diff --git a/.coveragerc b/.coveragerc index 17202717..05f70a81 100644 --- a/.coveragerc +++ b/.coveragerc @@ -6,5 +6,5 @@ exclude_lines = pragma: no cover raise NotImplementedError omit = seaduck/__init__.py - doc/* + docs/* tests/* diff --git a/.gitignore b/.gitignore index 6d14d4b6..61821fd0 100644 --- a/.gitignore +++ b/.gitignore @@ -1,16 +1,361 @@ -# notebooks +# setuptools-scm +version.py + +# Sphinx automatic generation of API +docs/_api/ + +# Created by https://www.toptal.com/developers/gitignore/api/python,jupyternotebooks,vim,visualstudiocode,pycharm +# Edit at https://www.toptal.com/developers/gitignore?templates=python,jupyternotebooks,vim,visualstudiocode,pycharm + +### JupyterNotebooks ### +# gitignore template for Jupyter Notebooks +# website: http://jupyter.org/ + +.ipynb_checkpoints +*/.ipynb_checkpoints/* + +# IPython +profile_default/ +ipython_config.py + +# Remove previous ipynb_checkpoints +# git rm -r .ipynb_checkpoints/ + +### PyCharm ### +# Covers JetBrains IDEs: IntelliJ, RubyMine, PhpStorm, AppCode, PyCharm, CLion, Android Studio, WebStorm and Rider +# Reference: https://intellij-support.jetbrains.com/hc/en-us/articles/206544839 + +# User-specific stuff +.idea/**/workspace.xml +.idea/**/tasks.xml +.idea/**/usage.statistics.xml +.idea/**/dictionaries +.idea/**/shelf + +# AWS User-specific +.idea/**/aws.xml + +# Generated files +.idea/**/contentModel.xml + +# Sensitive or high-churn files +.idea/**/dataSources/ +.idea/**/dataSources.ids +.idea/**/dataSources.local.xml +.idea/**/sqlDataSources.xml +.idea/**/dynamic.xml +.idea/**/uiDesigner.xml +.idea/**/dbnavigator.xml + +# Gradle +.idea/**/gradle.xml +.idea/**/libraries + +# Gradle and Maven with auto-import +# When using Gradle or Maven with auto-import, you should exclude module files, +# since they will be recreated, and may cause churn. Uncomment if using +# auto-import. +# .idea/artifacts +# .idea/compiler.xml +# .idea/jarRepositories.xml +# .idea/modules.xml +# .idea/*.iml +# .idea/modules +# *.iml +# *.ipr + +# CMake +cmake-build-*/ + +# Mongo Explorer plugin +.idea/**/mongoSettings.xml + +# File-based project format +*.iws + +# IntelliJ +out/ + +# mpeltonen/sbt-idea plugin +.idea_modules/ + +# JIRA plugin +atlassian-ide-plugin.xml + +# Cursive Clojure plugin +.idea/replstate.xml + +# SonarLint plugin +.idea/sonarlint/ + +# Crashlytics plugin (for Android Studio and IntelliJ) +com_crashlytics_export_strings.xml +crashlytics.properties +crashlytics-build.properties +fabric.properties + +# Editor-based Rest Client +.idea/httpRequests + +# Android studio 3.1+ serialized cache file +.idea/caches/build_file_checksums.ser + +### PyCharm Patch ### +# Comment Reason: https://github.com/joeblau/gitignore.io/issues/186#issuecomment-215987721 + +# *.iml +# modules.xml +# .idea/misc.xml +# *.ipr + +# Sonarlint plugin +# https://plugins.jetbrains.com/plugin/7973-sonarlint +.idea/**/sonarlint/ + +# SonarQube Plugin +# https://plugins.jetbrains.com/plugin/7238-sonarqube-community-plugin +.idea/**/sonarIssues.xml + +# Markdown Navigator plugin +# https://plugins.jetbrains.com/plugin/7896-markdown-navigator-enhanced +.idea/**/markdown-navigator.xml +.idea/**/markdown-navigator-enh.xml +.idea/**/markdown-navigator/ + +# Cache file creation bug +# See https://youtrack.jetbrains.com/issue/JBR-2257 +.idea/$CACHE_FILE$ + +# CodeStream plugin +# https://plugins.jetbrains.com/plugin/12206-codestream +.idea/codestream.xml + +# Azure Toolkit for IntelliJ plugin +# https://plugins.jetbrains.com/plugin/8053-azure-toolkit-for-intellij +.idea/**/azureSettings.xml + +### 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 + +# IPython + +# 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 + +# poetry +# Similar to Pipfile.lock, it is generally recommended to include poetry.lock in version control. +# This is especially recommended for binary packages to ensure reproducibility, and is more +# commonly ignored for libraries. +# https://python-poetry.org/docs/basic-usage/#commit-your-poetrylock-file-to-version-control +#poetry.lock + +# pdm +# Similar to Pipfile.lock, it is generally recommended to include pdm.lock