diff --git a/.gitattributes b/.gitattributes new file mode 100644 index 0000000..e7ccd09 --- /dev/null +++ b/.gitattributes @@ -0,0 +1,2 @@ +# Make GitHub treat PDM's lockfile as generated and automatically hide its diff +pdm.lock linguist-generated \ No newline at end of file diff --git a/.gitignore b/.gitignore index 8376004..3626ddf 100644 --- a/.gitignore +++ b/.gitignore @@ -5,6 +5,7 @@ __pycache__ dask-worker-space .ipynb_checkpoints .vscode +.pdm.toml /dist *.DS_Store \ No newline at end of file diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml new file mode 100644 index 0000000..0639955 --- /dev/null +++ b/.pre-commit-config.yaml @@ -0,0 +1,11 @@ +repos: + - repo: local + hooks: + - id: pdm-check + name: pdm check + description: Check that PDM lockfile is up to date + entry: pdm install --check --dry-run + files: "^pyproject.toml$" + language: python + language_version: python3 + pass_filenames: false diff --git a/.readthedocs.yml b/.readthedocs.yml index 1dacecb..2d1ba30 100644 --- a/.readthedocs.yml +++ b/.readthedocs.yml @@ -3,13 +3,15 @@ version: 2 sphinx: configuration: docs/conf.py -# https://github.com/readthedocs/readthedocs.org/issues/4912#issuecomment-1143587902 build: os: ubuntu-20.04 tools: - python: '3.8' + python: "3.8" jobs: post_install: - - pip install poetry==1.1.13 - - poetry config virtualenvs.create false - - poetry install --no-dev -E docs -E viz \ No newline at end of file + # Install PDM in its own isolated environment, so docs deps don't trample its deps + - curl -sSL https://raw.githubusercontent.com/pdm-project/pdm/main/install-pdm.py | python3 - + # TODO how to get `pdm` on the $PATH? + # https://github.com/pdm-project/pdm/discussions/1365#discussioncomment-3581356 + # NOTE: pandoc fails in isolation mode + - VIRTUAL_ENV=$(dirname $(dirname $(which python))) $HOME/.local/bin/pdm sync --no-isolation -G viz -dG docs diff --git a/CHANGELOG.md b/CHANGELOG.md index 3309443..cf92449 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -1,5 +1,10 @@ # Changelog +## 0.4.3 (2022-09-14) +- Support sequences of `Item`s [@gjoseph92](https://github.com/gjoseph92) +- Fix compatibility with `pyproj>=3.4.0` [@gjoseph92](https://github.com/gjoseph92) +- stackstac has switched from Poetry to PDM as its package manager. This does not affect users, only developers. + ## 0.4.2 (2022-07-06) - Support (and require) rasterio 1.3.0 [@carderne](https://github.com/carderne) [@gjoseph92](https://github.com/gjoseph92) - Fix `ValueError` when passing `dim=` to `mosaic` [@aazuspan](https://github.com/aazuspan) diff --git a/binder/postBuild b/binder/postBuild index 20bcebc..c7be79b 100644 --- a/binder/postBuild +++ b/binder/postBuild @@ -1,5 +1,3 @@ - set -ex -poetry config virtualenvs.create false -poetry install -E binder -E viz \ No newline at end of file +VIRTUAL_ENV=$(dirname $(dirname $(which python))) pdm install -G viz -dG binder \ No newline at end of file diff --git a/binder/requirements.txt b/binder/requirements.txt index 2bd745f..bc7bdb2 100644 --- a/binder/requirements.txt +++ b/binder/requirements.txt @@ -1 +1 @@ -poetry \ No newline at end of file +pdm \ No newline at end of file diff --git a/docs/conf.py b/docs/conf.py index 0cbbfd8..76aa0f7 100644 --- a/docs/conf.py +++ b/docs/conf.py @@ -22,7 +22,7 @@ DISTRIBUTION_METADATA = importlib.metadata.metadata("stackstac") -author = DISTRIBUTION_METADATA["Author"] +author = DISTRIBUTION_METADATA["Author-email"].split(" <")[0] project = DISTRIBUTION_METADATA["Name"] version = DISTRIBUTION_METADATA["Version"] copyright = f"{datetime.datetime.now().year}, {author}" @@ -38,6 +38,7 @@ "sphinx.ext.autosummary", "sphinx.ext.napoleon", "sphinx_autodoc_typehints", + "sphinx_paramlinks", "nbsphinx", "jupyter_sphinx", ] @@ -50,6 +51,7 @@ # This pattern also affects html_static_path and html_extra_path. exclude_patterns = ["_build", "Thumbs.db", ".DS_Store"] +paramlinks_hyperlink_param = 'name' autosummary_generate = True napoleon_use_param = True # set_type_checking_flag = True @@ -115,7 +117,7 @@ "rasterio": ("https://rasterio.readthedocs.io/en/latest/", None), "numpy": ("https://numpy.org/doc/stable/", None), "pystac": ("https://pystac.readthedocs.io/en/latest/", None), - "xarray": ("https://xarray.pydata.org/en/stable/", None), + "xarray": ("https://docs.xarray.dev/en/stable/", None), "dask": ("https://docs.dask.org/en/latest/", None), "distributed": ("https://distributed.dask.org/en/latest/", None), "matplotlib": ("https://matplotlib.org/stable", None), diff --git a/examples/gif.ipynb b/examples/gif.ipynb index 019f21b..7334505 100644 --- a/examples/gif.ipynb +++ b/examples/gif.ipynb @@ -259835,7 +259835,7 @@ "\n", "Use the bit values of the Landsat-8 QA band to mask out bad pixels. We'll mask pixels labeled as dilated cloud, cirrus, cloud, or cloud shadow. (By \"mask\", we mean just replacing those pixels with NaNs).