Try isaac docs

tardis/tests/coveragerc → .coveragerc

@@ -42,22 +42,8 @@ omit =
    tardis/analysis.py
 
    # Omit all version and __init__.py files 
-   tardis/version.py
-   tardis/cython_version.py
-   tardis/__init__.py
-   tardis/tests/__init__.py
-   tardis/tests/integration_tests/__init__.py
-   tardis/gui/__init__.py
-   tardis/io/__init__.py
-   tardis/io/tests/__init__.py
-   tardis/model/__init__.py
-   tardis/model/tests/__init__.py
-   tardis/montecarlo/__init__.py
-   tardis/montecarlo/tests/__init__.py
-   tardis/plasma/__init__.py
-   tardis/plasma/tests/__init__.py
-   tardis/simulation/__init__.py
-   tardis/simulation/tests/__init__.py
-   tardis/_astropy_init.py
+   *version*
+   *__init__*
+   *_astropy_init*
 
 

.git-blame-ignore-revs

@@ -0,0 +1,2 @@
+# Code Style Black commit
+3297d264ba607bc1dc641d130b1764965cf59023

.github/FUNDING.yml

@@ -0,0 +1,15 @@
+# These are supported funding model platforms
+
+# github: # Replace with up to 4 GitHub Sponsors-enabled usernames e.g., [user1, user2]
+# patreon: # Replace with a single Patreon username
+# open_collective: # Replace with a single Open Collective username
+# ko_fi: # Replace with a single Ko-fi username
+# tidelift: # Replace with a single Tidelift platform-name/package-name e.g., npm/babel
+# community_bridge: # Replace with a single Community Bridge project-name e.g., cloud-foundry
+# liberapay: # Replace with a single Liberapay username
+# issuehunt: # Replace with a single IssueHunt username
+# otechie: # Replace with a single Otechie username
+# custom: # Replace with up to 4 custom sponsorship URLs e.g., ['link1', 'link2']
+
+github: numfocus
+custom: https://numfocus.org/donate-to-tardis

.github/ISSUE_TEMPLATE.md

@@ -0,0 +1,11 @@
+#### Code Sample, a copy-pastable example if possible
+
+```python
+# Your code here
+
+```
+#### Problem description
+
+[this should explain **why** the current behaviour is a problem and why the expected output is a better solution.]
+
+#### Expected Output

.github/PULL_REQUEST_TEMPLATE.md

@@ -0,0 +1,29 @@
+<!--- Provide a general summary of your changes in the Title above -->
+
+## Description
+<!--- Describe your changes in detail -->
+
+## Motivation and Context
+<!--- Why is this change required? What problem does it solve? -->
+<!--- If it fixes an open issue, please link to the issue here. -->
+
+## How Has This Been Tested?
+<!--- Please describe in detail how you tested your changes. -->
+<!--- Include details of your testing environment, tests ran to see how -->
+<!--- your change affects other areas of the code, etc. -->
+
+## Screenshots (if appropriate):
+
+## Types of changes
+<!--- What types of changes does your code introduce? Put an `x` in all the boxes that apply: -->
+- [ ] Bug fix (non-breaking change which fixes an issue)
+- [ ] New feature (non-breaking change which adds functionality)
+- [ ] Breaking change (fix or feature that would cause existing functionality to not work as expected)
+
+## Checklist:
+<!--- Go over all the following points, and put an `x` in all the boxes that apply. -->
+<!--- If you're unsure about any of these, don't hesitate to ask. We're here to help! -->
+- [ ] My code follows the code style of this project.
+- [ ] My change requires a change to the documentation.
+- [ ] I have updated the documentation accordingly.
+- [ ] I have assigned/requested two reviewers for this pull request.

.github/workflows/documentation-build.yml

@@ -0,0 +1,43 @@
+# For more information on how to use this template please refer to:
+# http://tardis-sn.github.io/tardis/development/continuous_integration.html
+
+name: documentation-build
+
+on:
+  push:
+    branches:
+      - master
+  pull_request:
+    branches:
+      - master
+  schedule:
+    - cron: '10 0 * * 0'
+
+jobs:
+  documentation_build:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v2
+
+      - name: Setup TARDIS Environment 
+        uses: conda-incubator/setup-miniconda@v2
+        with:
+            environment-file: tardis_env3.yml
+            activate-environment: tardis
+            channels: conda-forge, defaults
+            mamba-version: "*"
+
+      - name: Install TARDIS
+        shell: bash -l {0}
+        run: python setup.py install 
+
+      - name: Build Sphinx Documentation
+        shell: bash -l {0}
+        run: python setup.py build_docs
+
+      - name: Deploy
+        uses: peaceiris/actions-gh-pages@v3
+        with:
+          github_token: ${{ secrets.GITHUB_TOKEN }}
+          publish_dir: docs/_build/html/
+          publish_branch: gh-pages

.github/workflows/update-changelog.yml

@@ -0,0 +1,32 @@
+# For more information on how to use this template please refer to:
+# http://tardis-sn.github.io/tardis/development/continuous_integration.html
+
+name: update-changelog
+
+on:
+  schedule:
+    - cron: '50 23 * * 0'
+
+jobs:
+  push:
+    runs-on: ubuntu-latest
+
+    steps:
+      - uses: actions/checkout@v2
+
+      - name: Install github-changes
+        run: sudo npm install -g github-changes
+
+      - name: Update changelog
+        run: github-changes -o tardis-sn -r tardis --only-pulls --use-commit-body -f CHANGELOG.md -k ${{ secrets.GITHUB_TOKEN }}
+
+      - name: Commit files
+        run: |
+          git config --local user.email "wkerzendorf+tardis@gmail.com"
+          git add CHANGELOG.md
+          git commit -m "Update CHANGELOG.md [skip ci]"
+
+      - name: Push changes
+        uses: ad-m/github-push-action@master
+        with:
+          github_token: ${{ secrets.GITHUB_TOKEN }}