in version control. +#pdm.lock +# pdm stores project-wide configurations in .pdm.toml, but it is recommended to not include it +# in version control. +# https://pdm.fming.dev/#use-with-ide +.pdm.toml + +# PEP 582; used by e.g. github.com/David-OConnor/pyflow and github.com/pdm-project/pdm +__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/ + +# PyCharm +# JetBrains specific template is maintained in a separate JetBrains.gitignore that can +# be found at https://github.com/github/gitignore/blob/main/Global/JetBrains.gitignore +# and can be added to the global gitignore or merged into this file. For a more nuclear +# option (not recommended) you can uncomment the following to ignore the entire idea folder. +#.idea/ + +### Python Patch ### +# Poetry local configuration file - https://python-poetry.org/docs/configuration/#local-configuration +poetry.toml + +# ruff +.ruff_cache/ + +# LSP config files +pyrightconfig.json + +### Vim ### +# Swap +[._]*.s[a-v][a-z] +!*.svg # comment out if you don't need vector files +[._]*.sw[a-p] +[._]s[a-rt-v][a-z] +[._]ss[a-gi-z] +[._]sw[a-p] + +# Session +Session.vim +Sessionx.vim + +# Temporary +.netrwhist +*~ +# Auto-generated tag files +tags +# Persistent undo +[._]*.un~ + +### VisualStudioCode ### +.vscode/ +# .vscode/* +# !.vscode/settings.json +# !.vscode/tasks.json +# !.vscode/launch.json +# !.vscode/extensions.json +# !.vscode/*.code-snippets + +# Local History for Visual Studio Code +.history/ + +# Built Visual Studio Code Extensions +*.vsix + +### VisualStudioCode Patch ### +# Ignore all local history of files +.history +.ionide + +# Ignore code-workspaces +*.code-workspace + +# User Defined test*.ipynb -*ipy*/ -*.pyc *.npy *.png *.jpg .vscode/ -.coverage -.pytest* -dist/ -build/ -seaduck.egg-info/ -tests/Data/ tests/Data assets/ +*.pyc +*.nc + +# End of https://www.toptal.com/developers/gitignore/api/python,jupyternotebooks,vim,visualstudiocode,pycharm diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml index 7fc316fa..8fde9f4c 100644 --- a/.pre-commit-config.yaml +++ b/.pre-commit-config.yaml @@ -1,16 +1,33 @@ -# https://pre-commit.com/ -ci: - autofix_prs: false repos: - repo: https://github.com/pre-commit/pre-commit-hooks rev: v4.4.0 hooks: - id: trailing-whitespace - id: end-of-file-fixer + - id: check-json - id: check-yaml + - id: check-toml - id: check-added-large-files - id: debug-statements - id: mixed-line-ending +- repo: https://github.com/psf/black + rev: 23.3.0 + hooks: + - id: black +- repo: https://github.com/keewis/blackdoc + rev: v0.3.8 + hooks: + - id: blackdoc + additional_dependencies: [black==22.3.0] +- repo: https://github.com/charliermarsh/ruff-pre-commit + rev: v0.0.265 + hooks: + - id: ruff + args: [--fix, '--exclude=tests/*', '--exclude=seaduck/__init__.py'] +- repo: https://github.com/executablebooks/mdformat + rev: 0.7.16 + hooks: + - id: mdformat - repo: https://github.com/macisamuele/language-formatters-pre-commit-hooks rev: v2.8.0 hooks: @@ -18,18 +35,3 @@ repos: args: [--autofix, --preserve-quotes] - id: pretty-format-toml args: [--autofix] -- repo: https://github.com/pycqa/isort - rev: 5.12.0 - hooks: - - id: isort -- repo: https://github.com/PyCQA/flake8 - rev: 6.0.0 - hooks: - - id: flake8 - exclude: seaduck/__init__.py - args: ['--ignore=E501,E231', '--exclude=tests/*'] -- repo: https://github.com/nbQA-dev/nbQA - rev: 1.7.0 - hooks: - - id: nbqa-isort - additional_dependencies: [isort] diff --git a/.pre-commit-config_loose.yaml b/.pre-commit-config_loose.yaml new file mode 100644 index 00000000..7fc316fa --- /dev/null +++ b/.pre-commit-config_loose.yaml @@ -0,0 +1,35 @@ +# https://pre-commit.com/ +ci: + autofix_prs: false +repos: +- repo: https://github.com/pre-commit/pre-commit-hooks + rev: v4.4.0 + hooks: + - id: trailing-whitespace + - id: end-of-file-fixer + - id: check-yaml + - id: check-added-large-files + - id: debug-statements + - id: mixed-line-ending +- repo: https://github.com/macisamuele/language-formatters-pre-commit-hooks + rev: v2.8.0 + hooks: + - id: pretty-format-yaml + args: [--autofix, --preserve-quotes] + - id: pretty-format-toml + args: [--autofix] +- repo: https://github.com/pycqa/isort + rev: 5.12.0 + hooks: + - id: isort +- repo: https://github.com/PyCQA/flake8 + rev: 6.0.0 + hooks: + - id: flake8 + exclude: seaduck/__init__.py + args: ['--ignore=E501,E231', '--exclude=tests/*'] +- repo: https://github.com/nbQA-dev/nbQA + rev: 1.7.0 + hooks: + - id: nbqa-isort + additional_dependencies: [isort] diff --git a/LICENSE b/LICENSE index 48f56141..f334c1bb 100644 --- a/LICENSE +++ b/LICENSE @@ -1,21 +1,201 @@ -MIT License - -Copyright (c) 2022, Wenrui Jiang - -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: - -The above copyright notice and this permission notice shall be included in all -copies or substantial portions of the Software. - -THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR -IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, -FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE -AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER -LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, -OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE -SOFTWARE. + Apache License + Version 2.0, January 2004 + http://www.apache.org/licenses/ + + TERMS AND CONDITIONS FOR USE, REPRODUCTION, AND DISTRIBUTION + + 1. Definitions. + + "License" shall mean the terms and conditions for use, reproduction, + and distribution as defined by Sections 1 through 9 of this document. + + "Licensor" shall mean the copyright owner or entity authorized by + the copyright owner that is granting the License. + + "Legal Entity" shall mean the union of the acting entity and all + other entities that control, are controlled by, or are under common + control with that entity. For the purposes of this definition, + "control" means (i) the power, direct or indirect, to cause the + direction or management of such entity, whether by contract or + otherwise, or (ii) ownership of fifty percent (50%) or more of the + outstanding shares, or (iii) beneficial ownership of such entity. + + "You" (or "Your") shall mean an individual or Legal Entity + exercising permissions granted by this License. + + "Source" form shall mean the preferred form for making modifications, + including but not limited to software source code, documentation + source, and configuration files. + + "Object" form shall mean any form resulting from mechanical + transformation or translation of a Source form, including but + not limited to compiled object code, generated documentation, + and conversions to other media types. + + "Work" shall mean the work of authorship, whether in Source or + Object form, made available under the License, as indicated by a + copyright notice that is included in or attached to the work + (an example is provided in the Appendix below). + + "Derivative Works" shall mean any work, whether in Source or Object + form, that is based on (or derived from) the Work and for which the + editorial revisions, annotations, elaborations, or other modifications + represent, as a whole, an original work of authorship. For the purposes + of this License, Derivative Works shall not include works that remain + separable from, or merely link (or bind by name) to the interfaces of, + the Work and Derivative Works thereof. + + "Contribution" shall mean any work of authorship, including + the original version of the Work and any modifications or additions + to that Work or Derivative Works thereof, that is intentionally + submitted to Licensor for inclusion in the Work by the copyright owner + or by an individual or Legal Entity authorized to submit on behalf of + the copyright owner. For the purposes of this definition, "submitted" + means any form of electronic, verbal, or written communication sent + to the Licensor or its representatives, including but not limited to + communication on electronic mailing lists, source code control systems, + and issue tracking systems that are managed by, or on behalf of, the + Licensor for the purpose of discussing and improving the Work, but + excluding communication that is conspicuously marked or otherwise + designated in writing by the copyright owner as "Not a Contribution." + + "Contributor" shall mean Licensor and