\n", "\n", - "See page 14 on [this PDF](https://prd-wret.s3.us-west-2.amazonaws.com/assets/palladium/production/atoms/files/LSDS-1328_Landsat8-9-OLI-TIRS-C2-L2-DFCB-v6.pdf) for the data table describing which bit means what." + "See page 14 on [this PDF](https://d9-wret.s3.us-west-2.amazonaws.com/assets/palladium/production/s3fs-public/media/files/LSDS-1619_Landsat-8-9-C2-L2-ScienceProductGuide-v4.pdf) for the data table describing which bit means what." ] }, { diff --git a/pdm.lock b/pdm.lock new file mode 100644 index 0000000..9c857d8 --- /dev/null +++ b/pdm.lock @@ -0,0 +1,3888 @@ +[[package]] +name = "affine" +version = "2.3.1" +summary = "Matrices describing affine transformation of the plane." + +[[package]] +name = "aiobotocore" +version = "2.4.0" +requires_python = ">=3.7" +summary = "Async client for aws services using botocore and aiohttp" +dependencies = [ + "aiohttp>=3.3.1", + "aioitertools>=0.5.1", + "botocore<1.27.60,>=1.27.59", + "wrapt>=1.10.10", +] + +[[package]] +name = "aiohttp" +version = "3.8.1" +requires_python = ">=3.6" +summary = "Async http client/server framework (asyncio)" +dependencies = [ + "aiosignal>=1.1.2", + "async-timeout<5.0,>=4.0.0a3", + "attrs>=17.3.0", + "charset-normalizer<3.0,>=2.0", + "frozenlist>=1.1.1", + "multidict<7.0,>=4.5", + "yarl<2.0,>=1.0", +] + +[[package]] +name = "aioitertools" +version = "0.10.0" +requires_python = ">=3.6" +summary = "itertools and builtins for AsyncIO and mixed iterables" +dependencies = [ + "typing-extensions>=4.0; python_version < \"3.10\"", +] + +[[package]] +name = "aiosignal" +version = "1.2.0" +requires_python = ">=3.6" +summary = "aiosignal: a list of registered asynchronous callbacks" +dependencies = [ + "frozenlist>=1.1.0", +] + +[[package]] +name = "alabaster" +version = "0.7.12" +summary = "A configurable sidebar-enabled Sphinx theme" + +[[package]] +name = "anyio" +version = "3.6.1" +requires_python = ">=3.6.2" +summary = "High level compatibility layer for multiple asynchronous event loop implementations" +dependencies = [ + "idna>=2.8", + "sniffio>=1.1", +] + +[[package]] +name = "appnope" +version = "0.1.3" +summary = "Disable App Nap on macOS >= 10.9" + +[[package]] +name = "argon2-cffi" +version = "21.3.0" +requires_python = ">=3.6" +summary = "The secure Argon2 password hashing algorithm." +dependencies = [ + "argon2-cffi-bindings", +] + +[[package]] +name = "argon2-cffi-bindings" +version = "21.2.0" +requires_python = ">=3.6" +summary = "Low-level CFFI bindings for Argon2" +dependencies = [ + "cffi>=1.0.1", +] + +[[package]] +name = "async-timeout" +version = "4.0.2" +requires_python = ">=3.6" +summary = "Timeout context manager for asyncio programs" + +[[package]] +name = "atomicwrites" +version = "1.4.1" +requires_python = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*" +summary = "Atomic file writes." + +[[package]] +name = "attrs" +version = "22.1.0" +requires_python = ">=3.5" +summary = "Classes Without Boilerplate" + +[[package]] +name = "babel" +version = "2.10.3" +requires_python = ">=3.6" +summary = "Internationalization utilities" +dependencies = [ + "pytz>=2015.7", +] + +[[package]] +name = "backcall" +version = "0.2.0" +summary = "Specifications for callback functions passed in to an API" + +[[package]] +name = "backoff" +version = "1.11.1" +requires_python = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*" +summary = "Function decoration for backoff and retry" + +[[package]] +name = "beautifulsoup4" +version = "4.11.1" +requires_python = ">=3.6.0" +summary = "Screen-scraping library" +dependencies = [ + "soupsieve>1.2", +] + +[[package]] +name = "black" +version = "22.8.0" +requires_python = ">=3.6.2" +summary = "The uncompromising code formatter." +dependencies = [ + "click>=8.0.0", + "mypy-extensions>=0.4.3", + "pathspec>=0.9.0", + "platformdirs>=2", + "tomli>=1.1.0; python_full_version < \"3.11.0a7\"", + "typing-extensions>=3.10.0.0; python_version < \"3.10\"", +] + +[[package]] +name = "bleach" +version = "5.0.1" +requires_python = ">=3.7" +summary = "An easy safelist-based HTML-sanitizing tool." +dependencies = [ + "six>=1.9.0", + "webencodings", +] + +[[package]] +name = "bokeh" +version = "2.4.3" +requires_python = ">=3.7" +summary = "Interactive plots and applications in the browser from Python" +dependencies = [ + "Jinja2>=2.9", + "PyYAML>=3.10", + "numpy>=1.11.3", + "packaging>=16.8", + "pillow>=7.1.0", + "tornado>=5.1", + "typing-extensions>=3.10.0", +] + +[[package]] +name = "boto3" +version = "1.24.59" +requires_python = ">= 3.7" +summary = "The AWS SDK for Python" +dependencies = [ + "botocore<1.28.0,>=1.27.59", + "jmespath<2.0.0,>=0.7.1", + "s3transfer<0.7.0,>=0.6.0", +] + +[[package]] +name = "botocore" +version = "1.27.59" +requires_python = ">= 3.7" +summary = "Low-level, data-driven core of boto 3." +dependencies = [ + "jmespath<2.0.0,>=0.7.1", + "python-dateutil<3.0.0,>=2.1", + "urllib3<1.27,>=1.25.4", +] + +[[package]] +name = "bottleneck" +version = "1.3.5" +summary = "Fast NumPy array functions written in C" +dependencies = [ + "numpy", +] + +[[package]] +name = "branca" +version = "0.5.0" +requires_python = ">=3.5" +summary = "Generate complex HTML+JS pages with Python" +dependencies = [ + "jinja2", +] + +[[package]] +name = "cachetools" +version = "4.2.4" +requires_python = "~=3.5" +summary = "Extensible memoizing collections and decorators" + +[[package]] +name = "certifi" +version = "2022.6.15.1" +requires_python = ">=3.6" +summary = "Python package for providing Mozilla's CA Bundle." + +[[package]] +name = "cffi" +version = "1.15.1" +summary = "Foreign Function Interface for Python calling C code." +dependencies = [ + "pycparser", +] + +[[package]] +name = "charset-normalizer" +version = "2.1.1" +requires_python = ">=3.6.0" +summary = "The Real First Universal Charset Detector. Open, modern and actively maintained alternative to Chardet." + +[[package]] +name = "click" +version = "8.1.3" +requires_python = ">=3.7" +summary = "Composable command line interface toolkit" +dependencies = [ + "colorama; platform_system == \"Windows\"", +] + +[[package]] +name = "click-plugins" +version = "1.1.1" +summary = "An extension module for click to enable registering CLI commands via setuptools entry-points." +dependencies = [ + "click>=4.0", +] + +[[package]] +name = "cligj" +version = "0.7.2" +requires_python = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, <4" +summary = "Click params for commmand line interfaces to GeoJSON" +dependencies = [ + "click>=4.0", +] + +[[package]] +name = "cloudpickle" +version = "2.2.0" +requires_python = ">=3.6" +summary = "Extended pickling support for Python objects" + +[[package]] +name = "coiled" +version = "0.2.27" +requires_python = ">=3.7" +summary = "UNKNOWN" +dependencies = [ + "aiobotocore>=1.1.1", + "aiohttp", + "backoff<2.0.0,>=1.10.0", + "bokeh>=2.4.2", + "boto3", + "click>=7.1", + "dask>=2.23.0", + "distributed>=2.23.0", + "importlib-metadata", + "ipython", + "ipywidgets<8.0,>=7.0", + "jinja2", + "jmespath", + "jsondiff", + "pandas>=1.1.0", + "pip", + "rich>=11.2.0", + "s3fs", + "textual", + "typing-extensions", +] + +[[package]] +name = "colorama" +version = "0.4.5" +requires_python = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*" +summary = "Cross-platform colored terminal text." + +[[package]] +name = "commonmark" +version = "0.9.1" +summary = "Python parser for the CommonMark Markdown spec" + +[[package]] +name = "cryptography" +version = "38.0.1" +requires_python = ">=3.6" +summary = "cryptography is a package which provides cryptographic recipes and primitives to Python developers." +dependencies = [ + "cffi>=1.12", +] + +[[package]] +name = "cycler" +version = "0.11.0" +requires_python = ">=3.6" +summary = "Composable style cycles" + +[[package]] +name = "dask" +version = "2022.9.0" +requires_python = ">=3.8" +summary = "Parallel PyData with Task Scheduling" +dependencies = [ + "cloudpickle>=1.1.1", + "fsspec>=0.6.0", + "packaging>=20.0", + "partd>=0.3.10", + "pyyaml>=5.3.1", + "toolz>=0.8.2", +] + +[[package]] +name = "dask-labextension" +version = "5.3.0" +requires_python = ">=3.6" +summary = "A JupyterLab extension for Dask." +dependencies = [ + "bokeh!=2.0.0,>=1.0.0", + "distributed>=1.24.1", + "jupyter-server-proxy>=1.3.2", + "jupyterlab>=3.0.0", +] + +[[package]] +name = "dask" +version = "2022.9.0" +extras = ["array"] +requires_python = ">=3.8" +summary = "Parallel PyData with Task Scheduling" +dependencies = [ + "dask==2022.9.0", + "numpy>=1.18", +] + +[[package]] +name = "dask" +version = "2022.9.0" +extras = ["delayed"] +requires_python = ">=3.8" +summary = "Parallel PyData with Task Scheduling" +dependencies = [ + "dask==2022.9.0", +] + +[[package]] +name = "debugpy" +version = "1.6.3" +requires_python = ">=3.7" +summary = "An implementation of the Debug Adapter Protocol for Python" + +[[package]] +name = "decorator" +version = "5.1.1" +requires_python = ">=3.5" +summary = "Decorators for Humans" + +[[package]] +name = "defusedxml" +version = "0.7.1" +requires_python = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*" +summary = "XML bomb protection for Python stdlib modules" + +[[package]] +name = "distributed" +version = "2022.9.0" +requires_python = ">=3.8" +summary = "Distributed scheduler for Dask" +dependencies = [ + "click>=6.6", + "cloudpickle>=1.5.0", + "dask==2022.9.0", + "jinja2", + "locket>=1.0.0", + "msgpack>=0.6.0", + "packaging>=20.0", + "psutil>=5.0", + "pyyaml", + "sortedcontainers!=2.0.0,!