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Update deafrica-waterbodies command line tools #11

Merged
merged 133 commits into from
Nov 27, 2023
Merged

Update deafrica-waterbodies command line tools #11

merged 133 commits into from
Nov 27, 2023

Commits on Oct 12, 2023

  1. Update ocean filtering notebook to use raster processing

    @caitlinadams
    caitlinadams committed Oct 12, 2023
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  2. rename step two notebooks

    @caitlinadams
    caitlinadams committed Oct 12, 2023
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  3. rename files in order of use

    @caitlinadams
    caitlinadams committed Oct 12, 2023
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  4. Change notebooks to use raster processing

    @caitlinadams
    caitlinadams committed Oct 12, 2023
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Commits on Oct 13, 2023

  1. Update filter notebook with required post-processing steps

    @caitlinadams
    caitlinadams committed Oct 13, 2023
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  2. Update check_wetness_threshold

    @vikineema
    vikineema committed Oct 13, 2023
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  3. minor update

    @vikineema
    vikineema committed Oct 13, 2023
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  4. Update check_wetness_thresholds to handle 1 threshold

    @vikineema
    vikineema committed Oct 13, 2023
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  5. fix assertions

    @vikineema
    vikineema committed Oct 13, 2023
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  6. minor fixes

    @vikineema
    vikineema committed Oct 13, 2023
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  7. Replace check_wetness_thresholds with set_wetness_thresholds

    @vikineema
    vikineema committed Oct 13, 2023
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  8. Add the load_wofs_frequency function

    @vikineema
    vikineema committed Oct 13, 2023
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  9. Remove unused functions

    @vikineema
    vikineema committed Oct 13, 2023
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  10. Add raster processing functions

    @vikineema
    vikineema committed Oct 13, 2023
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  11. minor update

    @vikineema
    vikineema committed Oct 13, 2023
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  12. minor updates

    @vikineema
    vikineema committed Oct 13, 2023
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  13. Add output crs

    @vikineema
    vikineema committed Oct 13, 2023
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  14. update logging

    @vikineema
    vikineema committed Oct 13, 2023
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  15. Remove notebook as step is covered in 01

    @vikineema
    vikineema committed Oct 13, 2023
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Commits on Oct 17, 2023

  1. Update threshold naming

    @vikineema
    vikineema committed Oct 17, 2023
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  2. Adding logging to help debug

    @vikineema
    vikineema committed Oct 17, 2023
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  3. Add the use of dask geopandas to the erode-dilate-v2 function

    @vikineema
    vikineema committed Oct 17, 2023
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  4. Update notebooks

    @vikineema
    vikineema committed Oct 17, 2023
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Commits on Oct 18, 2023

  1. Remove the use of dask-geopandas from erode_dilate_v2

    @vikineema
    vikineema committed Oct 18, 2023
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  2. Remove dask-geopandas from requirements

    @vikineema
    vikineema committed Oct 18, 2023
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  3. minor updates

    @vikineema
    vikineema committed Oct 18, 2023
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  4. Add function to fill holes

    @vikineema
    vikineema committed Oct 18, 2023
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  5. Update get_tiles to return filtered tiles

    @vikineema
    vikineema committed Oct 18, 2023
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  6. minor logging update

    @vikineema
    vikineema committed Oct 18, 2023
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  7. Fix polygons

    @vikineema
    vikineema committed Oct 18, 2023
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  8. Update filter by area function

    @vikineema
    vikineema committed Oct 18, 2023
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  9. Do not reset index when filtering by area

    @vikineema
    vikineema committed Oct 18, 2023
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  10. minor update

    @vikineema
    vikineema committed Oct 18, 2023
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  11. minor update

    @vikineema
    vikineema committed Oct 18, 2023
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  12. Update function to write waterbodies

    @vikineema
    vikineema committed Oct 18, 2023
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  13. update filtering notebooks

    @vikineema
    vikineema committed Oct 18, 2023
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  14. minor updates to notebooks

    @vikineema
    vikineema committed Oct 18, 2023
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Commits on Oct 19, 2023

  1. minor logging update

    @vikineema
    vikineema committed Oct 19, 2023
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  2. Merge branch 'update-filtering' of https://github.com/digitalearthafr… 

    …ica/deafrica-waterbodies into update-filtering
    @vikineema
    vikineema committed Oct 19, 2023
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  3. Add function to convert shapefiles into parquet files

    @vikineema
    vikineema committed Oct 19, 2023
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  4. Add notebook to remove polygons within other polygons

    @vikineema
    vikineema committed Oct 19, 2023
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  5. Update filter using land sea mask function

    @vikineema
    vikineema committed Oct 19, 2023
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  6. Add function to remove polygons within other polygons

    @vikineema
    vikineema committed Oct 19, 2023
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  7. Remove datasets module which was replaced by using tiling in the work… 

