Upgrade to PEP660

.github/workflows/build-sphinx-no-deploy.yml

@@ -16,7 +16,7 @@ jobs:
       - uses: mamba-org/setup-micromamba@v1
         with:
           generate-run-shell: true
-          environment-file: requirements.yml
+          environment-file: environment.yml
           create-args: >-
             python=3.10
             pillow

.github/workflows/build-sphinx.yml

@@ -16,7 +16,7 @@ jobs:
       - uses: mamba-org/setup-micromamba@v1
         with:
           generate-run-shell: true
-          environment-file: requirements.yml
+          environment-file: environment.yml
           create-args: >-
             python=3.9
             pillow

.github/workflows/build-test.yml

@@ -27,7 +27,7 @@ jobs:
       - uses: mamba-org/setup-micromamba@v1
         with:
           generate-run-shell: true
-          environment-file: requirements.yml
+          environment-file: environment.yml
           create-args: >-
             python=${{ matrix.python-version }}
 

.github/workflows/publish-pypi.yml

@@ -19,7 +19,7 @@ jobs:
       - uses: mamba-org/setup-micromamba@v1
         with:
           generate-run-shell: true
-          environment-file: requirements.yml
+          environment-file: environment.yml
           create-args: >-
             python=3.10
 
@@ -28,13 +28,13 @@ jobs:
           conda info -a
           conda list
 
-      - name: Create sdist
+      - name: Create sdist and wheel
         run: |
-          python setup.py check
-          python setup.py sdist
+          python -m pip install --upgrade pip build
+          python -m build
 
       - name: Publish Package
-        uses: pypa/gh-action-pypi-publish@master
+        uses: pypa/gh-action-pypi-publish@release/v1
         with:
           user: __token__
           password: ${{ secrets.pypi_upload_token }}

MANIFEST.in

@@ -2,7 +2,7 @@ include README.md
 include CONTRIBUTING.md
 include CODE_OF_CONDUCT.md
 include Dockerfile
-include LICENSE.txt
+include LICENSE
 include CHANGELOG.md
 include CREDITS.md
 include codemeta.json
@@ -23,8 +23,5 @@ global-exclude .git*
 global-exclude *.pyc
 global-exclude *.html
 global-exclude *.so
-global-exclude *.xls
-global-exclude *.xlsm
-global-exclude *.xlsx
 global-exclude *~
 global-exclude .DS_Store

README.md

@@ -89,4 +89,4 @@ Development of pyCSEP is a group effort. A list of developers that have contribu
 are listed in the [credits](CREDITS.md) file in this repository.
 
 # License:
-The pyCSEP software is distributed under the BSD 3-Clause open-source license. Please see the [license](LICENSE.txt) file for more information.
+The pyCSEP software is distributed under the BSD 3-Clause open-source license. Please see the [license](LICENSE) file for more information.

csep/__init__.py

@@ -2,18 +2,22 @@
 import os
 import time
 
-from csep._version import __version__
-from csep.core import catalog_evaluations
-from csep.core import catalogs
 from csep.core import forecasts
+from csep.core import catalogs
 from csep.core import poisson_evaluations
+from csep.core import catalog_evaluations
 from csep.core import regions
-from csep.core.exceptions import CSEPCatalogException
-from csep.core.forecasts import GriddedForecast, CatalogForecast
 from csep.core.repositories import (
     load_json,
     write_json
 )
+
+from csep.core.exceptions import CSEPCatalogException
+
+from csep.utils import datasets
+from csep.utils import readers
+
+from csep.core.forecasts import GriddedForecast, CatalogForecast
 from csep.models import (
     EvaluationResult,
     CatalogNumberTestResult,
@@ -22,8 +26,7 @@
     CatalogPseudolikelihoodTestResult,
     CalibrationTestResult
 )
-from csep.utils import datasets
-from csep.utils import readers
+
 from csep.utils.time_utils import (
     utc_now_datetime,
     strptime_to_utc_datetime,
@@ -32,6 +35,13 @@
     utc_now_epoch
 )
 
+from importlib.metadata import version as _pkg_version, PackageNotFoundError
+
+try:
+    __version__ = _pkg_version("pycsep")
+except PackageNotFoundError:
+    __version__ = "0+unknown"
+
 # this defines what is imported on a `from csep import *`
 __all__ = [
     'load_json',
@@ -75,8 +85,8 @@ def load_stochastic_event_sets(filename, type='csv', format='native',
         (generator): :class:`~csep.core.catalogs.AbstractBaseCatalog`
 