=2.0.1", + "tblib>=1.6.0", + "toolz>=0.8.2", + "tornado<6.2,>=6.0.3", + "urllib3", + "zict>=0.1.3", +] + +[[package]] +name = "docutils" +version = "0.19" +requires_python = ">=3.7" +summary = "Docutils -- Python Documentation Utilities" + +[[package]] +name = "entrypoints" +version = "0.4" +requires_python = ">=3.6" +summary = "Discover and load entry points from installed packages." + +[[package]] +name = "exceptiongroup" +version = "1.0.0rc9" +requires_python = ">=3.7" +summary = "Backport of PEP 654 (exception groups)" + +[[package]] +name = "fastjsonschema" +version = "2.16.1" +summary = "Fastest Python implementation of JSON schema" + +[[package]] +name = "flake8" +version = "4.0.1" +requires_python = ">=3.6" +summary = "the modular source code checker: pep8 pyflakes and co" +dependencies = [ + "mccabe<0.7.0,>=0.6.0", + "pycodestyle<2.9.0,>=2.8.0", + "pyflakes<2.5.0,>=2.4.0", +] + +[[package]] +name = "fonttools" +version = "4.37.1" +requires_python = ">=3.7" +summary = "Tools to manipulate font files" + +[[package]] +name = "frozenlist" +version = "1.3.1" +requires_python = ">=3.7" +summary = "A list-like structure which implements collections.abc.MutableSequence" + +[[package]] +name = "fsspec" +version = "2022.8.2" +requires_python = ">=3.7" +summary = "File-system specification" + +[[package]] +name = "furo" +version = "2022.6.21" +requires_python = ">=3.7" +summary = "A clean customisable Sphinx documentation theme." +dependencies = [ + "beautifulsoup4", + "pygments", + "sphinx-basic-ng", + "sphinx<6.0,>=4.0", +] + +[[package]] +name = "geogif" +version = "0.1.3" +requires_python = ">=3.8,<4.0" +summary = "Render xarray timestacks into GIFs" +dependencies = [ + "Pillow<10.0.0,>=9.0.1", + "dask[delayed]<2023,>=2021.4.1", + "matplotlib<4.0.0,>=3.4.1", + "numpy<2.0.0,>=1.20.2", + "xarray>=0.18", +] + +[[package]] +name = "graphviz" +version = "0.20.1" +requires_python = ">=3.7" +summary = "Simple Python interface for Graphviz" + +[[package]] +name = "heapdict" +version = "1.0.1" +summary = "a heap with decrease-key and increase-key operations" + +[[package]] +name = "hypothesis" +version = "6.54.5" +requires_python = ">=3.7" +summary = "A library for property-based testing" +dependencies = [ + "attrs>=19.2.0", + "exceptiongroup>=1.0.0rc8; python_version < \"3.11\"", + "sortedcontainers<3.0.0,>=2.1.0", +] + +[[package]] +name = "idna" +version = "3.3" +requires_python = ">=3.5" +summary = "Internationalized Domain Names in Applications (IDNA)" + +[[package]] +name = "imagesize" +version = "1.4.1" +requires_python = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*" +summary = "Getting image size from png/jpeg/jpeg2000/gif file" + +[[package]] +name = "importlib-metadata" +version = "4.12.0" +requires_python = ">=3.7" +summary = "Read metadata from Python packages" +dependencies = [ + "zipp>=0.5", +] + +[[package]] +name = "importlib-resources" +version = "5.9.0" +requires_python = ">=3.7" +summary = "Read resources from Python packages" +dependencies = [ + "zipp>=3.1.0; python_version < \"3.10\"", +] + +[[package]] +name = "iniconfig" +version = "1.1.1" +summary = "iniconfig: brain-dead simple config-ini parsing" + +[[package]] +name = "ipykernel" +version = "6.15.2" +requires_python = ">=3.7" +summary = "IPython Kernel for Jupyter" +dependencies = [ + "appnope; platform_system == \"Darwin\"", + "debugpy>=1.0", + "ipython>=7.23.1", + "jupyter-client>=6.1.12", + "matplotlib-inline>=0.1", + "nest-asyncio", + "packaging", + "psutil", + "pyzmq>=17", + "tornado>=6.1", + "traitlets>=5.1.0", +] + +[[package]] +name = "ipyleaflet" +version = "0.17.1" +requires_python = ">=3.7" +summary = "A Jupyter widget for dynamic Leaflet maps" +dependencies = [ + "branca>=0.5.0", + "ipywidgets<9,>=7.6.0", + "traittypes<3,>=0.2.1", + "xyzservices>=2021.8.1", +] + +[[package]] +name = "ipython" +version = "7.34.0" +requires_python = ">=3.7" +summary = "IPython: Productive Interactive Computing" +dependencies = [ + "appnope; sys_platform == \"darwin\"", + "backcall", + "colorama; sys_platform == \"win32\"", + "decorator", + "jedi>=0.16", + "matplotlib-inline", + "pexpect>4.3; sys_platform != \"win32\"", + "pickleshare", + "prompt-toolkit!=3.0.0,!=3.0.1,<3.1.0,>=2.0.0", + "pygments", + "setuptools>=18.5", + "traitlets>=4.2", +] + +[[package]] +name = "ipython-genutils" +version = "0.2.0" +summary = "Vestigial utilities from IPython" + +[[package]] +name = "ipywidgets" +version = "7.7.2" +summary = "IPython HTML widgets for Jupyter" +dependencies = [ + "ipykernel>=4.5.1", + "ipython-genutils~=0.2.0", + "ipython>=4.0.0; python_version >= \"3.3\"", + "jupyterlab-widgets<3,>=1.0.0; python_version >= \"3.6\"", + "traitlets>=4.3.1", + "widgetsnbextension~=3.6.0", +] + +[[package]] +name = "jaraco.classes" +version = "3.2.2" +requires_python = ">=3.7" +summary = "Utility functions for Python class constructs" +dependencies = [ + "more-itertools", +] + +[[package]] +name = "jedi" +version = "0.18.1" +requires_python = ">=3.6" +summary = "An autocompletion tool for Python that can be used for text editors." +dependencies = [ + "parso<0.9.0,>=0.8.0", +] + +[[package]] +name = "jeepney" +version = "0.8.0" +requires_python = ">=3.7" +summary = "Low-level, pure Python DBus protocol wrapper." + +[[package]] +name = "jinja2" +version = "3.1.2" +requires_python = ">=3.7" +summary = "A very fast and expressive template engine." +dependencies = [ + "MarkupSafe>=2.0", +] + +[[package]] +name = "jmespath" +version = "1.0.1" +requires_python = ">=3.7" +summary = "JSON Matching Expressions" + +[[package]] +name = "json5" +version = "0.9.10" +summary = "A Python implementation of the JSON5 data format." + +[[package]] +name = "jsondiff" +version = "2.0.0" +summary = "Diff JSON and JSON-like structures in Python" + +[[package]] +name = "jsonschema" +version = "4.16.0" +requires_python = ">=3.7" +summary = "An implementation of JSON Schema validation for Python" +dependencies = [ + "attrs>=17.4.0", + "importlib-resources>=1.4.0; python_version < \"3.9\"", + "pkgutil-resolve-name>=1.3.10; python_version < \"3.9\"", + "pyrsistent!