Ignore xgcm warnings

.github/workflows/test.yaml

@@ -17,7 +17,7 @@ jobs:
       fail-fast: false
       matrix:
         os: ["macos-latest", "ubuntu-latest", "windows-latest"]
-        python-version: ["3.9", "3.10", "3.11"]
+        python-version: ["3.11", "3.12", "3.13"]
     steps:
       - uses: actions/checkout@v4
       - name: Cache conda

ci/environment-py3.11.yml

@@ -1,4 +1,4 @@
-name: test_env_intake-axds
+name: test-env-xroms
 channels:
   - conda-forge
 dependencies:
@@ -15,11 +15,12 @@ dependencies:
   - numpy
   - pooch
   - xarray
+  - xgcm=0.8.1
   # - xgcm >= 0.8.1
   ##############
   - pytest
   - pip:
-    - xgcm >= 0.8.1
+    # - xgcm >= 0.8.1
     - codecov
     - pytest-cov
     - coverage[toml]

ci/environment-py3.9.yml → ci/environment-py3.12.yml

@@ -1,8 +1,8 @@
-name: test_env_intake-axds
+name: test-env-xroms
 channels:
   - conda-forge
 dependencies:
-  - python=3.9
+  - python=3.12
   ############## These will have to be adjusted to your specific project
   - cartopy
   - cf_xarray
@@ -15,11 +15,11 @@ dependencies:
   - numpy
   - pooch
   - xarray
-  # - xgcm >= 0.8.1
+  - xgcm=0.8.1
   ##############
   - pytest
   - pip:
-    - xgcm >= 0.8.1
+    # - xgcm >= 0.8.1
     - codecov
     - pytest-cov
     - coverage[toml]

ci/environment-py3.10.yml → ci/environment-py3.13.yml

@@ -1,8 +1,8 @@
-name: test_env_intake-axds
+name: test-env-xroms
 channels:
   - conda-forge
 dependencies:
-  - python=3.10
+  - python=3.13
   ############## These will have to be adjusted to your specific project
   - cartopy
   - cf_xarray
@@ -15,11 +15,11 @@ dependencies:
   - numpy
   - pooch
   - xarray
-  # - xgcm >= 0.8.1
+  - xgcm=0.8.1
   ##############
   - pytest
   - pip:
-    - xgcm >= 0.8.1
+    # - xgcm >= 0.8.1
     - codecov
     - pytest-cov
     - coverage[toml]

docs/environment.yml

@@ -3,7 +3,7 @@ channels:
   - conda-forge
   - nodefaults
 dependencies:
-   - python=3.10
+   - python=3.12
    # If your docs code examples depend on other packages add them here
    - cartopy
    - cf_xarray
@@ -13,14 +13,15 @@ dependencies:
    - esmpy=>8.5.0 # https://github.com/esmf-org/esmf/issues/140
    - matplotlib-base
    - netcdf4
-   - numpy <1.24  # https://github.com/numba/numba/issues/8615#issuecomment-1360792615
+   - numpy #<1.24  # https://github.com/numba/numba/issues/8615#issuecomment-1360792615
    - numba >= 0.49 # required by xgcm
    - pip
    - pooch
    - requests
+   - scipy
    - xarray
    - xcmocean
-   - xgcm >= 0.8.1
+   - xgcm=0.8.1
    - xesmf  # don't install if on windows
    - xroms
    # These are needed for the docs themselves

docs/whats_new.md

@@ -1,5 +1,10 @@
 # What's New
 
+## v0.6.2 (August 27, 2025)
+* catching and ignoring a bunch of warnings from `xgcm`, but still staying with `xgcm` `v0.8.1` until I can update this code to match.
+* updating CI test versions to 3.11, 3.12, 3.13
+
+
 ## v0.6.1 (October 28, 2024)
 * Correction in a few built-in calculations of u/v grid to rho-grid interpolations of u and v velocities (currently `speed` and `_uv2eastnorth`). In these cases, we need to fill nans with zeros so that the masked locations in the velocity fields are not fully brought forward into the rho mask but are instead interpolated over. By making them 0, they are calculated into the mask\_rho positions by combining them with neighboring cells. If this wasn't done, the fact that they are masked would supersede the neighboring cells and they would be masked in mask\_rho. This needs to be done anytime the velocities are moved from their native grids to the rho or other grids to preserve their locations around masked cells.
 

