Discussion Board" = "https://github.com/TalusBio/vizta/discussions"
+
+[project.optional-dependencies]
+docs = [
+    "mkdocs>=1.3.0",
+    "mkdocstrings>=0.18.1",
+    "mkdocs-material>=8.2.1",
+    "mkdocs-jupyter>=0.20.1",
+    "ipykernel>=6.12.1",
+]
+dev = [
+    "pre-commit>=2.7.1",
+    "black>=19.10b0",
+]
+
+[tool.setuptools]
+include-package-data = false
+
+[tool.setuptools.packages]
+find = {namespaces = false}
+
 [tool.setuptools_scm]
 
 [tool.black]