axsdb 0.0.2__tar.gz → 0.0.3__tar.gz

{axsdb-0.0.2 → axsdb-0.0.3}/.github/workflows/ci.yml

@@ -34,10 +34,10 @@ jobs:
 
     steps:
       - name: Checkout
-        uses: actions/checkout@v4
+        uses: actions/checkout@v6
 
       - name: Setup uv
-        uses: astral-sh/setup-uv@v6
+        uses: astral-sh/setup-uv@v7
 
       - name: Pin active Python
         run: uv python pin ${{ matrix.python-version }}
@@ -49,7 +49,7 @@ jobs:
         run: uv run coverage run -m pytest
 
       - name: Upload coverage data
-        uses: actions/upload-artifact@v4
+        uses: actions/upload-artifact@v6
         with:
           name: coverage-data-${{ matrix.python-version }}
           path: .coverage.*
@@ -62,8 +62,8 @@ jobs:
     runs-on: ubuntu-latest
     needs: tests
     steps:
-      - uses: actions/checkout@v4
-      - uses: actions/setup-python@v5
+      - uses: actions/checkout@v6
+      - uses: actions/setup-python@v6
         with:
           # Use latest, so it understands all syntax.
           python-version: "3.13"
@@ -71,7 +71,7 @@ jobs:
       - run: python -m pip install --upgrade coverage[toml]
 
       - name: Download coverage data
-        uses: actions/download-artifact@v4
+        uses: actions/download-artifact@v7
         with:
           pattern: coverage-data-*
           merge-multiple: true
@@ -92,7 +92,7 @@ jobs:
           echo '```' >> $GITHUB_STEP_SUMMARY
 
       - name: Upload HTML report
-        uses: actions/upload-artifact@v4
+        uses: actions/upload-artifact@v6
         with:
           name: html-report
           path: reports/coverage/html

{axsdb-0.0.2 → axsdb-0.0.3}/.github/workflows/release.yml

@@ -11,7 +11,7 @@ jobs:
     runs-on: ubuntu-latest
 
     steps:
-      - uses: actions/checkout@v4
+      - uses: actions/checkout@v6
 
       - name: Get current git tag
         id: tag
@@ -35,7 +35,7 @@ jobs:
           fi
 
       - name: Setup uv
-        uses: astral-sh/setup-uv@v6
+        uses: astral-sh/setup-uv@v7
 
       - name: Build wheels
         run: |
@@ -49,7 +49,7 @@ jobs:
           fresh_env/bin/python -c "import axsdb; print(axsdb.__version__)"
 
       - name: Store distribution packages
-        uses: actions/upload-artifact@v4
+        uses: actions/upload-artifact@v6
         with:
           name: python-package-distributions
           path: dist/
@@ -69,7 +69,7 @@ jobs:
 #
 #    steps:
 #      - name: Download all the dists
-#        uses: actions/download-artifact@v4
+#        uses: actions/download-artifact@v7
 #        with:
 #          name: python-package-distributions
 #          path: dist/
@@ -94,7 +94,7 @@ jobs:
 
     steps:
       - name: Download all the dists
-        uses: actions/download-artifact@v4
+        uses: actions/download-artifact@v7
         with:
           name: python-package-distributions
           path: dist/

{axsdb-0.0.2 → axsdb-0.0.3}/.gitignore

@@ -11,3 +11,6 @@ wheels/
 docs/_build/
 .idea/
 .coverage
+
+# Benchmark results
+.benchmarks/

axsdb-0.0.3/.python-version

@@ -0,0 +1 @@
+3.11

{axsdb-0.0.2 → axsdb-0.0.3}/PKG-INFO

@@ -1,16 +1,18 @@
 Metadata-Version: 2.4
 Name: axsdb
-Version: 0.0.2
+Version: 0.0.3
 Summary: An absorption database reader for the Eradiate radiative transfer model.
 Author-email: Vincent Leroy <vincent.leroy@rayference.eu>
 Requires-Python: >=3.9
 Requires-Dist: attrs
 Requires-Dist: cachetools
 Requires-Dist: netcdf4
+Requires-Dist: numba<0.63,>=0.58; sys_platform == 'darwin' and platform_machine == 'x86_64'
+Requires-Dist: numba>=0.58; sys_platform != 'darwin' or platform_machine != 'x86_64'
 Requires-Dist: pint
 Requires-Dist: scipy
 Requires-Dist: typer
-Requires-Dist: xarray
+Requires-Dist: xarray>=2024.7.0
 Description-Content-Type: text/markdown
 
 # AxsDB — The Eradiate Absorption Cross-section Database Interface
@@ -21,10 +23,10 @@ Description-Content-Type: text/markdown
 [![uv](https://img.shields.io/endpoint?url=https://raw.githubusercontent.com/astral-sh/uv/main/assets/badge/v0.json)](https://github.com/astral-sh/uv)
 [![ruff](https://img.shields.io/endpoint?url=https://raw.githubusercontent.com/astral-sh/ruff/main/assets/badge/v2.json)](https://github.com/astral-sh/ruff)
 
-This library provides an interface to read and
-query [Eradiate](https://eradiate.eu)'s absorption databases.
+This library provides an interface to read and query the absorption databases
+of the [Eradiate radiative transfer model](https://eradiate.eu).
 
