coralnet-toolbox 0.0.22__tar.gz

coralnet_toolbox-0.0.22/.editorconfig

@@ -0,0 +1,21 @@
+# http://editorconfig.org
+
+root = true
+
+[*]
+indent_style = space
+indent_size = 4
+trim_trailing_whitespace = true
+insert_final_newline = true
+charset = utf-8
+end_of_line = lf
+
+[*.bat]
+indent_style = tab
+end_of_line = crlf
+
+[LICENSE]
+insert_final_newline = false
+
+[Makefile]
+indent_style = tab

coralnet_toolbox-0.0.22/.gitallowed

@@ -0,0 +1,2 @@
+"Jordan Pierce"
+"jordan.pierce@noaa.gov"

coralnet_toolbox-0.0.22/.github/ISSUE_TEMPLATE/bug_report.md

@@ -0,0 +1,24 @@
+---
+name: Bug Report
+about: Create a bug report to help us improve
+labels: bug
+---
+
+<!-- Please search existing issues to avoid creating duplicates. -->
+
+### Environment Information
+
+-   coralnet_toolbox version:
+-   Python version:
+-   Operating System:
+
+### Description
+
+Describe what you were trying to get done.
+Tell us what happened, what went wrong, and what you expected to happen.
+
+### What I Did
+
+```
+If there was a crash, please include the traceback here.
+```

coralnet_toolbox-0.0.22/.github/ISSUE_TEMPLATE/feature_request.md

@@ -0,0 +1,18 @@
+---
+name: Feature Request
+about: Submit a feature request to help us improve
+labels: Feature Request
+---
+
+<!-- Please search existing issues to avoid creating duplicates. -->
+
+### Description
+
+Describe the feature (e.g., new functions/tutorials) you would like to propose.
+Tell us what can be achieved with this new feature and what's the expected outcome.
+
+### Source code
+
+```
+Paste your source code here if have sample code to share.
+```

coralnet_toolbox-0.0.22/.github/workflows/docs-build.yml

@@ -0,0 +1,55 @@
+name: docs-build
+on:
+    pull_request:
+        branches:
+            - main
+            - master
+
+jobs:
+    deploy:
+        runs-on: ubuntu-latest
+        steps:
+            - uses: actions/checkout@v4
+              with:
+                  fetch-depth: 0
+            - uses: actions/setup-python@v5
+              with:
+                  python-version: "3.10"
+
+            - name: Install GDAL
+              run: |
+                  python -m pip install --upgrade pip
+                  pip install --find-links=https://girder.github.io/large_image_wheels --no-cache GDAL pyproj
+            - name: Test GDAL installation
+              run: |
+                  python -c "from osgeo import gdal"
+                  gdalinfo --version
+            - name: Install dependencies
+              run: |
+                  pip install --no-cache-dir Cython
+                  pip install -r requirements.txt -r requirements_dev.txt
+                  pip install .
+            - name: Discover typos with codespell
+              run: codespell --skip="*.csv,*.geojson,*.json,*.js,*.html,*cff,*.pdf,./.git" --ignore-words-list="aci,acount,hist"
+            - name: PKG-TEST
+              run: |
+                  python -m unittest discover tests/
+            - name: Build docs
+              run: |
+                  mkdocs build
+            # - name: Deploy to Netlify
+            #   uses: nwtgck/actions-netlify@v2.0
+            #   with:
+            #       publish-dir: "./site"
+            #       production-branch: main
+
+            #       github-token: ${{ secrets.GITHUB_TOKEN }}
+            #       deploy-message: "Deploy from GitHub Actions"
+            #       enable-pull-request-comment: true
+            #       enable-commit-comment: false
+            #       overwrites-pull-request-comment: true
+            #   env:
+            #       NETLIFY_AUTH_TOKEN: ${{ secrets.NETLIFY_AUTH_TOKEN }}
+            #       NETLIFY_SITE_ID: ${{ secrets.NETLIFY_SITE_ID }}
+            #   timeout-minutes: 10
+

