jwql 1.4.0__tar.gz

jwql-1.4.0/.bandit

@@ -0,0 +1,7 @@
+# Bandit configuration file for JWQL
+
+# (optional) list included tests here:
+tests: ['B102', 'B103', 'B104', 'B105', 'B106', 'B107', 'B108', 'B110', 'B112', 'B201', 'B501', 'B502', 'B503', 'B504', 'B505', 'B506', 'B507', 'B601', 'B603', 'B604', 'B605', 'B606', 'B607', 'B609', 'B610', 'B611', 'B701', 'B702', 'B703']
+
+# (optional) list skipped tests here:
+skips: ['B101', 'B307', 'B310', 'B404', 'B602', 'B608']

jwql-1.4.0/.github/ISSUE_TEMPLATE/bug_report.md

@@ -0,0 +1,22 @@
+---
+name: Bug Report
+about: Create a report to help us improve.
+title: (Concise description of bug)
+labels: bug
+---
+
+**Describe the bug**
+A clear and detailed description of what the bug is.
+
+**To Reproduce**
+Steps to reproduce the behavior:
+1. Go to '...'
+2. Click on '....'
+3. Scroll down to '....'
+4. See error
+
+**Expected behavior**
+A description of what you expected to happen.
+
+**Additional context**
+Add any other context about the problem here.

jwql-1.4.0/.github/ISSUE_TEMPLATE/feature_request.md

@@ -0,0 +1,18 @@
+---
+name: Feature Request
+about: Suggest an idea for the JWQL project.
+title: Concise description of the feature request
+labels: enhancement
+---
+
+**Is your feature request related to a problem? Please describe.**
+A detailed description of what the problem is. Ex. I'm always frustrated when [...]
+
+**Describe the solution you'd like**
+A clear description of what you want to happen.
+
+**Describe alternatives you've considered**
+A clear description of any alternative solutions or features you've considered.
+
+**Additional context**
+Add any other context or screenshots about the feature request here.

jwql-1.4.0/.github/dependabot.yml

@@ -0,0 +1,7 @@
+
+version: 2
+updates:
+  - package-ecosystem: "pip"
+    directory: "/"
+    schedule:
+      interval: "monthly"

jwql-1.4.0/.github/workflows/build.yml

@@ -0,0 +1,61 @@
+name: build
+
+on:
+  release:
+    types: [ released ]
+  pull_request:
+  workflow_dispatch:
+
+defaults:
+  run:
+    shell: micromamba-shell {0}
+
+jobs:
+  build:
+    uses: OpenAstronomy/github-actions-workflows/.github/workflows/publish_pure_python.yml@v1
+    with:
+      upload_to_pypi: ${{ (github.event_name == 'release') && (github.event.action == 'released') }}
+    secrets:
+      pypi_token: ${{ secrets.PYPI_PASSWORD_STSCI_MAINTAINER }}
+  freeze:
+    runs-on: ${{ matrix.os }}
+    strategy:
+      matrix:
+        os: 
+          [ "ubuntu-latest", "macos-latest" ]
+        python-version:
+          [ "3.11", "3.12" ]
+      fail-fast: false
+    name: freeze versions (Python ${{ matrix.python-version }}, ${{ matrix.os }})
+    steps:
+      - uses: actions/checkout@v4
+        with:
+          fetch-depth: 0
+      - uses: mamba-org/setup-micromamba@v1
+        with:
+          environment-name: jwql-${{ runner.os }}-py${{ matrix.python-version }}
+          environment-file: environment.yml
+          create-args: >-
+            python=${{ matrix.python-version }}
+            conda
+          init-shell: none
+          generate-run-shell: true
+      - run: pip install .
+      - run: pip list
+      - id: version
+        name: retrieve package version
+        run: echo version=$(python -c "import jwql; print(jwql.__version__)") >> $GITHUB_OUTPUT
+      - id: filename
+        run: echo "filename=jwql_${{ steps.version.outputs.version }}_conda_${{ runner.os }}_${{ runner.arch }}_py${{ matrix.python-version }}.yml" >> $GITHUB_OUTPUT
+      - run: conda env export --no-build | grep -v "name:" | grep -v "prefix:" > ${{ steps.filename.outputs.filename }}
+      - run: cat ${{ steps.filename.outputs.filename }}
+      - uses: actions/upload-artifact@v4
+        with:
+          name: ${{ steps.filename.outputs.filename }}
+          path: ${{ steps.filename.outputs.filename }}
+      - if: (github.event_name == 'release' && github.event.action == 'released')
+        uses: svenstaro/upload-release-action@v2
+        with:
+          file: ${{ steps.filename.outputs.filename }}
+            
+