 ## License
 
-The Eradiate Absorption Database Reader is distributed under the terms of the
+AxsDB is distributed under the terms of the
 [GNU Lesser General Public License v3.0](https://choosealicense.com/licenses/lgpl-3.0/).

{axsdb-0.0.2 → axsdb-0.0.3}/README.md

@@ -6,10 +6,10 @@
 [![uv](https://img.shields.io/endpoint?url=https://raw.githubusercontent.com/astral-sh/uv/main/assets/badge/v0.json)](https://github.com/astral-sh/uv)
 [![ruff](https://img.shields.io/endpoint?url=https://raw.githubusercontent.com/astral-sh/ruff/main/assets/badge/v2.json)](https://github.com/astral-sh/ruff)
 
-This library provides an interface to read and
-query [Eradiate](https://eradiate.eu)'s absorption databases.
+This library provides an interface to read and query the absorption databases
+of the [Eradiate radiative transfer model](https://eradiate.eu).
 
 ## License
 
-The Eradiate Absorption Database Reader is distributed under the terms of the
+AxsDB is distributed under the terms of the
 [GNU Lesser General Public License v3.0](https://choosealicense.com/licenses/lgpl-3.0/).

axsdb-0.0.3/TODO.md

@@ -0,0 +1,7 @@
+# AxsDB TODO list
+
+- Interpolation
+  - [ ] Consider parallel execution for independent dimension groups
+  - [ ] Investigate numba parallel option for gufuncs
+  - [ ] Cache compiled numba functions more aggressively
+  - [ ] Consider supporting additional interpolation methods (nearest, cubic)

axsdb-0.0.3/benchmarks/benchmark_interp_dataarray.py

@@ -0,0 +1,118 @@
+"""
+Realistic thermophysical profile interpolation.
+
+This benchmark mimics the actual AxsDB use case: interpolating absorption
+coefficients from a (x_CO2, x_H2O, x_O3, p, t, g) grid to a vertical profile of
+z altitude levels.
+"""
+
+import numpy as np
+import xarray as xr
+import pytest
+from axsdb.interpolation import interp_dataarray
+from scipy.special import roots_sh_legendre
+
+
+Z_LEVELS = [121, 1201, 12001]
+
+
+@pytest.fixture(scope="module", params=Z_LEVELS)
+def setup(request):
+    rng = np.random.default_rng(seed=42)
+    z_levels = request.param
+
+    # Create synthetic thermoprops dataset
+    thermoprops = xr.Dataset(
+        {
+            "t": ("z", np.linspace(210, 330, z_levels)),
+            "p": ("z", np.logspace(np.log10(200), np.log10(50000), z_levels)),
+            "x_H2O": (
+                "z",
+                np.logspace(np.log10(1.0e-6), np.log10(9.0e-5), z_levels),
+            ),
+            "x_O3": (
+                "z",
+                np.logspace(np.log10(5.0e-10), np.log10(7.84e-6), z_levels),
+            ),
+            "x_CO2": ("z", np.linspace(3.5e-5, 3.3e-4, z_levels)),
+        },
+        coords={"z": np.linspace(0, 120, z_levels)},
+    )
+
+    # Create synthetic sigma_a DataArray
+    da = xr.DataArray(
+        rng.uniform(0, 1, (2, 4, 2, 16, 8, 32)),
+        dims=["x_CO2", "x_H2O", "x_O3", "p", "t", "g"],
+        coords={
+            "x_CO2": [0.0, 5.0e-4],
+            "x_H2O": [0.0, 1.0e-6, 1.0e-5, 1.0e-4],
+            "x_O3": [0.0, 1.0e-5],
+            "p": np.logspace(2, 5, 16),
+            "t": np.linspace(200, 340, 8),
+            "g": np.linspace(0, 1, 32),
+        },
+    )
+
+    # Build interpolation coordinate list
+    dims_coords = [
+        ("g", roots_sh_legendre(16)[0]),
+        ("t", thermoprops["t"]),
+        ("p", thermoprops["p"]),
+        ("x_H2O", thermoprops["x_H2O"]),
+        ("x_O3", thermoprops["x_O3"]),
+        ("x_CO2", thermoprops["x_CO2"]),
+    ]
+
+    interp_kwargs = {
+        "method": "linear",
+        "assume_sorted": True,
+        "kwargs": {"bounds_error": False, "fill_value": None},
+    }
+
+    yield {
+        "thermoprops": thermoprops,
+        "da": da,
+        "dims_coords": dims_coords,
+        "interp_kwargs": interp_kwargs,
+    }
+
+
+class BenchmarkInterpDataArrayThermophysical:
+    def time_custom(self, da, dims_coords):
+        coords_dict = {}
+        for dim, coords in dims_coords:
+            if dim in da.dims:
+                if isinstance(coords, xr.DataArray):
+                    coords_dict[dim] = coords
+                else:
+                    coords_dict[dim] = np.asarray(coords)
+
+        interp_dataarray(da, coords_dict, bounds="clamp")
+
+    def benchmark_time_custom(self, setup, benchmark):
+        benchmark(self.time_custom, setup["da"], setup["dims_coords"])
+
+    def time_xarray_sequential(self, da, dims_coords, interp_kwargs):
+        result = da
+        for dim, coords in dims_coords:
+            if dim in result.dims:
+                result = result.interp({dim: coords}, **interp_kwargs)
+
+    def benchmark_time_xarray_sequential(self, setup, benchmark):
+        benchmark(
+            self.time_xarray_sequential,
+            setup["da"],
+            setup["dims_coords"],
+            setup["interp_kwargs"],
+        )
+
+    def time_xarray_multi(self, da, dims_coords, interp_kwargs):
+        da.interp(dict(dims_coords), **interp_kwargs)
+
+    def benchmark_time_xarray_multi(self, setup, benchmark):
+        benchmark(
+            self.time_xarray_multi,
+            setup["da"],
+            setup["dims_coords"],
+            setup["interp_kwargs"],
+        )