.gitignore

@@ -17,12 +17,18 @@ __pycache__
 */cython_version.py
 htmlcov
 .coverage
+.ipynb_checkpoints/
+.pytest_cache/
 
 
 # IDE Specific files
 ### Pycharm IDE - Jetbrains
 .idea/*
 
+# VSCode
+.vscode/
+*.code-workspace
+
 ### PyDev IDE - Eclipse
 .metadata
 tmp/
@@ -40,11 +46,13 @@ local.properties
 
 # Sphinx
 _build
+docs/api
 
 
 # Packages/installer info
 *.egg
 *.egg-info
+.eggs/
 dist
 build
 eggs

.mailmap

@@ -83,3 +83,52 @@ Frederik Beaujean <beaujean@mpp.mpg.de> Frederik Beaujean <schoenerhans16@gmx.de
 
 Laud Bentil <laudbentil@gmail.com>
 Laud Bentil <laudbentil@gmail.com>	Laud Bentil <laud.bentil@meltwater.org>
+
+Nilesh Patra <37436956+nileshpatra@users.noreply.github.com>
+
+Debajyoti Dasgupta <debajyotidasgupta6@gmail.com>
+
+Barnabás Barna <bbarna@titan.physx.u-szeged.hu>
+
+Nance Sarafina <31808841+sarafina325@users.noreply.github.com>
+
+Nathan Kowalski <56104113+kowal180@users.noreply.github.com>
+
+Ezequiel Pássaro <epassaro15@gmail.com>
+
+John Reichenbach <56849859+jreichenbach-msu@users.noreply.github.com>
+Youssef Eweis <joey070@gmail.com>
+Youssef Eweis <joey070@gmail.com> Youssef Eweis <Youssef15015@users.noreply.github.com>
+
+Mark Magee <53613663+MarkMageeAstro@users.noreply.github.com>
+
+Marc Williamson <marxwillia@gmail.com>
+Marc Williamson <marxwillia@gmail.com> Marc Williamson <marcwilliamson@Marcs-MacBook-Pro.local>
+Marc Williamson <marxwillia@gmail.com> Marc Williamson <marcwilliamson@10-17-43-227.dynapool.wireless.nyu.edu>
+
+Ran Livneh <ran.livneh@weizmann.ac.il>
+Ran Livneh <ran.livneh@weizmann.ac.il> Ran Livneh <livnehra@gmail.com>
+Ran Livneh <ran.livneh@weizmann.ac.il> livnehra <livnehra@gmail.com>
+
+Andreas Flörs <afloers@mpa-garching.mpg.de>
+Andreas Flörs <afloers@mpa-garching.mpg.de> Andreas Flörs <33418619+afloers@users.noreply.github.com>
+Andreas Flörs <afloers@mpa-garching.mpg.de> Andreas Flörs <floersandreas@gmail.com>
+
+Alice Harpole <aliceharpole@gmail.com>
+Alice Harpole <aliceharpole@gmail.com> Alice Harpole <harpolea@users.noreply.github.com>
+
+Sampark Sharma <samparksharma2000@gmail.com>
+
+Jordi Eguren <jordi.eguren.brown@gmail.com>
+Jordi Eguren <jordi.eguren.brown@gmail.com> jordi5 <45364266+jordi5@users.noreply.github.com>
+
+Atul Kumar <kr.atul.atk@gmail.com>
+
+Jack O'Brien <jobrien585@gmail.com>
+
+Andrew Fullard <andrewgfullard@gmail.com>
+Andrew Fullard <andrewgfullard@gmail.com> Andrew Fullard <andrew.fullard@du.edu>
+
+Arjun Savel <asavel@gmail.com>
+Arjun Savel <asavel@berkeley.edu>
+Arjun Savel <asavel@umd.edu>

.orcid.csv

@@ -0,0 +1,21 @@
+email,orcid
+wkerzendorf@gmail.com,0000-0002-0479-7235
+unaudio@gmail.com,0000-0002-6051-210X
+yeganer@gmx.de,0000-0002-7131-3341
+ulrich.noebauer@gmail.com,0000-0002-2453-853X
+ftsamis@gmail.com,0000-0003-4875-1623
+s.sim@qub.ac.uk,0000-0002-9774-1192
+beaujean@mpp.mpg.de,0000-0001-9901-8785
+epson.heringer@gmail.com,0000-0002-1502-9127
+yssavo.camacho@gmail.com,0000-0002-9830-3880
+aliceharpole@gmail.com,0000-0002-1530-781X
+cvogl@mpa-garching.mpg.de,0000-0002-7941-5692
+epassaro15@gmail.com,0000-0002-3707-1975
+afloers@mpa-garching.mpg.de,0000-0003-2024-2819
+marxwillia@gmail.com,0000-0003-2544-4516
+mrmagee.astro@gmail.com,0000-0002-0629-8931
+asavel@berkeley.edu,0000-0002-2454-768X
+jaladhsinghal@gmail.com,0000-0002-8310-0829
+jordi.eguren.brown@gmail.com,0000-0002-2328-8030
+sashankmishra27@gmail.com,0000-0001-8302-1584
+