coralnet_toolbox-0.0.22/.github/workflows/docs.yml

@@ -0,0 +1,31 @@
+name: docs
+on:
+    push:
+        branches:
+            - main
+            - master
+jobs:
+    deploy:
+        runs-on: ubuntu-latest
+        steps:
+            - uses: actions/checkout@v4
+              with:
+                  fetch-depth: 0
+            - uses: actions/setup-python@v5
+              with:
+                  python-version: "3.10"
+
+            - name: Install dependencies
+              run: |
+                  python -m pip install --upgrade pip
+                  pip install --user --no-cache-dir Cython
+                  pip install --user -r requirements.txt -r requirements_dev.txt
+                  pip install .
+            - name: Discover typos with codespell
+              run: |
+                  codespell --skip="*.csv,*.geojson,*.json,*.js,*.html,*cff,./.git" --ignore-words-list="aci,hist"
+            - name: PKG-TEST
+              run: |
+                  python -m unittest discover tests/
+            - run: mkdocs gh-deploy --force
+

coralnet_toolbox-0.0.22/.github/workflows/installation.yml

@@ -0,0 +1,31 @@
+on:
+    push:
+        branches:
+            - main
+            - master
+    pull_request:
+        branches:
+            - main
+            - master
+
+
+name: Linux installation
+jobs:
+    test-ubuntu:
+        runs-on: ubuntu-latest
+        strategy:
+            fail-fast: false
+            matrix:
+                python-version: ["3.10"]
+
+        steps:
+            - uses: actions/checkout@v4
+            - name: Set up Python
+              uses: actions/setup-python@v5
+              with:
+                  python-version: ${{ matrix.python-version }}
+
+            - name: Install package
+              run: pip install .
+            - name: Test import
+              run: python -c "import coralnet_toolbox; print('coralnet_toolbox import successful')"

coralnet_toolbox-0.0.22/.github/workflows/macos.yml

@@ -0,0 +1,42 @@
+on:
+    push:
+        branches:
+            - main
+            - master
+    pull_request:
+        branches:
+            - main
+            - master
+
+name: macOS build
+jobs:
+    test-macOS:
+        runs-on: ${{ matrix.os }}
+        name: ${{ matrix.os }} (${{ matrix.python-version}})
+
+        strategy:
+            fail-fast: false
+            matrix:
+              os: ["macOS-latest"]
+              python-version: ["3.10"]
+
+        steps:
+          - name: Checkout code
+            uses: actions/checkout@v4
+      
+          - name: Set up Python
+            uses: actions/setup-python@v5
+            with:
+              python-version: ${{ matrix.python-version}}
+          - name: Install GDAL
+            run: |
+              brew install gdal
+          - name: Test GDAL installation
+            run: |
+              gdalinfo --version
+          - name: Install dependencies
+            run: |
+                python -m pip install --upgrade pip
+                pip install --no-cache-dir Cython
+                pip install -r requirements.txt
+                pip install .

coralnet_toolbox-0.0.22/.github/workflows/pypi.yml

@@ -0,0 +1,30 @@
+# This workflows will upload a Python Package using Twine when a release is created
+# For more information see: https://help.github.com/en/actions/language-and-framework-guides/using-python-with-github-actions#publishing-to-package-registries
+
+name: pypi
+
+on:
+    release:
+        types: [created]
+
+jobs:
+    deploy:
+        runs-on: ubuntu-latest
+
+        steps:
+            - uses: actions/checkout@v4
+            - name: Set up Python
+              uses: actions/setup-python@v5
+              with:
+                  python-version: "3.x"
+            - name: Install dependencies
+              run: |
+                  python -m pip install --upgrade pip
+                  pip install setuptools wheel twine build
+            - name: Build and publish
+              env:
+                  TWINE_USERNAME: ${{ secrets.PYPI_USERNAME }}
+                  TWINE_PASSWORD: ${{ secrets.PYPI_PASSWORD }}
+              run: |
+                  python -m build
+                  twine upload dist/*

coralnet_toolbox-0.0.22/.github/workflows/ubuntu.yml

@@ -0,0 +1,44 @@
+on:
+    push:
+        branches:
+            - main
+            - master
+    pull_request:
+        branches:
+            - main
+            - master
+
+name: Linux build
+jobs:
+    py-check:
+        runs-on: ${{ matrix.config.os }}
+        name: ${{ matrix.config.os }} (${{ matrix.config.py }})
+        strategy:
+            fail-fast: false
+            matrix:
+                config:
+                    - { os: ubuntu-latest, py: "3.10" }
+        steps:
+            - name: Checkout Code
+              uses: actions/checkout@v4
+            - name: Setup Python
+              uses: actions/setup-python@v5
+              with:
+                  python-version: ${{ matrix.config.py }}
+            - name: Install GDAL
+              run: |
+                  python -m pip install --upgrade pip
+                  pip install --no-cache-dir Cython
+                  pip install --find-links=https://girder.github.io/large_image_wheels --no-cache GDAL
+            - name: Test GDAL installation
+              run: |
+                  python -c "from osgeo import gdal"
+                  gdalinfo --version
+            - name: Install dependencies
+              run: |
+                  pip install --user -r requirements.txt
+                  pip install .
+            - name: PKG-TEST
+              run: |
+                  python -m unittest discover tests/
+