any individual or Legal Entity + on behalf of whom a Contribution has been received by Licensor and + subsequently incorporated within the Work. + + 2. Grant of Copyright License. Subject to the terms and conditions of + this License, each Contributor hereby grants to You a perpetual, + worldwide, non-exclusive, no-charge, royalty-free, irrevocable + copyright license to reproduce, prepare Derivative Works of, + publicly display, publicly perform, sublicense, and distribute the + Work and such Derivative Works in Source or Object form. + + 3. Grant of Patent License. Subject to the terms and conditions of + this License, each Contributor hereby grants to You a perpetual, + worldwide, non-exclusive, no-charge, royalty-free, irrevocable + (except as stated in this section) patent license to make, have made, + use, offer to sell, sell, import, and otherwise transfer the Work, + where such license applies only to those patent claims licensable + by such Contributor that are necessarily infringed by their + Contribution(s) alone or by combination of their Contribution(s) + with the Work to which such Contribution(s) was submitted. If You + institute patent litigation against any entity (including a + cross-claim or counterclaim in a lawsuit) alleging that the Work + or a Contribution incorporated within the Work constitutes direct + or contributory patent infringement, then any patent licenses + granted to You under this License for that Work shall terminate + as of the date such litigation is filed. + + 4. Redistribution. You may reproduce and distribute copies of the + Work or Derivative Works thereof in any medium, with or without + modifications, and in Source or Object form, provided that You + meet the following conditions: + + (a) You must give any other recipients of the Work or + Derivative Works a copy of this License; and + + (b) You must cause any modified files to carry prominent notices + stating that You changed the files; and + + (c) You must retain, in the Source form of any Derivative Works + that You distribute, all copyright, patent, trademark, and + attribution notices from the Source form of the Work, + excluding those notices that do not pertain to any part of + the Derivative Works; and + + (d) If the Work includes a "NOTICE" text file as part of its + distribution, then any Derivative Works that You distribute must + include a readable copy of the attribution notices contained + within such NOTICE file, excluding those notices that do not + pertain to any part of the Derivative Works, in at least one + of the following places: within a NOTICE text file distributed + as part of the Derivative Works; within the Source form or + documentation, if provided along with the Derivative Works; or, + within a display generated by the Derivative Works, if and + wherever such third-party notices normally appear. The contents + of the NOTICE file are for informational purposes only and + do not modify the License. You may add Your own attribution + notices within Derivative Works that You distribute, alongside + or as an addendum to the NOTICE text from the Work, provided + that such additional attribution notices cannot be construed + as modifying the License. + + You may add Your own copyright statement to Your modifications and + may provide additional or different license terms and conditions + for use, reproduction, or distribution of Your modifications, or + for any such Derivative Works as a whole, provided Your use, + reproduction, and distribution of the Work otherwise complies with + the conditions stated in this License. + + 5. Submission of Contributions. Unless You explicitly state otherwise, + any Contribution intentionally submitted for inclusion in the Work + by You to the Licensor shall be under the terms and conditions of + this License, without any additional terms or conditions. + Notwithstanding the above, nothing herein shall supersede or modify + the terms of any separate license agreement you may have executed + with Licensor regarding such Contributions. + + 6. Trademarks. This License does not grant permission to use the trade + names, trademarks, service marks, or product names of the Licensor, + except as required for reasonable and customary use in describing the + origin of the Work and reproducing the content of the NOTICE file. + + 7. Disclaimer of Warranty. Unless required by applicable law or + agreed to in writing, Licensor provides the Work (and each + Contributor provides its Contributions) on an "AS IS" BASIS, + WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or + implied, including, without limitation, any warranties or conditions + of TITLE, NON-INFRINGEMENT, MERCHANTABILITY, or FITNESS FOR A + PARTICULAR PURPOSE. You are solely responsible for determining the + appropriateness of using or redistributing the Work and assume any + risks associated with Your exercise of permissions under this License. + + 8. Limitation of Liability. In no event and under no legal theory, + whether in tort (including negligence), contract, or otherwise, + unless required by applicable law (such as deliberate and grossly + negligent acts) or agreed to in writing, shall any Contributor be + liable to You for damages, including any direct, indirect, special, + incidental, or consequential damages of any character arising as a + result of this License or out of the use or inability to use the + Work (including but not limited to damages for loss of goodwill, + work stoppage, computer failure or malfunction, or any and all + other commercial damages or losses), even if such Contributor + has been advised of the possibility of such damages. + + 9. Accepting Warranty or Additional Liability. While redistributing + the Work or Derivative Works thereof, You may choose to offer, + and charge a fee for, acceptance of support, warranty, indemnity, + or other liability obligations and/or rights consistent with this + License. However, in accepting such obligations, You may act only + on Your own behalf and on Your sole responsibility, not on behalf + of any other Contributor, and only if You agree to indemnify, + defend, and hold each Contributor harmless for any liability + incurred by, or claims asserted against, such Contributor by reason + of your accepting any such warranty or additional liability. + + END OF TERMS AND CONDITIONS + + APPENDIX: How to apply the Apache License to your work. + + To apply the Apache License to your work, attach the following + boilerplate notice, with the fields enclosed by brackets "[]" + replaced with your own identifying information. (Don't include + the brackets!) The text should be enclosed in the appropriate + comment syntax for the file format. We also recommend that a + file or class name and description of purpose be included on the + same "printed page" as the copyright notice for easier + identification within third-party archives. + + Copyright 2023, Wenrui Jiang. + + Licensed under the Apache License, Version 2.0 (the "License"); + you may not use this file except in compliance with the License. + You may obtain a copy of the License at + + http://www.apache.org/licenses/LICENSE-2.0 + + Unless required by applicable law or agreed to in writing, software + distributed under the License is distributed on an "AS IS" BASIS, + WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. + See the License for the specific language governing permissions and + limitations under the License. diff --git a/Makefile b/Makefile new file mode 100644 index 00000000..cb6705ed --- /dev/null +++ b/Makefile @@ -0,0 +1,25 @@ +PROJECT := seaduck +CONDA := conda +CONDAFLAGS := +COV_REPORT := term-missing + +default: qa unit-tests type-check + +qa: + pre-commit run --all-files + +unit-tests: + python -m pytest -vv --cov=seaduck --cov-report=$(COV_REPORT) --doctest-glob="*.md" --doctest-glob="*.rst" + +type-check: + python -m mypy . + +conda-env-update: + $(CONDA) env update $(CONDAFLAGS) -f ci/environment-ci.yml + $(CONDA) env update $(CONDAFLAGS) -f environment.yml + + +docs-build: + jupyter-book build docs/ + +# DO NOT EDIT ABOVE THIS LINE, ADD COMMANDS BELOW diff --git a/README.md b/README.md new file mode 100644 index 00000000..d0bd7ba0 --- /dev/null +++ b/README.md @@ -0,0 +1,47 @@ +# seaduck + +A python package that interpolates data from ocean dataset from both Eulerian and Lagrangian perspective. + +## Quick Start + +```python +>>> import seaduck + +``` + +## Workflow for developers/contributors + +For best experience create a new conda environment (e.g. DEVELOP) with Python 3.10: + +``` +conda create -n DEVELOP -c conda-forge python=3.10 +conda activate DEVELOP +``` + +Before pushing to GitHub, run the following commands: + +1. Update conda environment: `make conda-env-update` +1. Install this package: `pip install -e .