    …flow
    @vikineema
    vikineema committed Oct 19, 2023
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  8. Update filter_using_urban_mask function to only filter one set of pol… 

    …ygons
    @vikineema
    vikineema committed Oct 19, 2023
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  9. Remove function to merge primary and secondary polygons as this is ta… 

    …ken care of in raster processing
    @vikineema
    vikineema committed Oct 19, 2023
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  10. minor updates to filter_using_major_rivers_mask function

    @vikineema
    vikineema committed Oct 19, 2023
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  11. Do not return tuple

    @vikineema
    vikineema committed Oct 19, 2023
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  12. Remove merge_polygons_at_dataset_boundaries_function

    @vikineema
    vikineema committed Oct 19, 2023
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  13. remove unused import

    @vikineema
    vikineema committed Oct 19, 2023
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  14. fix linting error

    @vikineema
    vikineema committed Oct 19, 2023
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Commits on Oct 23, 2023

  1. Use full version for naming file

    @vikineema
    vikineema committed Oct 23, 2023
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  2. Remove the attributes columns

    @vikineema
    vikineema committed Oct 23, 2023
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  3. minor update

    @vikineema
    vikineema committed Oct 23, 2023
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  4. Merge branch 'improve-fill-polygons' of https://github.com/digitalear… 

    …thafrica/deafrica-waterbodies into update-filtering
    @vikineema
    vikineema committed Oct 23, 2023
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  5. Update order of notebooks run to produce continental waterbodies vers… 

    …ion 0.0.1
    @vikineema
    vikineema committed Oct 23, 2023
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  6. Use dask chunks when loading data

    @vikineema
    vikineema committed Oct 23, 2023
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  7. Update timeseries functions to match deafrica-conflux

    @vikineema
    vikineema committed Oct 23, 2023
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  8. update function to return timeseries file paths

    @vikineema
    vikineema committed Oct 23, 2023
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  9. Fix missing directories

    @vikineema
    vikineema committed Oct 23, 2023
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  10. minor update

    @vikineema
    vikineema committed Oct 23, 2023
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Commits on Oct 24, 2023

  1. fix naming of timeseries csv files

    @vikineema
    vikineema committed Oct 24, 2023
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  2. Format queues module using black and isort

    @vikineema
    vikineema committed Oct 24, 2023
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  3. Add odc-stats as dependency

    @vikineema
    vikineema committed Oct 24, 2023
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  4. Update how version is assigned in timeseries attribute

    @vikineema
    vikineema committed Oct 24, 2023
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Commits on Oct 31, 2023

  1. Update add_timeseries_attribute

    @vikineema
    vikineema committed Oct 31, 2023
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  2. Update naming for the timeseries and polygons

    @vikineema
    vikineema committed Oct 31, 2023
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  3. Remove product version number from file naming

    @vikineema
    vikineema committed Oct 31, 2023
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Commits on Nov 7, 2023

  1. remove unused command line tools

    @vikineema
    vikineema committed Nov 7, 2023
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Commits on Nov 8, 2023

  1. add plugin for raster processing filtering

    @vikineema
    vikineema committed Nov 8, 2023
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  2. remove default filter land mask function

    @vikineema
    vikineema committed Nov 8, 2023
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  3. Add plugins

    @vikineema
    vikineema committed Nov 8, 2023
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  4. Add command line tool for generating polygons

    @vikineema
    vikineema committed Nov 8, 2023
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  5. Add filtering steps to cli

    @vikineema
    vikineema committed Nov 8, 2023
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  6. update main

    @vikineema
    vikineema committed Nov 8, 2023
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  7. Update timeseries cli

    @vikineema
    vikineema committed Nov 8, 2023
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  8. Add final step to write to shapefile

    @vikineema
    vikineema committed Nov 8, 2023
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Commits on Nov 9, 2023

  1. Update generate-polygons cli docstring

    @vikineema
    vikineema committed Nov 9, 2023
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  2. Add tests for generate_polygons cli

    @vikineema
    vikineema committed Nov 9, 2023
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  3. Update repository README

    @vikineema
    vikineema committed Nov 9, 2023
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  4. minor update

    @vikineema
    vikineema committed Nov 9, 2023
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  5. Add overwrite option

    @vikineema
    vikineema committed Nov 9, 2023
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  6. Fix timeseries fp

    @vikineema
    vikineema committed Nov 9, 2023
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  7. Update workflows

    @vikineema
    vikineema committed Nov 9, 2023
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  8. Add test environment set up

    @vikineema
    vikineema committed Nov 9, 2023
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  9. Update to use make commands

    @vikineema
    vikineema committed Nov 9, 2023
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  10. Add step to tear down image

    @vikineema
    vikineema committed Nov 9, 2023
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  11. Update default values

    @vikineema
    vikineema committed Nov 9, 2023
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  12. Fix missing parameter