jwql-1.4.0/.github/workflows/ci.yml

@@ -0,0 +1,60 @@
+name: test
+
+on: 
+  push:
+  pull_request:
+
+concurrency:
+  group: ${{ github.workflow }}-${{ github.ref }}
+  cancel-in-progress: true
+
+jobs:
+  check:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v4
+      - uses: actions/setup-python@v4
+        with:
+          python-version: "3.11"
+      - run: pip install bandit
+      - run: bandit ./jwql/ -c .bandit
+
+  test:
+    name: test (Python ${{ matrix.python-version }}, ${{ matrix.os }})
+    runs-on: ${{ matrix.os }}
+    strategy:
+      matrix:
+        os: [ "ubuntu-latest", "macos-latest" ]
+        python-version: [ "3.11", "3.12" ]
+      fail-fast: false
+    env:
+      PYTHONUNBUFFERED: 1
+    defaults:
+      run:
+        shell: micromamba-shell {0}
+    steps:
+      - uses: actions/checkout@v4
+      
+      - uses: mamba-org/setup-micromamba@v1
+        with:
+          environment-name: jwql-${{ runner.os }}-py${{ matrix.python-version }}
+          environment-file: environment.yml
+          create-args: >-
+            python=${{ matrix.python-version }}
+          init-shell: none
+          generate-run-shell: true
+          
+      - run: pip install -e .[test] pytest-xdist
+
+      - run: pip list
+
+      - run: micromamba env export
+
+      - if: runner.os == 'Linux'
+        uses: supercharge/redis-github-action@1.4.0
+        with:
+          redis-version: 5.0
+
+      - run: python -c "import jwql; print('Version ' + jwql.__version__); print('Path ' + jwql.__path__[0])"
+
+      - run: pytest -n auto jwql/tests/

jwql-1.4.0/.gitignore

@@ -0,0 +1,22 @@
+*.pyc
+*.fits
+*.ipynb_checkpoints/
+config.json
+.DS_Store
+.idea
+.coverage*
+build/
+dist/
+jwql.egg-info/
+docs/build/
+docs/source/api/
+.cache
+*.pytest_cache
+htmlcov/
+*.sqlite3
+jwql/website/static/*.csv
+jwql/website/apps/jwql/static/filesystem
+jwql/website/apps/jwql/static/outputs
+jwql/website/apps/jwql/static/preview_images
+jwql/website/apps/jwql/static/thumbnails
+jwql-current.yml

jwql-1.4.0/.pep8speaks.yml

@@ -0,0 +1,25 @@
+# File : .pep8speaks.yml
+
+message:  # Customize the comment made by the bot
+    opened:  # Messages when a new PR is submitted
+        header: "Hello @{name}, Thank you for submitting the Pull Request !"
+                # The keyword {name} is converted into the author's username
+        footer: "If you have not done so, please consult the [`jwql` Style Guide](https://github.com/spacetelescope/jwql/blob/main/style_guide/README.md)"
+                # The messages can be written as they would over GitHub
+    updated:  # Messages when new commits are added to the PR
+        header: "Hello @{name}, Thank you for updating !"
+        footer: ""  # Why to comment the link to the style guide everytime? :)
+    no_errors: "Cheers ! There are no PEP8 issues in this Pull Request. :beers: "
+
+scanner:
+    diff_only: False  # If True, errors caused by only the patch are shown
+
+pycodestyle:
+    max-line-length: 100  # Default is 79 in PEP8
+    ignore:  # Errors and warnings to ignore
+        - E501  # Line too long
+        - E505
+        - W503 # Outdated and replaced by W504
+
+only_mention_files_with_errors: True  # If False, a separate status comment for each file is made.
+descending_issues_order: False # If True, PEP8 issues in message will be displayed in descending order of line numbers in the file

jwql-1.4.0/.pyup.yml

@@ -0,0 +1,49 @@
+# autogenerated pyup.io config file
+# see https://pyup.io/docs/configuration/ for all available options
+
+# configure updates globally
+# default: all
+# allowed: all, insecure, False
+update: all
+
+# configure dependency pinning globally
+# default: True
+# allowed: True, False
+pin: True
+
+# set the default branch
+# default: empty, the default branch on GitHub
+branch: develop
+
+# update schedule
+# default: empty
+# allowed: "every day", "every week", ..
+schedule: "every month"
+
+# search for requirement files
+# default: True
+# allowed: True, False
+search: True
+
+# Specify requirement files by hand, default is empty
+# default: empty
+# allowed: list
+requirements:
+  - requirements.txt:
+      # update all dependencies and pin them
+      update: all
+      pin: True
+
+# assign users to pull requests, default is not set
+# requires private repo permissions, even on public repos
+# default: empty
+assignees:
+ - bourque
+
+# configure the branch prefix the bot is using
+# default: pyup-
+branch_prefix: pyup/
+
+# allow to close stale PRs
+# default: True
+close_prs: True

jwql-1.4.0/.readthedocs.yaml

@@ -0,0 +1,30 @@
+# .readthedocs.yaml
+# Read the Docs configuration file
+# See https://docs.readthedocs.io/en/stable/config-file/v2.html for details
+# Required
+version: 2
+# Set the version of Python and other tools you might need
+# Explicit sqlalchemy install using post_install in order to get around the RTD
+# command pip install --upgrade --upgrade-strategy eager
+# This command upgrades all packages listed in rtd_reuirements.txt. This was causing
+# a problem when upgrading to sqlalchemy >=2.0, which has large changes from versions
+# <2.0, and was causing jwql to crash.
+build:
+  os: ubuntu-22.04
+  tools:
+    python: "3.11"
+
+# Build documentation in the docs/ directory with Sphinx
+sphinx:
+   configuration: docs/source/conf.py
+   fail_on_warning: false
+# If using Sphinx, optionally build your docs in additional formats such as PDF
+# formats:
+#    - pdf
+# Optionally declare the Python requirements required to build your docs
+python:
+   install:
+      - method: pip
+        path: .
+        extra_requirements:
+           - docs