` +1. Sync with the latest [template](https://github.com/ecmwf-projects/cookiecutter-conda-package) (optional): `make template-update` +1. Run quality assurance checks: `make qa` +1. Run tests: `make unit-tests` +1. Run the static type checker: `make type-check` +1. Build the documentation (see [Sphinx tutorial](https://www.sphinx-doc.org/en/master/tutorial/)): `make docs-build` + +## License + +``` +Copyright 2023, Wenrui Jiang. + +Licensed under the Apache License, Version 2.0 (the "License"); +you may not use this file except in compliance with the License. +You may obtain a copy of the License at + + http://www.apache.org/licenses/LICENSE-2.0 + +Unless required by applicable law or agreed to in writing, software +distributed under the License is distributed on an "AS IS" BASIS, +WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +See the License for the specific language governing permissions and +limitations under the License. +``` diff --git a/ci/environment-ci.yml b/ci/environment-ci.yml new file mode 100644 index 00000000..6688eeec --- /dev/null +++ b/ci/environment-ci.yml @@ -0,0 +1,16 @@ +# environment-ci.yml: Additional dependencies to install in the CI environment. +channels: +- conda-forge +- nodefaults +dependencies: +- make +- mypy +- myst-parser +- pre-commit +- pydata-sphinx-theme +- pytest +- pytest-cov +- sphinx +- sphinx-autoapi +- pooch +- zarr diff --git a/ci/environment-integration.yml b/ci/environment-integration.yml new file mode 100644 index 00000000..6a8511d3 --- /dev/null +++ b/ci/environment-integration.yml @@ -0,0 +1,9 @@ +# environment-integration.yml: Additional dependencies to install in the integration environment (e.g., pinned dependencies). +channels: +- conda-forge +- nodefaults +dependencies: +- make +- pytest +- pytest-cov +# DO NOT EDIT ABOVE THIS LINE, ADD DEPENDENCIES BELOW diff --git a/docs/_build/.doctrees/AVISO.doctree b/docs/_build/.doctrees/AVISO.doctree index 5c20cedc..cdf2a4d0 100644 Binary files a/docs/_build/.doctrees/AVISO.doctree and b/docs/_build/.doctrees/AVISO.doctree differ diff --git a/docs/_build/.doctrees/Global_ECCO.doctree b/docs/_build/.doctrees/Global_ECCO.doctree index c8a4433b..4069d946 100644 Binary files a/docs/_build/.doctrees/Global_ECCO.doctree and b/docs/_build/.doctrees/Global_ECCO.doctree differ diff --git a/docs/_build/.doctrees/IGP.doctree b/docs/_build/.doctrees/IGP.doctree index 29ed2ef3..1727a929 100644 Binary files a/docs/_build/.doctrees/IGP.doctree and b/docs/_build/.doctrees/IGP.doctree differ diff --git a/docs/_build/.doctrees/all_in_one.doctree b/docs/_build/.doctrees/all_in_one.doctree index fc7418a2..30c88e09 100644 Binary files a/docs/_build/.doctrees/all_in_one.doctree and b/docs/_build/.doctrees/all_in_one.doctree differ diff --git a/docs/_build/.doctrees/api_reference/apiref_OceData.doctree b/docs/_build/.doctrees/api_reference/apiref_OceData.doctree index f2b562ed..3cbcd96d 100644 Binary files a/docs/_build/.doctrees/api_reference/apiref_OceData.doctree and b/docs/_build/.doctrees/api_reference/apiref_OceData.doctree differ diff --git a/docs/_build/.doctrees/api_reference/apiref_OceInterp.doctree b/docs/_build/.doctrees/api_reference/apiref_OceInterp.doctree index 4d5b2e44..f536688a 100644 Binary files a/docs/_build/.doctrees/api_reference/apiref_OceInterp.doctree and b/docs/_build/.doctrees/api_reference/apiref_OceInterp.doctree differ diff --git a/docs/_build/.doctrees/api_reference/apiref_eulerian.doctree b/docs/_build/.doctrees/api_reference/apiref_eulerian.doctree index 2acc69c1..86c80327 100644 Binary files