dapper 1.7.3__tar.gz → 1.8.1__tar.gz

dapper-1.8.1/.github/workflows/colab-compat.yml

@@ -0,0 +1,32 @@
+name: Colab compatibility
+
+on:
+  workflow_dispatch:
+  schedule:
+    - cron: "0 8 1 * *" # 1st of every month
+
+jobs:
+  colab:
+    runs-on: ubuntu-latest
+    container:
+      # NOTE: a more lightweight alternative (?):
+      #       https://github.com/googlecolab/backend-info/blob/main/pip-freeze.txt
+      image: us-docker.pkg.dev/colab-images/public/runtime:latest
+
+    steps:
+      - uses: actions/checkout@v4
+
+      - name: Install DAPPER
+        run: pip install -q .
+
+      - name: Run basic_1
+        env:
+          MPLBACKEND: Agg
+          DAPPER_LIVEPLOTTING: "0"
+        run: python docs/examples/basic_1.py
+
+      - name: Run basic_2
+        env:
+          MPLBACKEND: Agg
+          DAPPER_LIVEPLOTTING: "0"
+        run: python docs/examples/basic_2.py

dapper-1.8.1/.github/workflows/deploy-docs.yml

@@ -0,0 +1,30 @@
+name: Deploy docs
+on:
+  push:
+    branches: [master]
+
+permissions:
+  contents: read
+  pages: write
+  id-token: write
+
+concurrency:
+  group: pages
+  cancel-in-progress: true
+
+jobs:
+  deploy:
+    environment:
+      name: github-pages
+      url: ${{ steps.deploy.outputs.page_url }}
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v4
+      - uses: astral-sh/setup-uv@v5
+      - run: uv sync --extra doc
+      - run: uv run mkdocs build -f properdocs.yml
+      - uses: actions/upload-pages-artifact@v3
+        with:
+          path: site/
+      - id: deploy
+        uses: actions/deploy-pages@v4

dapper-1.8.1/.github/workflows/publish.yml

@@ -0,0 +1,17 @@
+name: Publish to PyPI
+
+on:
+  push:
+    tags: ["v*"]
+
+jobs:
+  publish:
+    runs-on: ubuntu-latest
+    environment: pypi
+    permissions:
+      id-token: write
+    steps:
+      - uses: actions/checkout@v4
+      - uses: astral-sh/setup-uv@v5
+      - run: uv build
+      - uses: pypa/gh-action-pypi-publish@release/v1

