ci: use mamba for builds

ci: update import versions for deprecation errors
docs: update maps to use "region" instead of "granule"

.github/workflows/auto-update-files.yml

@@ -24,7 +24,7 @@ jobs:
         shell: bash -l {0}
 
     steps:
-    - uses: actions/checkout@v2
+    - uses: actions/checkout@v3
     - name: Set up conda ${{ matrix.python-version }}
       uses: conda-incubator/setup-miniconda@v2
       with:

.github/workflows/python-publish.yml

@@ -13,7 +13,7 @@ jobs:
     runs-on: ubuntu-20.04
 
     steps:
-    - uses: actions/checkout@v2
+    - uses: actions/checkout@v3
     - name: Set up Python
       uses: actions/setup-python@v2
       with:

.github/workflows/python-request.yml

@@ -22,17 +22,22 @@ jobs:
         shell: bash -l {0}
 
     steps:
-    - uses: actions/checkout@v2
-    - name: Set up conda ${{ matrix.python-version }}
-      uses: conda-incubator/setup-miniconda@v2
+    - uses: actions/checkout@v3
+    - name: Set up mamba ${{ matrix.python-version }}
+      uses: mamba-org/setup-micromamba@v1
       with:
-        auto-update-conda: true
-        python-version: ${{ matrix.python-version }}
-        activate-environment: icesat2_toolkit
+        micromamba-version: '1.3.1-0'
         environment-file: environment.yml
-    - name: Create conda Test Environment
-      run: |
-        conda install flake8 pytest pytest-cov cython
+        init-shell: bash
+        environment-name: icesat2_toolkit
+        cache-environment: true
+        post-cleanup: 'all'
+        create-args: >-
+          python=${{ matrix.python-version }}
+          flake8
+          pytest
+          pytest-cov
+          cython
     - name: Lint with flake8
       run: |
         # stop the build if there are Python syntax errors or undefined names

icesat2_toolkit/fit.py

@@ -30,7 +30,7 @@
 # attempt imports
 try:
     import sklearn.neighbors
-except (ImportError, ModuleNotFoundError) as exc:
+except (AttributeError, ImportError, ModuleNotFoundError) as exc:
     warnings.filterwarnings("module")
     warnings.warn("scikit-learn not available", ImportWarning)
 # ignore warnings

icesat2_toolkit/spatial.py

@@ -44,17 +44,17 @@
 # attempt imports
 try:
     import osgeo.gdal, osgeo.osr, osgeo.gdalconst
-except (ImportError, ModuleNotFoundError) as exc:
+except (AttributeError, ImportError, ModuleNotFoundError) as exc:
     warnings.filterwarnings("module")
     warnings.warn("GDAL not available", ImportWarning)
 try:
     import h5py
-except (ImportError, ModuleNotFoundError) as exc:
+except (AttributeError, ImportError, ModuleNotFoundError) as exc:
     warnings.filterwarnings("module")
     warnings.warn("h5py not available", ImportWarning)
 try:
     import netCDF4
-except (ImportError, ModuleNotFoundError) as exc:
+except (AttributeError, ImportError, ModuleNotFoundError) as exc:
     warnings.filterwarnings("module")
     warnings.warn("netCDF4 not available", ImportWarning)
 # ignore warnings

icesat2_toolkit/tools.py

@@ -27,7 +27,7 @@
 try:
     import matplotlib.cm as cm
     import matplotlib.colors as colors
-except (ImportError, ModuleNotFoundError) as exc:
+except (AttributeError, ImportError, ModuleNotFoundError) as exc:
     warnings.filterwarnings("module")
     warnings.warn("matplotlib not available", ImportWarning)
 # ignore warnings

icesat2_toolkit/utilities.py

@@ -81,12 +81,12 @@
 # attempt imports
 try:
     import boto3
-except (ImportError, ModuleNotFoundError) as exc:
+except (AttributeError, ImportError, ModuleNotFoundError) as exc:
     warnings.filterwarnings("module")
     warnings.warn("boto3 not available", ImportWarning)
 try:
     import s3fs
-except (ImportError, ModuleNotFoundError) as exc:
+except (AttributeError, ImportError, ModuleNotFoundError) as exc:
     warnings.filterwarnings("module")
     warnings.warn("s3fs not available", ImportWarning)
 # ignore warnings

readthedocs.yml

@@ -7,7 +7,7 @@ version: 2
 
 # Configuration for the documentation build process
 build:
-  os: ubuntu-20.04
+  os: "ubuntu-22.04"
   tools:
     python: "miniconda3-4.7"
 

requirements.txt

@@ -6,3 +6,4 @@ pyproj
 python-dateutil
 scipy
 scp
+timescale

scripts/MPI_ICESat2_ATL03.py

@@ -99,7 +99,7 @@
 try:
     import sklearn.neighbors
     import sklearn.cluster
-except (ImportError, ModuleNotFoundError) as exc:
+except (AttributeError, ImportError, ModuleNotFoundError) as exc:
     warnings.filterwarnings("module")
     warnings.warn("scikit-learn not available", ImportWarning)
 try:

scripts/MPI_ICESat2_ATL03_histogram.py

@@ -138,7 +138,7 @@
 try:
     import sklearn.neighbors
     import sklearn.cluster
-except (ImportError, ModuleNotFoundError) as exc:
+except (AttributeError, ImportError, ModuleNotFoundError) as exc:
     warnings.filterwarnings("module")
     warnings.warn("scikit-learn not available", ImportWarning)
 try:

scripts/nsidc_icesat2_sync_s3.py

@@ -119,7 +119,7 @@
 # attempt imports
 try:
     import boto3
-except (ImportError, ModuleNotFoundError) as exc:
+except (AttributeError, ImportError, ModuleNotFoundError) as exc:
     warnings.filterwarnings("module")
     warnings.warn("boto3 not available", ImportWarning)
 # ignore warnings