a/docs/_build/.doctrees/api_reference/apiref_eulerian.doctree and b/docs/_build/.doctrees/api_reference/apiref_eulerian.doctree differ diff --git a/docs/_build/.doctrees/api_reference/apiref_getmasks.doctree b/docs/_build/.doctrees/api_reference/apiref_getmasks.doctree index 27ead327..994d3a9f 100644 Binary files a/docs/_build/.doctrees/api_reference/apiref_getmasks.doctree and b/docs/_build/.doctrees/api_reference/apiref_getmasks.doctree differ diff --git a/docs/_build/.doctrees/api_reference/apiref_kernelNweight.doctree b/docs/_build/.doctrees/api_reference/apiref_kernelNweight.doctree index 09d0652f..74d60bcb 100644 Binary files a/docs/_build/.doctrees/api_reference/apiref_kernelNweight.doctree and b/docs/_build/.doctrees/api_reference/apiref_kernelNweight.doctree differ diff --git a/docs/_build/.doctrees/api_reference/apiref_lagrangian.doctree b/docs/_build/.doctrees/api_reference/apiref_lagrangian.doctree index e6ee2348..56efd80c 100644 Binary files a/docs/_build/.doctrees/api_reference/apiref_lagrangian.doctree and b/docs/_build/.doctrees/api_reference/apiref_lagrangian.doctree differ diff --git a/docs/_build/.doctrees/api_reference/apiref_smartread.doctree b/docs/_build/.doctrees/api_reference/apiref_smartread.doctree index 4a3ad863..4a4c0b7f 100644 Binary files a/docs/_build/.doctrees/api_reference/apiref_smartread.doctree and b/docs/_build/.doctrees/api_reference/apiref_smartread.doctree differ diff --git a/docs/_build/.doctrees/api_reference/apiref_topology.doctree b/docs/_build/.doctrees/api_reference/apiref_topology.doctree index cd02e827..e0e9ff69 100644 Binary files a/docs/_build/.doctrees/api_reference/apiref_topology.doctree and b/docs/_build/.doctrees/api_reference/apiref_topology.doctree differ diff --git a/docs/_build/.doctrees/api_reference/apiref_utils.doctree b/docs/_build/.doctrees/api_reference/apiref_utils.doctree index 8b69fed7..b021aa51 100644 Binary files a/docs/_build/.doctrees/api_reference/apiref_utils.doctree and b/docs/_build/.doctrees/api_reference/apiref_utils.doctree differ diff --git a/docs/_build/.doctrees/environment.pickle b/docs/_build/.doctrees/environment.pickle index b118c3d2..9e63f134 100644 Binary files a/docs/_build/.doctrees/environment.pickle and b/docs/_build/.doctrees/environment.pickle differ diff --git a/docs/_build/.doctrees/how_to_install.doctree b/docs/_build/.doctrees/how_to_install.doctree index c98b66ce..86371862 100644 Binary files a/docs/_build/.doctrees/how_to_install.doctree and b/docs/_build/.doctrees/how_to_install.doctree differ diff --git a/docs/_build/.doctrees/intro.doctree b/docs/_build/.doctrees/intro.doctree index 5888a276..6b3ddf36 100644 Binary files a/docs/_build/.doctrees/intro.doctree and b/docs/_build/.doctrees/intro.doctree differ diff --git a/docs/_build/.doctrees/network_of_object.doctree b/docs/_build/.doctrees/network_of_object.doctree index 7add5f96..8dc25144 100644 Binary files a/docs/_build/.doctrees/network_of_object.doctree and b/docs/_build/.doctrees/network_of_object.doctree differ diff --git a/docs/_build/.doctrees/notebooks.doctree b/docs/_build/.doctrees/notebooks.doctree index 136cd253..8e49b3da 100644 Binary files a/docs/_build/.doctrees/notebooks.doctree and b/docs/_build/.doctrees/notebooks.doctree differ diff --git a/docs/_build/.doctrees/reference.doctree b/docs/_build/.doctrees/reference.doctree index ebe4747b..a5dd702f 100644 Binary files a/docs/_build/.doctrees/reference.doctree and b/docs/_build/.doctrees/reference.doctree differ diff --git a/docs/_build/html/.buildinfo b/docs/_build/html/.buildinfo index cc43991a..c79cdc53 100644 --- a/docs/_build/html/.buildinfo +++ b/docs/_build/html/.buildinfo @@ -1,4 +1,4 @@ # Sphinx build info version 1 # This file hashes the configuration used when building these files. When it is not found, a full rebuild will be done. -config: f20fc3726dda287102af480ecaf1105c +config: fb9519fbfb7ec29c95cb5a8de394b512 tags: 645f666f9bcd5a90fca523b33c5a78b7 diff --git a/docs/_build/html/AVISO.html b/docs/_build/html/AVISO.html index f533d200..4a8d9f31 100644 --- a/docs/_build/html/AVISO.html +++ b/docs/_build/html/AVISO.html @@ -135,13 +135,7 @@ - - - - - - - +
My sample book