=0.17.0,!=0.17.1,!=0.17.2,>=0.14.0", +] + +[[package]] +name = "jupyter-client" +version = "7.2.0" +requires_python = ">=3.7" +summary = "Jupyter protocol implementation and client libraries" +dependencies = [ + "entrypoints", + "jupyter-core>=4.9.2", + "nest-asyncio>=1.5.1", + "python-dateutil>=2.1", + "pyzmq>=17", + "tornado>=5.0", + "traitlets", +] + +[[package]] +name = "jupyter-core" +version = "4.11.1" +requires_python = ">=3.7" +summary = "Jupyter core package. 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sys_platform == \"linux\"", + "pywin32-ctypes!=0.1.0,!=0.1.1; sys_platform == \"win32\"", +] + +[[package]] +name = "kiwisolver" +version = "1.4.4" +requires_python = ">=3.7" +summary = "A fast implementation of the Cassowary constraint solver" + +[[package]] +name = "livereload" +version = "2.6.3" +summary = "Python LiveReload is an awesome tool for web developers" +dependencies = [ + "six", + "tornado; python_version > \"2.7\"", +] + +[[package]] +name = "locket" +version = "1.0.0" +requires_python = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*" +summary = "File-based locks for Python on Linux and Windows" + +[[package]] +name = "lxml" +version = "4.9.1" +requires_python = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, != 3.4.*" +summary = "Powerful and Pythonic XML processing library combining libxml2/libxslt with the ElementTree API." + +[[package]] +name = "markupsafe" +version = "2.1.1" +requires_python = ">=3.7" +summary = "Safely add untrusted strings to HTML/XML markup." + +[[package]] +name = "matplotlib" +version = "3.5.3" +requires_python = ">=3.7" +summary = "Python plotting package" +dependencies = [ + "cycler>=0.10", + "fonttools>=4.22.0", + "kiwisolver>=1.0.1", + "numpy>=1.17", + "packaging>=20.0", + "pillow>=6.2.0", + "pyparsing>=2.2.1", + "python-dateutil>=2.7", +] + +[[package]] +name = "matplotlib-inline" +version = "0.1.6" +requires_python = ">=3.5" +summary = "Inline Matplotlib backend for Jupyter" +dependencies = [ + "traitlets", +] + +[[package]] +name = "mccabe" +version = "0.6.1" +summary = "McCabe checker, plugin for flake8" + +[[package]] +name = "mercantile" +version = "1.2.1" +summary = "Web mercator XYZ tile utilities" +dependencies = [ + "click>=3.0", +] + +[[package]] +name = "mistune" +version = "2.0.4" +summary = "A sane Markdown parser with useful plugins and renderers" + +[[package]] +name = "more-itertools" +version = "8.14.0" +requires_python = ">=3.5" +summary = "More routines for operating on iterables, beyond itertools" + +[[package]] +name = "msgpack" +version = "1.0.4" +summary = "MessagePack serializer" + +[[package]] +name = "multidict" +version = "6.0.2" +requires_python = ">=3.7" +summary = "multidict implementation" + +[[package]] +name = "mypy-extensions" +version = "0.4.3" +summary = "Experimental type system extensions for programs checked with the mypy typechecker." + +[[package]] +name = "nbclassic" +version = "0.4.3" +requires_python = ">=3.7" +summary = "A web-based notebook environment for interactive computing" +dependencies = [ + "Send2Trash>=1.8.0", + "argon2-cffi", + "ipykernel", + "ipython-genutils", + "jinja2", + "jupyter-client>=6.1.1", + "jupyter-core>=4.6.1", + "jupyter-server>=1.8", + "nbconvert>=5", + "nbformat", + "nest-asyncio>=1.5", + "notebook-shim>=0.1.0", + "prometheus-client", + "pyzmq>=17", + "terminado>=0.8.3", + "tornado>=6.1", + "traitlets>=4.2.1", +] + +[[package]] +name = "nbclient" +version = "0.6.8" +requires_python = ">=3.7.0" +summary = "A client library for executing notebooks. Formerly nbconvert's ExecutePreprocessor." +dependencies = [ + "jupyter-client>=6.1.5", + "nbformat>=5.0", + "nest-asyncio", + "traitlets>=5.2.2", +] + +[[package]] +name = "nbconvert" +version = "7.0.0" +requires_python = ">=3.7" +summary = "Converting Jupyter Notebooks" +dependencies = [ + "beautifulsoup4", + "bleach", + "defusedxml", + "importlib-metadata>=3.6; python_version < \"3.10\"", + "jinja2>=3.0", + "jupyter-core>=4.7", + "jupyterlab-pygments", + "lxml", + "markupsafe>=2.0", + "mistune<3,>=2.0.3", + "nbclient>=0.5.0", + "nbformat>=5.1", + "packaging", + "pandocfilters>=1.4.1", + "pygments>=2.4.1", + "tinycss2", + "traitlets>=5.0", +] + +[[package]] +name = "nbformat" +version = "5.4.0" +requires_python = ">=3.7" +summary = "The Jupyter Notebook format" +dependencies = [ + "fastjsonschema", + "jsonschema>=2.6", + "jupyter-core", + "traitlets>=5.1", +] + +[[package]] +name = "nbsphinx" +version = "0.8.9" +requires_python = ">=3.6" +summary = "Jupyter Notebook Tools for Sphinx" 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"numpy>=1.20.0; platform_machine == \"arm64\" and python_version < \"3.10\"", + "numpy>=1.21.0; python_version >= \"3.10\"", + "python-dateutil>=2.7.3", + "pytz>=2017.3", +] + +[[package]] +name = "pandoc" +version = "2.2" +summary = "" + +[[package]] +name = "pandocfilters" +version = "1.5.0" +requires_python = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*" +summary = "Utilities for writing pandoc filters in python" + +[[package]] +name = "parso" +version = "0.8.3" +requires_python = ">=3.6" +summary = "A Python Parser" + +[[package]] +name = "partd" +version = "1.3.0" +requires_python = ">=3.7" +summary = "Appendable key-value storage" +dependencies = [ + "locket", + "toolz", +] + +[[package]] +name = "pathspec" +version = "0.10.1" +requires_python = ">=3.7" +summary = "Utility library for gitignore style pattern matching of file paths." + +[[package]] +name = "pexpect" +version = "4.8.0" +summary = "Pexpect allows easy control of interactive console applications." +dependencies = [ + "ptyprocess>=0.5", +] + +[[package]] +name = "pickleshare" +version = "0.7.5" +summary = "Tiny 'shelve'-like database with concurrency support" + +[[package]] +name = "pillow" +version = "9.2.0" +requires_python = ">=3.7" +summary = "Python Imaging Library (Fork)" + +[[package]] +name = "pip" +version = "22.2.2" +requires_python = ">=3.7" +summary = "The PyPA recommended tool for installing Python packages." + +[[package]] +name = "pkginfo" +version = "1.8.3" +requires_python = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*, !=3.5.*" +summary = "Query metadatdata from sdists / bdists / installed packages." + +[[package]] +name = "pkgutil-resolve-name" +version = "1.3.10" +requires_python = ">=3.6" +summary = "Resolve a name to an object." + +[[package]] +name = "planetary-computer" +version = "0.4.7" +requires_python = ">=3.7" +summary = "Planetary Computer SDK for Python" +dependencies = [ + "click>=7.1", + "pydantic[dotenv]>=1.7.3", + "pystac-client>=0.2.0", + "pystac>=1.0.0", + "pytz>=2020.5", + "requests>=2.25.1", +] + +[[package]] +name = "platformdirs" +version = "2.5.2" +requires_python = ">=3.7" +summary = "A small Python module for determining appropriate platform-specific dirs, e.g. a \"user data dir\"." + +[[package]] +name = "pluggy" +version = "1.0.0" +requires_python = ">=3.6" +summary = "plugin and hook calling mechanisms for python" + +[[package]] +name = "prometheus-client" +version = "0.14.1" +requires_python = ">=3.6" +summary = "Python client for the Prometheus monitoring system." + +[[package]] +name = "prompt-toolkit" +version = "3.0.31" +requires_python = ">=3.6.2" +summary = "Library for building powerful interactive command lines in Python" +dependencies = [ + "wcwidth", +] + +[[package]] +name = "psutil" +version = "5.9.2" +requires_python = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*" +summary = "Cross-platform lib for process and system monitoring in Python." + +[[package]] +name = "ptyprocess" +version = "0.7.0" +summary = "Run a 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+[[package]] +name = "python-dotenv" +version = "0.21.0" +requires_python = ">=3.7" +summary = "Read key-value pairs from a .env file and set them as environment variables" + +[[package]] +name = "pytz" +version = "2022.2.1" +summary = "World timezone definitions, modern and historical" + +[[package]] +name = "pywin32" +version = "304" +summary = "Python for Window Extensions" + +[[package]] +name = "pywin32-ctypes" +version = "0.2.0" +summary = "UNKNOWN" + +[[package]] +name = "pywinpty" +version = "2.0.7" +requires_python = ">=3.7" +summary = "Pseudo terminal support for Windows from Python." + +[[package]] +name = "pyyaml" +version = "6.0" +requires_python = ">=3.6" +summary = "YAML parser and emitter for Python" + +[[package]] +name = "pyzmq" +version = "23.2.1" +requires_python = ">=3.6" +summary = "Python bindings for 0MQ" +dependencies = [ + "cffi; implementation_name == \"pypy\"", + "py; implementation_name == \"pypy\"", +] + +[[package]] +name = "rasterio" +version = "1.3.2" 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"Bottleneck", - "coiled", - "distributed", - "geogif", - "ipyleaflet", - "ipywidgets", - "jupyterlab-geojson", - "jupyter-server-proxy", - "jupyterlab-system-monitor", - "matplotlib", - "planetary-computer", - "pystac-client", - "sat-search", + "Bottleneck>=1.3.2", + "coiled>=0.2.27", + "geogif>=0", + "jupyter-server-proxy>=3.2.0", + "jupyterlab-geojson>=3.1.2", + "jupyterlab-system-monitor>=0.8.0", + "planetary-computer>=0.4.3", + "pystac-client>=0.3", + "sat-search>=0.3.0", + "dask-labextension>=5.0.1", + "jupyterlab>=3.0.14", ] docs = [ - "furo", - "ipyleaflet", - "ipython", - "jupyter-sphinx", - "nbsphinx", - "numpydoc", - "pandoc", - "sphinx-autodoc-typehints", - "Sphinx", + "Sphinx<6.0.0,>=5.0.2", + "furo<2023.0.0.0,>=2022.6.21", + "ipython<8.0.0,>=7.20.0", + "jupyter-sphinx<1.0.0,>=0.4.0", + "nbsphinx<1.0.0,>=0.8.9", + "numpydoc<2.0.0,>=1.4.0", + "pandoc<3.0.0,>=2.2", + "sphinx-autodoc-typehints<2.0.0,>=1.18.3", + "sphinx-paramlinks>=0.5.4", ] -viz = [ - "aiohttp", - "cachetools", - "distributed", - "ipyleaflet", - "jupyter-server-proxy", - "matplotlib", - "mercantile", - "Pillow", - "scipy", +style = [ + "flake8<5.0.0,>=4.0.1", + "black<23.0.0,>=22.3.0", +] +test = [ + "hypothesis<7.0.0,>=6.35.0", + "pytest<7.0.0,>=6.2.5", +] +util = [ + "py-spy", + "pystac>=1", + "scheduler-profilers @ git+https://github.com/gjoseph92/scheduler-profilers.git@main", + "graphviz>=0.16", + "snakeviz>=2.1.0", + "sphinx-autobuild>=2021.3.14", + "twine>=3.4.1", ] [build-system] -build-backend = "poetry.core.masonry.api" -requires = ["poetry-core>=1.0.0"] +build-backend = "pdm.pep517.api" +requires = ["pdm-pep517"] diff --git a/pyrightconfig.json b/pyrightconfig.json new file mode 100644 index 0000000..13dffc1 --- /dev/null +++ b/pyrightconfig.json @@ -0,0 +1,6 @@ +{ + "exclude": [ + "__pypackages__", + ".venv" + ] +} \ No newline at end of file diff --git a/scripts/coiled-envs.py b/scripts/coiled-envs.py index 5a141be..bd5f4da 100644 --- a/scripts/coiled-envs.py +++ b/scripts/coiled-envs.py @@ -35,7 +35,7 @@ def run(cmd: str, **kwargs) -> str: f"senv version {version[:2]} does not match interpreter version {sys.version_info[:2]}" ) - deps = run("poetry export --without-hashes -E binder -E viz").splitlines() + deps = run("pdm export --without-hashes --format requirements -G binder -G viz").splitlines() if dev: subprocess.run("git fetch", shell=True, check=True) diff --git a/stackstac/geom_utils.py b/stackstac/geom_utils.py index ecd43fd..b625a4b 100644 --- a/stackstac/geom_utils.py +++ b/stackstac/geom_utils.py @@ -27,9 +27,7 @@ def bounds_from_affine( ys = [ul_y, ll_y, lr_y, ur_y] if from_epsg != to_epsg: - transformer = cached_transformer( - from_epsg, to_epsg, skip_equivalent=True, always_xy=True - ) + transformer = cached_transformer(from_epsg, to_epsg, always_xy=True) # TODO handle error xs_proj, ys_proj = transformer.transform(xs, ys, errcheck=True) else: @@ -50,9 +48,7 @@ def reproject_bounds(bounds: Bbox, from_epsg: int, to_epsg: int) -> Bbox: # read this in pairs, downward by column xs = [minx, minx, maxx, maxx] ys = [maxy, miny, miny, maxy] - transformer = cached_transformer( - from_epsg, to_epsg, skip_equivalent=True, always_xy=True - ) + transformer = cached_transformer(from_epsg, to_epsg, always_xy=True) xs_proj, ys_proj = transformer.transform(xs, ys, errcheck=True) # TODO handle error return min(xs_proj), min(ys_proj), max(xs_proj), max(ys_proj) @@ -288,9 +284,7 @@ def reproject_array( # We do this by, for each point in the output grid, generating # the coordinates in the _input_ CRS that correspond to that point. - reverse_transformer = cached_transformer( - spec.epsg, from_epsg, skip_equivalent=True, always_xy=True - ) + reverse_transformer = cached_transformer(spec.epsg, from_epsg, always_xy=True) xs, ys = np.meshgrid(x, y, copy=False) src_xs, src_ys = reverse_transformer.transform(xs, ys, errcheck=True) diff --git a/stackstac/prepare.py b/stackstac/prepare.py index faa00ef..1889f91 100644 --- a/stackstac/prepare.py +++ b/stackstac/prepare.py @@ -279,7 +279,7 @@ def prepare_items( ) transformer = geom_utils.cached_transformer( - asset_epsg, out_epsg, skip_equivalent=True, always_xy=True + asset_epsg, out_epsg, always_xy=True ) out_px_corner_xs, out_px_corner_ys = transformer.transform( px_corner_xs, px_corner_ys, errcheck=True diff --git a/stackstac/stac_types.py b/stackstac/stac_types.py index 2fc3086..738c4c5 100644 --- a/stackstac/stac_types.py +++ b/stackstac/stac_types.py @@ -16,7 +16,6 @@ Tuple, TypedDict, Union, - cast, ) possible_problems: list[str] = [] @@ -134,7 +133,11 @@ class ItemDict(TypedDict): ] -def items_to_plain(items: Union[ItemCollectionIsh, ItemIsh]) -> ItemSequence: +def items_to_plain( + items: Union[ + ItemCollectionIsh, ItemIsh, Sequence[PystacItem], Sequence[SatstacItem] + ] +) -> ItemSequence: """ Convert something like a collection/Catalog of STAC items into a list of plain dicts @@ -149,10 +152,24 @@ def items_to_plain(items: Union[ItemCollectionIsh, ItemIsh]) -> ItemSequence: if isinstance(items, Sequence): # slicing a satstac `ItemCollection` produces a list, not another `ItemCollection`, # so having a `List[SatstacItem]` is quite possible - try: - return [item._data for item in cast(SatstacItemCollection, items)] - except AttributeError: - return items + results = [] + for item in items: + if isinstance(item, PystacItem): + results.append(item.to_dict()) + elif isinstance(item, SatstacItem): + results.append(item._data) + elif isinstance(item, dict): + results.append(item) + else: + raise TypeError( + f"Unrecognized STAC item type {type(item)}: {item!r}" + + ( + "\n".join(["\nPossible