dapper-1.8.1/.github/workflows/tests.yml

@@ -0,0 +1,120 @@
+---
+name: Test
+on:
+  pull_request:
+  push:
+    branches:
+      - master
+      - dev1
+      - "!gh-pages"
+env:
+  IS_CI: "true"
+
+jobs:
+  bundled:
+    runs-on: ${{ matrix.os }}
+    strategy:
+      matrix:
+        os: ["ubuntu-latest"]
+        # NB: also see versions for 'conda'
+        # as well as those specified in mise.toml
+        python-version: ["3.12"]
+        jobtype: ["test"]
+        include:
+          - os: "ubuntu-latest"
+            python-version: "3.12"
+            jobtype: "lint"
+          - os: "ubuntu-latest"
+            python-version: "3.12"
+            jobtype: "coverage"
+          - os: "macos-latest"
+            python-version: "3.12"
+            jobtype: "test"
+    env:
+      JOBTYPE: ${{ matrix.jobtype }}
+
+    steps:
+      - uses: actions/checkout@v4
+
+      - name: Set up Python ${{ matrix.python-version }}
+        uses: actions/setup-python@v5
+        with:
+          python-version: ${{ matrix.python-version }}
+          cache: "pip"
+          cache-dependency-path: "pyproject.toml"
+
+      - name: Install dependencies
+        run: |
+          python -m pip install --upgrade pip
+          pip install -e .[dev]
+          pip install coveralls
+
+      - name: Run tests
+        run: |
+          if [[ "$JOBTYPE" == "lint" ]]; then
+            # Run flake8 via pre-commit instead.
+            #- flake8 . # Use --exit-zero to ignore failure
+            pre-commit install
+            pre-commit run --all-files
+          elif [[ "$JOBTYPE" == "coverage" ]]; then
+            pytest tests --ignore=dapper/mods/QG --cov=dapper --cov-report term-missing
+          else
+            pytest tests
+          fi
+
+      - name: Publish coverage to coveralls.io
+        if: ${{ env.JOBTYPE == 'coverage' }}
+        env:
+          GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+        run: coveralls --service=github
+
+  # Verify that a plain `pip install dapper` (no extras) works and that the
+  # core example scripts run. Mirrors colab-compat.yml, but runs on every
+  # PR/push rather than monthly so regressions are caught early.
+  normal-install:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v4
+      - uses: actions/setup-python@v5
+        with:
+          python-version: "3.12"
+          cache: "pip"
+          cache-dependency-path: "pyproject.toml"
+      - name: Install (no extras)
+        run: pip install -e .
+      - name: Smoke test
+        env:
+          MPLBACKEND: Agg
+          DAPPER_LIVEPLOTTING: "0"
+        run: |
+          python docs/examples/basic_1.py
+          python docs/examples/basic_2.py
+
+  conda:
+    defaults:
+      run:
+        shell: bash -el {0}
+    runs-on: ${{ matrix.os }}
+    strategy:
+      matrix:
+        os: ["ubuntu-latest"]
+        python-version: ["3.12", "3.13"]
+        include:
+          - os: "macos-latest"
+            python-version: "3.12"
+          - os: "windows-latest"
+            python-version: "3.12"
+
+    steps:
+      - uses: actions/checkout@v4
+      - uses: conda-incubator/setup-miniconda@v3
+        with:
+          auto-update-conda: true
+          python-version: ${{ matrix.python-version }}
+
+      - name: Install dependencies
+        run: pip install -e .[dev]
+      - name: Run tests
+        run: |
+          which python
+          pytest tests

dapper-1.8.1/.gitignore

@@ -0,0 +1,160 @@
+# Created by https://www.toptal.com/developers/gitignore/api/python
+# Edit at https://www.toptal.com/developers/gitignore?templates=python
+
+### Python ###
+# Byte-compiled / optimized / DLL files
+__pycache__/
+*.py[cod]
+*$py.class
+
+# C extensions
+*.so
+
+# Distribution / packaging
+.Python
+build/
+develop-eggs/
+dist/
+downloads/
+eggs/
+.eggs/
+lib/
+lib64/
+parts/
+sdist/
+var/
+wheels/
+share/python-wheels/
+*.egg-info/
+.installed.cfg
+*.egg
+MANIFEST
+
+# PyInstaller
+#  Usually these files are written by a python script from a template
+#  before PyInstaller builds the exe, so as to inject date/other infos into it.
+*.manifest
+*.spec
+
+# Installer logs
+pip-log.txt
+pip-delete-this-directory.txt
+
+# Unit test / coverage reports
+htmlcov/
+.tox/
+.nox/
+.coverage
+.coverage.*
+.cache
+nosetests.xml
+coverage.xml
+*.cover
+*.py,cover
+.hypothesis/
+.pytest_cache/
+cover/
+
+# Translations
+*.mo
+*.pot
+
+# Django stuff:
+*.log
+local_settings.py
+db.sqlite3
+db.sqlite3-journal
+
+# Flask stuff:
+instance/
+.webassets-cache
+
+# Scrapy stuff:
+.scrapy
+
+# Sphinx documentation
+docs/_build/
+
+# PyBuilder
+.pybuilder/
+target/
+
+# Jupyter Notebook
+.ipynb_checkpoints
+
+# IPython
+profile_default/
+ipython_config.py
+
+# pyenv
+#   For a library or package, you might want to ignore these files since the code is
+#   intended to run in multiple environments; otherwise, check them in:
+# .python-version
+
+# pipenv
+#   According to pypa/pipenv#598, it is recommended to include Pipfile.lock in version control.
+#   However, in case of collaboration, if having platform-specific dependencies or dependencies
+#   having no cross-platform support, pipenv may install dependencies that don't work, or not
+#   install all needed dependencies.
+#Pipfile.lock
+
+# PEP 582; used by e.g. github.com/David-OConnor/pyflow
+__pypackages__/
+
+# Celery stuff
+celerybeat-schedule
+celerybeat.pid
+
+# SageMath parsed files
+*.sage.py
+
+# Environments
+.env
+.venv
+env/
+venv/
+ENV/
+env.bak/
+venv.bak/
+
+# Spyder project settings
+.spyderproject
+.spyproject
+
+# Rope project settings
+.ropeproject
+
+# mkdocs documentation
+/site
+
+# mypy
+.mypy_cache/
+.dmypy.json
+dmypy.json
+
+# Pyre type checker
+.pyre/
+
+# pytype static type analyzer
+.pytype/
+
+# Cython debug symbols
+cython_debug/
+
+# End of https://www.toptal.com/developers/gitignore/api/python
+
+##############################
+# DAPPER
+##############################
+# If you wish to ignore files on your computer,
+# that do not really have anything to do with DAPPER,
+# consider specifying this in .git/info/exclude
+# or your global ~/.gitignore.
+
+# Don't commit results
+dpr_data/
+
+# Generated when running QG model
+dapper/mods/QG/f90/prms_*\.txt
+
+.pdb-pyhist