coralnet_toolbox-0.0.22/.github/workflows/windows.yml

@@ -0,0 +1,34 @@
+on:
+    push:
+        branches:
+            - main
+            - master
+    pull_request:
+        branches:
+            - main
+            - master
+
+name: Windows build
+jobs:
+    test-windows:
+        runs-on: windows-latest
+        steps:
+            - uses: actions/checkout@v4
+            - name: Install miniconda
+              uses: conda-incubator/setup-miniconda@v2
+              with:
+                  auto-activate-base: true
+                  python-version: "3.10"
+
+            - name: Install GDAL
+              run: conda install -c conda-forge gdal --yes
+            - name: Test GDAL installation
+              run: |
+                  python -c "from osgeo import gdal"
+                  gdalinfo --version
+            - name: Install dependencies
+              run: |
+                  python -m pip install --upgrade pip
+                  pip install --no-cache-dir Cython
+                  pip install -r requirements.txt
+                  pip install .

coralnet_toolbox-0.0.22/.gitignore

@@ -0,0 +1,132 @@
+# Byte-compiled / optimized / DLL files
+__pycache__/
+private/
+*.py[cod]
+*$py.class
+
+# C extensions
+*.so
+
+# Distribution / packaging
+.Python
+env/
+build/
+develop-eggs/
+dist/
+downloads/
+private/
+eggs/
+.eggs/
+lib/
+lib64/
+parts/
+sdist/
+var/
+wheels/
+*.egg-info/
+.installed.cfg
+*.egg
+
+# 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/
+.coverage
+.coverage.*
+.cache
+nosetests.xml
+coverage.xml
+*.cover
+.hypothesis/
+.pytest_cache/
+
+# Translations
+*.mo
+*.pot
+
+# Django stuff:
+*.log
+local_settings.py
+
+# Flask stuff:
+instance/
+.webassets-cache
+
+# Scrapy stuff:
+.scrapy
+
+# Sphinx documentation
+docs/_build/
+
+# PyBuilder
+target/
+
+# Jupyter Notebook
+.ipynb_checkpoints
+
+# pyenv
+.python-version
+
+# celery beat schedule file
+celerybeat-schedule
+
+# SageMath parsed files
+*.sage.py
+
+# dotenv
+.env
+
+# virtualenv
+.venv
+venv/
+ENV/
+
+# Spyder project settings
+.spyderproject
+.spyproject
+
+# Rope project settings
+.ropeproject
+
+# mkdocs documentation
+/site
+
+# mypy
+.mypy_cache/
+
+# IDE settings
+.vscode/
+
+# Visual Studio Code
+*egg-info
+*.vscode
+launch.json
+
+# PyCharm
+*.idea
+
+# Models
+*.hd
+*.hdf5
+*.pt
+*.pth
+*.torchscript
+*.bin
+*.engine
+*.onnx
+*__pycache__/
+*.amltmp
+*.amlignore
+*.ipynb_aml_checkpoints
+
+# Local
+data/

coralnet_toolbox-0.0.22/LICENSE.txt

@@ -0,0 +1,5 @@
+Software code created by U.S. Government employees is not subject to copyright in the United States (17 U.S.C. §105).
+The United States/Department of Commerce reserve all rights to seek and obtain copyright protection in countries
+other than the United States for Software authored in its entirety by the Department of Commerce. To this end, the
+Department of Commerce hereby grants to Recipient a royalty-free, nonexclusive license to use, copy, and create
+derivative works of the Software outside of the United States.

coralnet_toolbox-0.0.22/MANIFEST.in

@@ -0,0 +1,7 @@
+include LICENSE
+include README.md
+include requirements.txt
+
+recursive-exclude * __pycache__
+recursive-exclude * *.py[co]
+