Resample with geometry

.gitignore

@@ -6,6 +6,9 @@ __pycache__/
 # C extensions
 *.so
 
+# Notebook example datasets downloaded locally
+example_data/*/
+
 # Distribution / packaging
 .Python
 build/

conda/environment-ep-main.yml

@@ -12,6 +12,7 @@ dependencies:
   - numba # Helps ensure a recent version is installed
   - numpy<2
   - pip
+  - pooch
   # -- holoviz --
   - jupyter_bokeh
   - datashader

conda/environment.yml

@@ -10,6 +10,7 @@ dependencies:
   - cartopy
   - scipy
   - numba # Helps ensure a recent version is installed
+  - pooch
   # -- holoviz --
   - jupyter_bokeh
   - datashader

notebooks/_config.yml

@@ -22,9 +22,9 @@ latex:
 
 # Information about where the book exists on the web
 repository:
-  url: https://github.com/OSOceanAcoustics/echopype-examples # Online location of your book
-  path_to_book: notebooks  # Optional path to your book, relative to the repository root
-  branch: main  # Which branch of the repository should be used when creating links (optional)
+  url: https://github.com/echostack-org/echopype-examples
+  path_to_book: notebooks
+  branch: main
 
 # Add GitHub buttons to your book
 # See https://jupyterbook.org/customize/config.html#add-a-link-to-your-repository

notebooks/_toc.yml

@@ -16,6 +16,7 @@ parts:
       - file: krill_freq_diff
       - file: hake_mask
       - file: glider_AZFP
+      - file: resample_to_geometry
 
   - caption: Community showcase
     numbered: False

notebooks/gallery.yml

@@ -1,62 +1,69 @@
 - section: Getting started
   items:
     - name: Getting Started with Echopype
-      website: https://echopype-examples.readthedocs.io/en/latest/getting_started.html
-      repository: https://github.com/OSOceanAcoustics/echopype-examples/blob/main/notebooks/getting_started.ipynb
+      website: getting_started.html
+      repository: https://github.com/echostack-org/echopype-examples/blob/main/notebooks/getting_started.ipynb
       notebook: getting_started.ipynb
       summary: A minimum example to get started on Echopype functions.
       image: images/gallery/01_getting_started.png
 
 - section: Processing
   items:
     - name: Watching Eclipse from a Moored Echosounder
-      website: https://echopype-examples.readthedocs.io/en/latest/OOI_eclipse.html
-      repository: https://github.com/OSOceanAcoustics/echopype-examples/blob/main/notebooks/OOI_eclipse.ipynb
+      website: OOI_eclipse.html
+      repository: https://github.com/echostack-org/echopype-examples/blob/main/notebooks/OOI_eclipse.ipynb
       notebook: OOI_eclipse.ipynb
       summary: Pairing acoustic data from an upward-looking echosounder and shortwave irradiance measured by a pyrometer on a surface mooring to observe the movement response of zooplankton to a solar eclipse. (Not binder friendly.)
       image: images/gallery/02_OOI_eclipse.png
 
     - name: Seafloor Detection
-      website: https://echopype-examples.readthedocs.io/en/latest/seafloor_detection.html
-      repository: https://github.com/OSOceanAcoustics/echopype-examples/blob/main/notebooks/seafloor_detection.ipynb
+      website: seafloor_detection.html
+      repository: https://github.com/echostack-org/echopype-examples/blob/main/notebooks/seafloor_detection.ipynb
       notebook: seafloor_detection.ipynb
       summary: Seafloor detection with echopype (two algorithms) and use of echoregions; compute a bottom line and mask below-bottom data.
       image: images/gallery/07_seafloor.png
 
     - name: Transient Noise Removal
-      website: https://echopype-examples.readthedocs.io/en/latest/transient_noise.html
-      repository: https://github.com/OSOceanAcoustics/echopype-examples/blob/main/notebooks/transient_noise.ipynb
+      website: transient_noise.html
+      repository: https://github.com/echostack-org/echopype-examples/blob/main/notebooks/transient_noise.ipynb
       notebook: transient_noise.ipynb
       summary: Transient noise removal with echopype (two algorithms) and exploring the effects on Sv profiles.
       image: images/gallery/08_transient_noise.png
 
     - name: Ship Tracks Visualisation
-      website: https://echopype-examples.readthedocs.io/en/latest/ship_tracks.html
-      repository: https://github.com/OSOceanAcoustics/echopype-examples/blob/main/notebooks/ship_tracks.ipynb
+      website: ship_tracks.html
+      repository: https://github.com/echostack-org/echopype-examples/blob/main/notebooks/ship_tracks.ipynb
       notebook: ship_tracks.ipynb
       summary: Subselect sections of echo data based on ship GPS data embedded in the echosounder raw files to demonstrate the power of label-aware data processing based on standardized netCDF data model. (Not binder friendly.)
       image: images/gallery/03_subselection.png
 
     - name: Krill Frequency Differencing
-      website: https://echopype-examples.readthedocs.io/en/latest/krill_freq_diff.html
-      repository: https://github.com/OSOceanAcoustics/echopype-examples/blob/main/notebooks/krill_freq_diff.ipynb
+      website: krill_freq_diff.html
+      repository: https://github.com/echostack-org/echopype-examples/blob/main/notebooks/krill_freq_diff.ipynb
       notebook: krill_freq_diff.ipynb
       summary: Perform frequency-differencing analysis to identify fluid-like zooplankton scatterers (likely krill) in ship echosounder data, and compute nautical acoustic scattering coefficient (NASC) based on the classification. (Not binder friendly.)
       image: images/gallery/04_krill.png
 
     - name: Masking Echogram and Computing NASC
-      website: https://echopype-examples.readthedocs.io/en/latest/hake_mask.html
-      repository: https://github.com/OSOceanAcoustics/echopype-examples/blob/main/notebooks/hake_mask.ipynb
+      website: hake_mask.html
+      repository: https://github.com/echostack-org/echopype-examples/blob/main/notebooks/hake_mask.ipynb
       notebook: hake_mask.ipynb
       summary: Incorporate an externally generated mask that identify the occurrence of Pacific hake in ship echosounder data, and compute NASC based on the masked outputs.
       image: images/gallery/05_NASC.png
 
     - name: Glider AZFP Processing
-      website: https://echopype-examples.readthedocs.io/en/latest/glider_AZFP.html
-      repository: https://github.com/OSOceanAcoustics/echopype-examples/blob/main/notebooks/glider_AZFP.ipynb
+      website: glider_AZFP.html
+      repository: https://github.com/echostack-org/echopype-examples/blob/main/notebooks/glider_AZFP.ipynb
       notebook: glider_AZFP.ipynb
       summary: Process acoustic data from a Slocum glider by incorporating external position, motion, and environmental data and identify zooplankton shoals.
       image: images/gallery/06_glider.png
 
+    - name: Resample Channels to a Common Range Geometry
+      website: resample_to_geometry.html
+      repository: https://github.com/echostack-org/echopype-examples/blob/main/notebooks/resample_to_geometry.ipynb
+      notebook: resample_to_geometry.ipynb
+      summary: Resample acoustic variables across channels to a reference channel geometry or a custom ping-dependent range grid.
+      image: images/gallery/10_resample_to_geometry.png
+
 - section: Community showcase
   items: []