    @vikineema
    vikineema committed Nov 9, 2023
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  13. Add test for generate timeseries

    @vikineema
    vikineema committed Nov 9, 2023
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  14. Handle failing tests

    @vikineema
    vikineema committed Nov 9, 2023
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  15. Fix test waterbody file path

    @vikineema
    vikineema committed Nov 9, 2023
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Commits on Nov 10, 2023

  1. Update requirements

    @vikineema
    vikineema committed Nov 10, 2023
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  2. Add workflow to publish deafrica-waterbodies to PYPI

    @vikineema
    vikineema committed Nov 10, 2023
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  3. Update test data

    @vikineema
    vikineema committed Nov 10, 2023
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  4. Update tests to use geojson instead of parquet files

    @vikineema
    vikineema committed Nov 10, 2023
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  5. Update ocean filtering plugins

    @vikineema
    vikineema committed Nov 10, 2023
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  6. Update plugin

    @vikineema
    vikineema committed Nov 10, 2023
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  7. update docs for plugin

    @vikineema
    vikineema committed Nov 10, 2023
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  8. Update plugin validation

    @vikineema
    vikineema committed Nov 10, 2023
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  9. Update the plugin

    @vikineema
    vikineema committed Nov 10, 2023
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  10. Add plugin for filtering ocean pixels using polygons

    @vikineema
    vikineema committed Nov 10, 2023
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  11. Update raster processing function to use updated plugins

    @vikineema
    vikineema committed Nov 10, 2023
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Commits on Nov 15, 2023

  1. Add function to erode land in the land sea mask

    @vikineema
    vikineema committed Nov 15, 2023
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Commits on Nov 16, 2023

  1. Buffer land sea masks by 5 pixels

    @vikineema
    vikineema committed Nov 16, 2023
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Commits on Nov 17, 2023

  1. Replace polygon generation notebooks

    @vikineema
    vikineema committed Nov 17, 2023
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  2. Add comments on parameter selection

    @vikineema
    vikineema committed Nov 17, 2023
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  3. Update default min_valid_observations

    @vikineema
    vikineema committed Nov 17, 2023
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  4. Update default min_valid_observations

    @vikineema
    vikineema committed Nov 17, 2023
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  5. update make polygons cli to match notebooks

    @vikineema
    vikineema committed Nov 17, 2023
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  6. Update number of pixels to buffer by in plugin

    @vikineema
    vikineema committed Nov 17, 2023
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  7. update docstrings for make_polygons functions

    @vikineema
    vikineema committed Nov 17, 2023
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  8. Update workflow diagram

    @vikineema
    vikineema committed Nov 17, 2023
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  9. Update testing docs

    @vikineema
    vikineema committed Nov 17, 2023
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  10. Add comments on dask chunks selection

    @vikineema
    vikineema committed Nov 17, 2023
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Commits on Nov 18, 2023

  1. Add precision parameter to assign_unique_ids

    @vikineema
    vikineema committed Nov 18, 2023
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  2. Update number of polygons across Africa

    @vikineema
    vikineema committed Nov 18, 2023
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Commits on Nov 20, 2023

  1. Add function to calculate the length of waterbodies

    @vikineema
    vikineema committed Nov 20, 2023
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  2. Update polygon generation cli

    @vikineema
    vikineema committed Nov 20, 2023
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  3. Remove deprecated filter functions

    @vikineema
    vikineema committed Nov 20, 2023
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  4. Add function to filter out large waterbody polygons

    @vikineema
    vikineema committed Nov 20, 2023
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  5. Rename function

    @vikineema
    vikineema committed Nov 20, 2023
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  6. minor fix

    @vikineema
    vikineema committed Nov 20, 2023
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  7. Add functions to group polygons by product regions

    @vikineema
    vikineema committed Nov 20, 2023
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  8. Update group polygons

    @vikineema
    vikineema committed Nov 20, 2023
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  9. Add step to split polygons by region

    @vikineema
    vikineema committed Nov 20, 2023
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  10. Update notebook to match cli

    @vikineema
    vikineema committed Nov 20, 2023
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  11. Merge branch 'update-cli' of https://github.com/digitalearthafrica/de… 

    …africa-waterbodies into update-cli
    @vikineema
    vikineema committed Nov 20, 2023
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  12. Remove hardcoded buffer distance

    @vikineema
    vikineema committed Nov 20, 2023
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  13. Update tests for polygon generation

    @vikineema
    vikineema committed Nov 20, 2023
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Commits on Nov 21, 2023

  1. filter large polygons before grouping by wofs_ls regions

    @vikineema
    vikineema committed Nov 21, 2023
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  2. Skip converting xarray to numpy

    @vikineema
    vikineema committed Nov 21, 2023
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  3. Update notebook to match generate polygons cli

    @vikineema
    vikineema committed Nov 21, 2023
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