environment.yml

@@ -15,14 +15,14 @@ dependencies:
   - esmpy>=8.5.0  # https://github.com/esmf-org/esmf/issues/140
   - matplotlib-base
   - netcdf4
-  - numpy <1.24  # https://github.com/numba/numba/issues/8615#issuecomment-1360792615
+  - numpy #<1.24  # https://github.com/numba/numba/issues/8615#issuecomment-1360792615
   - numba >= 0.49 # required by xgcm
   - pip
   - pooch
   - requests
   - xarray
   - xcmocean
-  - xgcm >= 0.8.1
+  - xgcm=0.8.1
   - xesmf  # don't install if on windows
   # - pip:  # install from github to get recent PRs I contributed
   #   - git@github.com:xarray-contrib/cf-xarray.git

requirements.txt

@@ -8,4 +8,4 @@ numba >= 0.49
 numpy
 pooch
 xarray
-xgcm >= 0.8.1
+xgcm == 0.8.1

setup.cfg

@@ -58,9 +58,9 @@ classifiers =
     Operating System :: OS Independent
     Programming Language :: Python
     Programming Language :: Python :: 3
-    Programming Language :: Python :: 3.9
-    Programming Language :: Python :: 3.10
     Programming Language :: Python :: 3.11
+    Programming Language :: Python :: 3.12
+    Programming Language :: Python :: 3.13
     # Dont change this one
     License :: OSI Approved :: MIT License
 
@@ -80,7 +80,7 @@ install_requires =
     numpy
     pooch
     xarray
-    xgcm >= 0.8.1
+    xgcm==0.8.1
 setup_requires=
     setuptools_scm
 python_requires = >=3.6

xroms/interp.py

@@ -261,7 +261,9 @@ def isoslice(var, iso_values, xgrid, iso_array=None, axis="Z"):
             key = "z"
 
     # perform interpolation
-    transformed = xgrid.transform(var, axis, iso_values, target_data=iso_array)
+    with warnings.catch_warnings():
+        warnings.simplefilter("ignore")
+        transformed = xgrid.transform(var, axis, iso_values, target_data=iso_array)
 
     if key not in transformed.coords:
         transformed = transformed.assign_coords({key: iso_array})
@@ -287,9 +289,11 @@ def isoslice(var, iso_values, xgrid, iso_array=None, axis="Z"):
                 iso_array = iso_array.cf.isel(Z=0).drop_vars(
                     iso_array.cf["Z"].name, errors="ignore"
                 )
-            transformedlon = xgrid.transform(
-                var[lonkey], axis, iso_values, target_data=iso_array
-            )
+            with warnings.catch_warnings():
+                warnings.simplefilter("ignore")
+                transformedlon = xgrid.transform(
+                    var[lonkey], axis, iso_values, target_data=iso_array
+                )
             transformed = transformed.assign_coords({lonkey: transformedlon})
 
         transformed[lonkey].attrs["standard_name"] = "longitude"
@@ -308,9 +312,11 @@ def isoslice(var, iso_values, xgrid, iso_array=None, axis="Z"):
                 iso_array = iso_array.cf.isel(Z=0).drop_vars(
                     iso_array.cf["Z"].name, errors="ignore"
                 )
-            transformedlat = xgrid.transform(
-                var[latkey], axis, iso_values, target_data=iso_array
-            )
+            with warnings.catch_warnings():
+                warnings.simplefilter("ignore")
+                transformedlat = xgrid.transform(
+                    var[latkey], axis, iso_values, target_data=iso_array
+                )
             transformed = transformed.assign_coords({latkey: transformedlat})
 
         transformed[latkey].attrs["standard_name"] = "latitude"
@@ -319,9 +325,11 @@ def isoslice(var, iso_values, xgrid, iso_array=None, axis="Z"):
         zkey = var.cf["vertical"].name
 
         if zkey not in transformed.coords:
-            transformedZ = xgrid.transform(
-                var[zkey], axis, iso_values, target_data=iso_array
-            )
+            with warnings.catch_warnings():
+                warnings.simplefilter("ignore")
+                transformedZ = xgrid.transform(
+                    var[zkey], axis, iso_values, target_data=iso_array
+                )
             transformed = transformed.assign_coords({zkey: transformedZ})
 
         transformed[zkey].attrs["positive"] = "up"