Merge pull request #36 from jGaboardi/initial_sglm_modernizer

initial SPGLM modernization

.github/workflows/testing.yml

@@ -0,0 +1,75 @@
+name: Continuous Integration
+
+on:
+  push:
+    branches:
+      - '*'
+  pull_request:
+    branches:
+      - '*'
+  schedule:
+      - cron: '59 23 * * *'
+  workflow_dispatch:
+    inputs:
+      version:
+        description: Manual Unittest Run
+        default: test
+        required: false
+
+jobs:
+  unittests:
+    env:
+      RUN_TEST: pytest spglm --cov spglm -v -n auto -r a --cov-report xml --color yes --cov-append --cov-report term-missing
+    name: ${{ matrix.os }}, ${{ matrix.environment-file }}
+    runs-on: ${{ matrix.os }}
+    defaults:
+      run:
+        shell: bash -l {0}
+    timeout-minutes: 60
+    strategy:
+      matrix:
+        os: [ubuntu-latest]
+        environment-file:
+          - ci/39-MIN.yaml
+          - ci/310.yaml
+          - ci/311.yaml
+          - ci/311-DEV.yaml
+        include:
+          - environment-file: ci/311.yaml
+            os: macos-latest
+          - environment-file: ci/311.yaml
+            os: windows-latest
+      fail-fast: false
+
+    steps:
+      - name: checkout repo
+        uses: actions/checkout@v4
+
+      - name: setup micromamba
+        uses: mamba-org/setup-micromamba@v1
+        with:
+          environment-file: ${{ matrix.environment-file }}
+          micromamba-version: 'latest'
+
+      - name: install bleeding edge libpysal & spreg (Ubuntu / latest Python)
+        shell: bash -l {0}
+        run: |
+          pip install git+https://github.com/pysal/libpysal.git@main
+          pip install git+https://github.com/pysal/spreg.git@main
+        if: matrix.os == 'ubuntu-latest' && contains(matrix.environment-file, 'DEV')
+
+      - name: environment info
+        shell: bash -l {0}
+        run: |
+          micromamba info
+          micromamba list
+      
+      - name: run tests
+        run: ${{ env.RUN_TEST }}
+
+      - name: codecov
+        uses: codecov/codecov-action@v3
+        with:
+          token: ${{ secrets.CODECOV_TOKEN }}
+          file: ./coverage.xml
+          name: spglm-codecov

README.md

@@ -1,7 +1,7 @@
 **G**eneralized **L**inear **M**odeling
 =======================================
 
-[![Build Status](https://travis-ci.org/pysal/spglm.svg?branch=master)](https://travis-ci.org/pysal/spglm)
+[![Continuous Integration](https://github.com/pysal/spglm/actions/workflows/testing.yml/badge.svg)]
 [![Documentation Status](https://readthedocs.org/projects/spglm/badge/?version=latest)](https://spglm.readthedocs.io/en/latest/?badge=latest)
 [![PyPI version](https://badge.fury.io/py/spglm.svg)](https://badge.fury.io/py/spglm)
 

ci/310.yaml

@@ -0,0 +1,17 @@
+name: test
+channels:
+  - conda-forge
+dependencies:
+  - python=3.10
+  # required
+  - git
+  - libpysal
+  - numpy
+  - pip
+  - scipy
+  - spreg
+  # testing
+  - codecov
+  - pytest
+  - pytest-cov
+  - pytest-xdist

ci/311-DEV.yaml

@@ -0,0 +1,13 @@
+name: test
+channels:
+  - conda-forge
+dependencies:
+  - python=3.11
+  # required
+  - git
+  - pip
+  # testing
+  - codecov
+  - pytest
+  - pytest-cov
+  - pytest-xdist

ci/311.yaml

@@ -0,0 +1,23 @@
+name: test
+channels:
+  - conda-forge
+dependencies:
+  - python=3.11
+  # required
+  - git
+  - libpysal
+  - numpy
+  - pip
+  - scipy
+  - spreg
+  # testing
+  - codecov
+  - pytest
+  - pytest-cov
+  - pytest-xdist
+  # docs (this env only)
+  - nbsphinx
+  - numpydoc
+  - sphinx>=1.4.3
+  - sphinxcontrib-bibtex
+  - sphinx_bootstrap_theme

ci/39-MIN.yaml

@@ -0,0 +1,17 @@
+name: test
+channels:
+  - conda-forge
+dependencies:
+  - python=3.9
+  # required
+  - git
+  - libpysal=4.5
+  - numpy=1.23
+  - pip
+  - scipy=1.8
+  - spreg=1.2
+  # testing
+  - codecov
+  - pytest
+  - pytest-cov
+  - pytest-xdist

requirements.txt

@@ -1,4 +1,4 @@
-scipy>=0.11
-numpy>=1.3
-libpysal>=4.0.0
-spreg>=1.0.4
+scipy>=1.8
+numpy>=1.23
+libpysal>=4.5
+spreg>=1.2

setup.py

@@ -50,8 +50,7 @@ def setup_package():
             'Topic :: Scientific/Engineering :: GIS',
             'License :: OSI Approved :: BSD License',
             'Programming Language :: Python',
-            'Programming Language :: Python :: 3.6',
-            'Programming Language :: Python :: 3.7'
+            'Programming Language :: Python :: 3',
             ],
         license='3-Clause BSD',
         packages=find_packages(),