From cc0dcc7afc04933bc732745efb8c79e6c1df0cb0 Mon Sep 17 00:00:00 2001 From: Mostafa Farrag Date: Mon, 19 Dec 2022 21:41:24 +0100 Subject: [PATCH] Migrate to conda (#26) * replace toml file with setup.py and requirements.txt * run pre-commit on all files * pytest-cov v 4.0.0 * refactor * refactor * refactor * refactor --- clone.json | 4 +- conda-lock.yml | 8476 +++++++++++++++++++++++++++++++++++ environment.yml | 22 +- examples/00Basic_rasters.py | 6 +- poetry.lock | 1646 ------- pyproject.toml | 101 - pyramids/catchment.py | 1 + pyramids/raster.py | 9 +- requirements-dev.txt | 12 + requirements.txt | 16 + setup.py | 45 + tests/raster/conftest.py | 2 - 12 files changed, 8569 insertions(+), 1771 deletions(-) create mode 100644 conda-lock.yml delete mode 100644 poetry.lock delete mode 100644 pyproject.toml create mode 100644 requirements-dev.txt create mode 100644 requirements.txt create mode 100644 setup.py diff --git a/clone.json b/clone.json index 013ca7161..bec30a388 100644 --- a/clone.json +++ b/clone.json @@ -1,4 +1,4 @@ { - "message": "Must have push access to repository", - "documentation_url": "https://docs.github.com/rest/metrics/traffic#get-repository-clones" + "message": "Must have push access to repository", + "documentation_url": "https://docs.github.com/rest/metrics/traffic#get-repository-clones" } diff --git a/conda-lock.yml b/conda-lock.yml new file mode 100644 index 000000000..d2f0184c1 --- /dev/null +++ b/conda-lock.yml @@ -0,0 +1,8476 @@ +# This lock file was generated by conda-lock (https://github.com/conda-incubator/conda-lock). DO NOT EDIT! +# +# A "lock file" contains a concrete list of package versions (with checksums) to be installed. Unlike +# e.g. `conda env create`, the resulting environment will not change as new package versions become +# available, unless you explicitly update the lock file. +# +# Install this environment as "YOURENV" with: +# conda-lock install -n YOURENV --file conda-lock.yml +# To update a single package to the latest version compatible with the version constraints in the source: +# conda-lock lock --lockfile conda-lock.yml --update PACKAGE +# To re-solve the entire environment, e.g. after changing a version constraint in the source file: +# conda-lock -f C:\gdrive\01Algorithms\gis\pyramids\environment.yml --lockfile conda-lock.yml +metadata: + channels: + - url: conda-forge + used_env_vars: [] + content_hash: + linux-64: 6700caf0042eae434573a8d5c1d50eabb961c7de93b98b5ccbe74419cf4e1274 + osx-64: af837c28a407b9e0f3f8fada6d43f3b7ff59b525993f6a50b087fcb5bb884107 + win-64: a596980922e61d877eb8a0b56cd1fd9842a76ad8afe6cf33cb2ef6dae2fcbf02 + platforms: + - linux-64 + - osx-64 + - win-64 + sources: 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- -[tool.poetry.scripts] - -[tool.coverage.paths] -source = ["pyramids", "*/site-packages"] - - - - -[tool.coverage.run] -branch = true -source = ["pyramids"] - - -[tool.coverage.report] -show_missing = true -fail_under = 20 - - -[tool.isort] -multi_line_output=3 -include_trailing_comma=true -force_grid_wrap=0 -use_parentheses=true -line_length=88 -ensure_newline_before_comments=true -profile="black" - - -[tool.pytest.ini_options] -minversion = "7.0" -addopts = "-ra -q" -testpaths = [ - "tests", -] - - -[build-system] -requires = ["setuptools", "poetry-core>=1.0.0"] -build-backend = "poetry.core.masonry.api" diff --git a/pyramids/catchment.py b/pyramids/catchment.py index 80cb762a8..d811aba2c 100644 --- a/pyramids/catchment.py +++ b/pyramids/catchment.py @@ -9,6 +9,7 @@ from osgeo import gdal from osgeo.gdal import Dataset from pandas import DataFrame + from pyramids.raster import Raster as raster diff --git a/pyramids/raster.py b/pyramids/raster.py index 6c53be99b..197838398 100644 --- a/pyramids/raster.py +++ b/pyramids/raster.py @@ -18,7 +18,6 @@ from osgeo.gdal import Dataset from rasterio.mask import mask as rio_mask - from pyramids.vector import Vector @@ -161,14 +160,14 @@ def getCellCoords(src: Dataset) -> Tuple[np.ndarray, np.ndarray]: return np.array(coords), np.array(mat_range) @staticmethod - def saveRaster(raster: Dataset, path: str) -> None: + def saveRaster(src: Dataset, path: str) -> None: """saveRaster. saveRaster saves a raster to a path Parameters ---------- - raster: [gdal object] + src: [gdal object] gdal dataset opbject path: [string] a path includng the name of the raster and extention like @@ -184,7 +183,7 @@ def saveRaster(raster: Dataset, path: str) -> None: >>> output_path = "examples/GIS/data/save_raster_test.tif" >>> Raster.saveRaster(gdal_raster_obj, output_path) """ - if not isinstance(raster, gdal.Dataset): + if not isinstance(src, gdal.Dataset): raise TypeError( "raster parameter should be read using gdal dataset please read it using gdal" ) @@ -197,7 +196,7 @@ def saveRaster(raster: Dataset, path: str) -> None: raise ValueError("please add the extension at the end of the path input") driver = gdal.GetDriverByName("GTiff") - dst_ds = driver.CreateCopy(path, raster, 0) + dst_ds = driver.CreateCopy(path, src, 0) dst_ds = None # Flush the dataset to disk # print to go around the assigned but never used pre-commit issue print(dst_ds) diff --git a/requirements-dev.txt b/requirements-dev.txt new file mode 100644 index 000000000..6d9b4a7e8 --- /dev/null +++ b/requirements-dev.txt @@ -0,0 +1,12 @@ +black >=22.8.0 +darglint >=1.8.1 +flake8-bandit >=4.1.1 +flake8-bugbear >=22.9.11 +flake8-docstrings >=1.6.0 +flake8-rst-docstrings >=0.3.0 +pep8-naming >=0.13.2 +pre-commit >=2.20.0 +pre-commit-hooks >=4.3.0 +pytest >=7.1.3 +pytest-cov >= 4.0.0 +reorder-python-imports >=3.8.2 diff --git a/requirements.txt b/requirements.txt new file mode 100644 index 000000000..1a23fb54f --- /dev/null +++ b/requirements.txt @@ -0,0 +1,16 @@ +affine >=2.3.1 +gdal >=3.5.3 +geopandas >=0.12.2 +geopy >=2.2.0 +loguru >=0.6.0 +netCDF4 >=1.6.1 +pandas >=1.4.4 +pip >=22.3.1 +pyproj >=3.4.0 +pytest >=7.1.3 +pytest-cov ==4.0.0 +python >=3.9,<3.15 +rasterio >=1.3.0 +requests >=2.28.1 +Rtree >=1.0.0 +Shapely >=1.8.4,<2 diff --git a/setup.py b/setup.py new file mode 100644 index 000000000..ce67f1fb6 --- /dev/null +++ b/setup.py @@ -0,0 +1,45 @@ +from setuptools import find_packages, setup + +with open("README.md", "r") as readme_file: + readme = readme_file.read() + +with open("HISTORY.rst") as history_file: + history = history_file.read() + +requirements = [line.strip() for line in open("requirements.txt").readlines()] +requirements = requirements[1:] + +requirements_dev = [line.strip() for line in open("requirements-dev.txt").readlines()] + +setup( + name="pyramids-gis", + version="0.2.9", + description="GIS utility package", + author="Mostafa Farrag", + author_email="moah.farag@gmail.come", + url="https://github.com/MAfarrag/pyramids", + keywords=["GIS", "gdal", "rasterio"], + long_description=readme + "\n\n" + history, + repository="https://github.com/MAfarrag/pyramids", + documentation="https://pyramids-gis.readthedocs.io/", + long_description_content_type="text/markdown", + license="GNU General Public License v3", + zip_safe=False, + packages=find_packages(include=["pyramids", "pyramids.*"]), + test_suite="tests", + tests_require=requirements_dev, + install_requires=requirements, + classifiers=[ + "Development Status :: 5 - Production/Stable", + "Environment :: Console", + "License :: OSI Approved :: GNU General Public License v3 (GPLv3)", + "Natural Language :: English", + "Programming Language :: Python :: 3", + "Programming Language :: Python :: 3.7", + "Programming Language :: Python :: 3.8", + "Programming Language :: Python :: 3.9", + "Topic :: Scientific/Engineering :: GIS", + "Intended Audience :: Science/Research", + "Intended Audience :: Developers", + ], +) diff --git a/tests/raster/conftest.py b/tests/raster/conftest.py index 09e1a8dcc..a7c7e5d70 100644 --- a/tests/raster/conftest.py +++ b/tests/raster/conftest.py @@ -1,8 +1,6 @@ import geopandas as gpd import numpy as np import pytest - -# import datetime as dt from osgeo import gdal from osgeo.gdal import Dataset