problems:"] + possible_problems) + if possible_problems + else "" + ) + ) + return results if isinstance(items, SatstacItem): return [items._data] diff --git a/stackstac/stack.py b/stackstac/stack.py index 6ab51e0..13f3368 100644 --- a/stackstac/stack.py +++ b/stackstac/stack.py @@ -13,12 +13,20 @@ from .reader_protocol import Reader from .rio_env import LayeredEnv from .rio_reader import AutoParallelRioReader -from .stac_types import ItemCollectionIsh, ItemIsh, items_to_plain +from .stac_types import ( + ItemCollectionIsh, + ItemIsh, + PystacItem, + SatstacItem, + items_to_plain, +) from .to_dask import items_to_dask, ChunksParam def stack( - items: Union[ItemCollectionIsh, ItemIsh], + items: Union[ + ItemCollectionIsh, ItemIsh, Sequence[PystacItem], Sequence[SatstacItem] + ], assets: Optional[Union[List[str], AbstractSet[str]]] = frozenset( ["image/tiff", "image/x.geotiff", "image/vnd.stac.geotiff", "image/jp2"] ), @@ -309,5 +317,5 @@ def stack( band_coords=band_coords, ), attrs=to_attrs(spec), - name="stackstac-" + dask.base.tokenize(arr) + name="stackstac-" + dask.base.tokenize(arr), ) diff --git a/stackstac/tests/test_stac_types.py b/stackstac/tests/test_stac_types.py index cc635f8..f774b63 100644 --- a/stackstac/tests/test_stac_types.py +++ b/stackstac/tests/test_stac_types.py @@ -9,6 +9,87 @@ from stackstac import stac_types +satstac_itemcollection = satstac.itemcollection.ItemCollection( + [ + satstac.item.Item( + {"id": "foo"}, + ), + satstac.item.Item( + {"id": "bar"}, + ), + ] +) + + +pystac_catalog = pystac.Catalog("foo", "bar") +pystac_catalog.add_items( + [ + pystac.Item("foo", None, None, datetime(2000, 1, 1), {}), + pystac.Item("bar", None, None, datetime(2001, 1, 1), {}), + ] +) +pystac_foo_dict = { + k: v + for k, v in pystac_catalog.get_item("foo").to_dict().items() + if k + in ( + "type", + "stac_version", + "id", + "properties", + "geometry", + "href", + "assets", + "stac_extensions", + ) +} +pystac_bar_dict = { + k: v + for k, v in pystac_catalog.get_item("bar").to_dict().items() + if k + in ( + "type", + "stac_version", + "id", + "properties", + "geometry", + "assets", + "stac_extensions", + ) +} + + +@pytest.mark.parametrize( + "input, expected", + [ + ({"id": "foo"}, [{"id": "foo"}]), + ([{"id": "foo"}, {"id": "bar"}], [{"id": "foo"}, {"id": "bar"}]), + # satstac, + (satstac_itemcollection[0], [{"id": "foo"}]), + (satstac_itemcollection, [{"id": "foo"}, {"id": "bar"}]), + (satstac_itemcollection[:], [{"id": "foo"}, {"id": "bar"}]), + # pystac, + (pystac_catalog.get_item("foo"), [pystac_foo_dict]), + ( + pystac.ItemCollection(pystac_catalog.get_all_items()), + [pystac_foo_dict, pystac_bar_dict], + ), + ( + pystac_catalog, + [pystac_foo_dict, pystac_bar_dict], + ), + (list(pystac_catalog.get_all_items()), [pystac_foo_dict, pystac_bar_dict]), + ], +) +def test_basic(input, expected): + results = stac_types.items_to_plain(input) + assert isinstance(results, list) + assert len(results) == len(expected) + for result, exp in zip(results, expected): + # Only check fields stackstac actually cares about (we don't use the `link` field, for example) + subset = {k: v for k, v in result.items() if k in exp} + assert subset == exp + def test_normal_case(): assert stac_types.SatstacItem is satstac.item.Item @@ -31,6 +112,9 @@ def test_missing_satstac(monkeypatch: pytest.MonkeyPatch): assert "stackstac" in reloaded_stac_types.SatstacItemCollection.__module__ assert not reloaded_stac_types.possible_problems + # clean things up for other tests + monkeypatch.undo() + importlib.reload(stac_types) def test_missing_pystac(monkeypatch: pytest.MonkeyPatch): @@ -44,6 +128,9 @@ def test_missing_pystac(monkeypatch: pytest.MonkeyPatch): assert "stackstac" in reloaded_stac_types.PystacItemCollection.__module__ assert not reloaded_stac_types.possible_problems + # clean things up for other tests + monkeypatch.undo() + importlib.reload(stac_types) @pytest.mark.parametrize( @@ -52,26 +139,26 @@ def test_missing_pystac(monkeypatch: pytest.MonkeyPatch): ( satstac, "item.Item", - satstac.item.Item( - {"id": "foo"}, - ), + satstac_itemcollection[0], ), ( satstac, "itemcollection.ItemCollection", - satstac.itemcollection.ItemCollection( - [], - ), + satstac_itemcollection, + ), + ( + satstac, + "item.Item", + list(satstac_itemcollection), ), - (pystac, "Item", pystac.Item("foo", None, None, datetime(2000, 1, 1), {})), - (pystac, "Catalog", pystac.Catalog("foo", "bar")), + (pystac, "Item", pystac_catalog.get_item("foo")), + (pystac, "Catalog", pystac_catalog), ( pystac, "ItemCollection", - pystac.ItemCollection( - [], - ), + pystac.ItemCollection([]), ), + (pystac, "Item", list(pystac_catalog.get_all_items())), ], ) def test_unimportable_path( @@ -97,3 +184,7 @@ def test_unimportable_path( with pytest.raises(TypeError, match=f"Your version of `{modname}` is too old"): reloaded_stac_types.items_to_plain(inst) + + # clean things up for other tests + monkeypatch.undo() + importlib.reload(stac_types)