axsdb-0.0.3/benchmarks/benchmark_query.py

@@ -0,0 +1,86 @@
+"""
+Practical usage benchmark.
+
+This benchmark simulates usage of AxsDB in actual conditions and performs
+evaluations for an atmospheric profile with various resolutions.
+"""
+
+from itertools import product
+
+import numpy as np
+import pytest
+
+from axsdb import ErrorHandlingConfiguration
+from axsdb.testing.fixtures import *  # noqa: F403
+from axsdb.units import ureg
+
+WGS = {
+    "scalar_g": ([350.0] * ureg.nm, 0.5),
+    # "vector_g": (
+    #     [350.0] * ureg.nm,
+    #     [
+    #         0.00529953,
+    #         0.02771249,
+    #         0.0671844,
+    #         0.1222978,
+    #         0.19106188,
+    #         0.27099161,
+    #         0.35919822,
+    #         0.45249375,
+    #         0.54750625,
+    #         0.64080178,
+    #         0.72900839,
+    #         0.80893812,
+    #         0.8777022,
+    #         0.9328156,
+    #         0.97228751,
+    #         0.99470047,
+    #     ],
+    # ),
+}
+Z_LEVELS = [121, 1201, 12001]
+
+
+@pytest.fixture(
+    params=list(product(WGS.values(), Z_LEVELS)),
+    ids=[f"{wg}-{z_levels}" for wg, z_levels in product(WGS.keys(), Z_LEVELS)],
+)
+def setup_ckd(
+    request,
+    thermoprops_us_standard,
+    absdb_ckd,
+    absorption_database_error_handler_config,
+):
+    wg, z_levels = request.param
+
+    # Resample thermoprops to requested number of z-levels
+    z_new = np.linspace(
+        thermoprops_us_standard["z"].values.min(),
+        thermoprops_us_standard["z"].values.max(),
+        z_levels,
+    )
+    thermoprops = thermoprops_us_standard.interp(z=z_new)
+
+    yield {
+        "wg": wg,
+        "thermoprops": thermoprops,
+        "absdb": absdb_ckd,
+        "error_handler_config": ErrorHandlingConfiguration.convert(
+            absorption_database_error_handler_config
+        ),
+    }
+
+
+class BenchmarkEval:
+    def eval_ckd(self, wg, absdb, thermoprops, error_handler_config):
+        return absdb.eval_sigma_a_ckd(
+            *wg, thermoprops=thermoprops, error_handling_config=error_handler_config
+        )
+
+    def benchmark_eval(self, setup_ckd, benchmark):
+        wg = setup_ckd["wg"]
+        absdb = setup_ckd["absdb"]
+        thermoprops = setup_ckd["thermoprops"]
+        error_handler_config = setup_ckd["error_handler_config"]
+
+        benchmark(self.eval_ckd, wg, absdb, thermoprops, error_handler_config)

axsdb-0.0.3/benchmarks/pytest.ini

@@ -0,0 +1,7 @@
+[pytest]
+python_files = benchmark_*.py
+python_functions = benchmark_*
+python_classes = Benchmark*
+addopts =
+    --benchmark-enable
+    --benchmark-columns=mean,stddev

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@@ -0,0 +1,312 @@
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