     """
-    if type not in ('ucerf3', 'csv'):
-        raise ValueError("type must be one of the following: (ucerf3)")
+    if type not in ('ucerf3', 'csv', 'csep'):
+        raise ValueError("type must be one of the following: (ucerf3, csv, csep)")
 
     # use mapping to dispatch to correct function
     # in general, stochastic event sets are loaded with classmethods and single catalogs use the
@@ -100,7 +110,7 @@ def load_stochastic_event_sets(filename, type='csv', format='native',
         elif format == 'csep':
             yield catalog.get_csep_format()
         else:
-            raise ValueError('format must be either "native" or "csep!')
+            raise ValueError('format must be either "native" or "csep!"')
 
 
 def load_catalog(filename, type='csep-csv', format='native', loader=None,

docs/getting_started/installing.rst

@@ -60,7 +60,7 @@ If you don't have ``conda`` on your machine, download and install `Miniconda <ht
 
     git clone https://github.com/SCECcode/pycsep
     cd pycsep
-    conda env create -f requirements.yml
+    conda env create -f environment.yml
     conda activate csep-dev
     # Installs in editor mode with all dependencies
     pip install -e .
@@ -79,7 +79,7 @@ follow these instructions: ::
     python -m virtualenv venv
     source venv/bin/activate
     # Installs in editor mode dependencies are installed by conda
-    pip install -e .[all]
+    pip install -e .
 
 Note: If you want to go back to your default environment use the command ``deactivate``.
 
@@ -92,9 +92,9 @@ We recommend using ``conda`` to install the development environment. ::
 
     git clone https://github.com/<YOUR_GITHUB_USERNAME>/pycsep.git
     cd pycsep
-    conda env create -f requirements.yml
+    conda env create -f environment.yml
     conda activate csep-dev
-    pip install -e .[all]
+    pip install -e .[dev]
     # Allow sync with default repository
     git remote add upstream https://github.com/SCECCode/pycsep.git
 

requirements.yml → environment.yml

@@ -3,7 +3,7 @@ channels:
   - conda-forge
   - defaults
 dependencies:
-  - python>=3.7
+  - pip
   - numpy
   - pandas
   - scipy

pyproject.toml

@@ -0,0 +1,71 @@
+[build-system]
+requires = ["setuptools>=69", "wheel", "build", "setuptools-scm>=8"]
+build-backend = "setuptools.build_meta"
+
+[project]
+name = "pycsep"
+dynamic = ["version"]              # <— version comes from SCM
+description = "Python tools from the Collaboratory for the Study of Earthquake Predictability"
+readme = "README.md"
+requires-python = ">=3.9"
+license = { file = "LICENSE" }
+authors = [{ name = "William Savran", email = "[email protected]" }]
+urls = { "Homepage" = "https://github.com/SCECCode/pycsep" }
+
+dependencies = [
+  "numpy",
+  "scipy",
+  "pandas",
+  "matplotlib",
+  "cartopy",
+  "obspy",
+  "pyproj",
+  "python-dateutil",
+  "rasterio",
+  "mercantile",
+  "shapely",
+]
+
+[project.optional-dependencies]
+dev  = ["pytest", "vcrpy", "pytest-cov", "sphinx", "sphinx-gallery", "sphinx-rtd-theme", "pillow", "tox"]
+
+[tool.setuptools]
+include-package-data = true
+
+[tool.setuptools.packages.find]
+where = ["."]
+include = ["csep*"]
+
+[tool.setuptools_scm]
+version_scheme = "post-release"
+
+[tool.tox]
+min_version = "4.0"
+env_list = ["py39", "py310", "py311", "py312"]
+skip_missing_interpreters = true
+
+[tool.tox.requires]
+requires = ["tox-conda>=0.10"]
+
+[tool.tox.env.py]
+package = "wheel"
+wheel_build_env = ".pkg"
+extras = ["dev"]
+conda_channels = ["conda-forge"]
+conda_deps = [
+  "python",
+  "numpy",
+  "pandas",
+  "scipy",
+  "matplotlib",
+  "pyproj",
+  "obspy",
+  "python-dateutil",
+  "cartopy",
+  "shapely",
+  "rasterio",
+  "mercantile"
+]
+set_env = { MPLBACKEND = "Agg" }
+pass_env = ["PYTEST_ADDOPTS"]
+commands = ["pytest --basetemp={envtmpdir}"]