dapper-1.8.1/.markdownlint.yaml

@@ -0,0 +1,9 @@
+# markdownlint (js library) config
+MD052: false
+first-line-h1: false
+no-multiple-blanks: false
+line-length: false
+# MD029:
+#   style: "ordered"
+# MD007: false
+# "MD007": { "indent": 4 }

dapper-1.8.1/.pre-commit-config.yaml

@@ -0,0 +1,43 @@
+exclude: '^$|settings|scripts|docs'
+
+repos:
+-   repo: https://github.com/pre-commit/pre-commit-hooks
+    rev: v4.4.0
+    hooks:
+    -   id: trailing-whitespace
+        exclude: |
+            (?x)^(
+                .*README.md|
+                .*\.f90
+            )$
+        # let flake8 deal with py => dont treat docstrings.
+        exclude_types: ['html','python']
+    -   id: check-added-large-files
+    -   id: check-ast
+    -   id: check-json
+    -   id: check-merge-conflict
+    -   id: check-xml
+    -   id: check-yaml
+    -   id: debug-statements
+        exclude: 'dapper/tools/liveplotting.py'
+    -   id: detect-aws-credentials  # Notifies if you DONT have credentials
+        args:
+        - --allow-missing-credentials
+    -   id: detect-private-key  # Notifies if you have private
+    -   id: end-of-file-fixer
+    -   id: requirements-txt-fixer
+    -   id: mixed-line-ending
+        args: ['--fix=no']
+
+- repo: local
+  hooks:
+    - id: ruff
+      name: ruff
+      entry: ruff check --fix
+      language: system
+      types: [python]
+    - id: ruff-format
+      name: ruff-format
+      entry: ruff format
+      language: system
+      types: [python]

{dapper-1.7.3 → dapper-1.8.1}/LICENCE.txt

@@ -1,5 +1,7 @@
 The MIT License (MIT)
 
+Note: some components are governed by other licenses. See THIRD_PARTY_NOTICES.
+
 Copyright (c) 2016, Patrick N. Raanes, NERSC
 
 Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal in the Software without restriction, including without limitation the rights to use, copy, modify, merge, publish, distribute, sublicense, and/or sell copies of the Software, and to permit persons to whom the Software is furnished to do so, subject to the following conditions: