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Encodings #255

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wants to merge 136 commits into from
Closed

Encodings #255

wants to merge 136 commits into from

Commits on Jun 16, 2023

  1. improve get_geotop

    - use chunks and dask delayed to keep memory usage efficient
    - get_geotop now gets raw data
    - add deprecationwarning to get_geotop_raw_within_extent()
    dbrakenhoff committed Jun 16, 2023
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  2. old get_geotop is renamed geotop_to_layermodel:

    - now takes geotop_ds as input to convert to layers (not extent)
    dbrakenhoff committed Jun 16, 2023
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  3. clean up old code

    dbrakenhoff committed Jun 16, 2023
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  4. improve get_regis:

    - do not use sortby but check diff of y dimension and flip if necessary
    dbrakenhoff committed Jun 16, 2023
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Commits on Jun 20, 2023

  1. improve geotop:

    - use .values instead of .data to load data into memory if using dask
    - undo onno changes for now w missing strat code
    dbrakenhoff committed Jun 20, 2023
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Commits on Jun 21, 2023

  1. Use dask delayed to read model output

    - add kwarg delayed, if False, load data into memory, else return data array with delayed dask arrays
    - add kwarg chunked, if True, chunk data array with chunks="auto"
    - add x,y data to vertex grid data array
    dbrakenhoff committed Jun 21, 2023
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  3. fix DeprecationWarning

    dbrakenhoff committed Jun 21, 2023
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  7. more info in log message

    - add function name in all cases
    - add line number when level is DEBUG
    dbrakenhoff committed Jun 21, 2023
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  8. docstrings

    dbrakenhoff committed Jun 21, 2023
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  9. fix tests

    dbrakenhoff committed Jun 21, 2023
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  10. fix geotop_lithok_in_cross_section

    - use .values to deal with dask arrays
    - use get_geotop
    - update docstring
    dbrakenhoff committed Jun 21, 2023
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Commits on Jun 23, 2023

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  2. Some minor changes

    rubencalje committed Jun 23, 2023
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Commits on Jun 26, 2023

  1. version bump

    OnnoEbbens committed Jun 26, 2023
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Commits on Jul 3, 2023

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  2. Add extra legends for layer models

    Add
    rubencalje committed Jul 3, 2023
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Commits on Jul 4, 2023

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Commits on Jul 7, 2023

  1. 199 nlmodgwfic slow for uniform starting head (#200)

    * fix for #199
    
    * fix
    
    * return da in some situations
    
    ---------
    
    Co-authored-by: Ruben Caljé <r.calje@artesia-water.nl>
    OnnoEbbens and rubencalje authored Jul 7, 2023
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Commits on Jul 10, 2023

  1. Update webservices.py

    Small fix for Error: Assigning CRS to a GeoDataFrame without a geometry column is not supported
    rubencalje committed Jul 10, 2023
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  2. Add test_insert_layer

    rubencalje committed Jul 10, 2023
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  4. add contour-array flopy func

    add fontsize to plot_layers in DatasetCrossSection
    dbrakenhoff committed Jul 10, 2023
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Commits on Jul 12, 2023

  1. 198 deal with outdated cache pickles (#201)

    * fix for #198
    
    * codacy fix
    
    ---------
    
    Co-authored-by: Ruben Caljé <r.calje@artesia-water.nl>
    OnnoEbbens and rubencalje authored Jul 12, 2023
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  2. 181 further improve caching by checking only relevant coordinates for…

    … certain datasets (#202)
    
    * add option in get_ds_empty to specify dimensions
    
    * fix error for vertex grids
    
    ---------
    
    Co-authored-by: Ruben Caljé <r.calje@artesia-water.nl>
    OnnoEbbens and rubencalje authored Jul 12, 2023
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Commits on Jul 17, 2023

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  2. address @OnnoEbbens comments

    - fix comments
    - add docstrings
    dbrakenhoff committed Jul 17, 2023
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  6. improve mfoutput

    - fix where command for dry/noflow
    - improve support for loading output without gwf or ds
    dbrakenhoff committed Jul 17, 2023
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  7. resolve my own comments

    dbrakenhoff committed Jul 17, 2023
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  8. Merge pull request #195 from ArtesiaWater/logging-and-docstrings

    Improve logging and docstrings
    dbrakenhoff authored Jul 17, 2023
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Commits on Jul 19, 2023

  1. refactor mfoutput

    - new folder mfoutput
    - add new flopy binary read functions that support multithreading (binaryfile.py)
    - separate reading budget and head output
    - modify gwf.output and gwt.output to use new methods
    - split logic into multiple reusable functions
    - add support for grb files
    - add/improve tests
    - add method to obtain dims, coords from modelgrid object
    dbrakenhoff committed Jul 19, 2023
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Commits on Jul 20, 2023

  1. update PR

    - codacy
    - fix comments @OnnoEbbens
    - some additional fixes
    dbrakenhoff committed Jul 20, 2023
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  2. please codacy

    - replace Exception with more specific types
    - add LayerError and MissingValueError
    - fix some typos
    dbrakenhoff committed Jul 20, 2023
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  3. Merge pull request #196 from ArtesiaWater/193-geotop

    Improve geotop functionality
    dbrakenhoff authored Jul 20, 2023
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  4. Merge pull request #194 from ArtesiaWater/mfoutput

    Improve reading model output
    dbrakenhoff authored Jul 20, 2023
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  5. improve log msg

    dbrakenhoff committed Jul 20, 2023
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  6. 208 gridrefine raises incomprehensible valueerror when there is a dat…

    …a variable with dtype object present in the dataset (#209)
    
    * fix for #208
    
    * better log message
    OnnoEbbens authored Jul 20, 2023
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  7. small fixes

    OnnoEbbens committed Jul 20, 2023
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Commits on Jul 27, 2023

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  2. typo

    dbrakenhoff committed Jul 27, 2023
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  4. deal with time dimension for steady state models for EVT pkg

    - if steady state select first timestep from evaporation data
    - squeeze evaporation data when building stress_period_data
    dbrakenhoff committed Jul 27, 2023
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Commits on Jul 28, 2023

  1. add well logging

    dbrakenhoff committed Jul 28, 2023
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  2. fix for extrapolate_ds

    - do not nearest extrpolate if no nans in data
    - do not raise exception, just log warning
    dbrakenhoff committed Jul 28, 2023
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Commits on Jul 31, 2023

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  2. improve docstring

    OnnoEbbens committed Jul 31, 2023
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  4. fix missing :

    OnnoEbbens committed Jul 31, 2023
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Commits on Aug 7, 2023

  1. fix new doc requirement

    OnnoEbbens committed Aug 7, 2023
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Commits on Aug 10, 2023

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Commits on Aug 15, 2023

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Commits on Aug 16, 2023

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  2. Add layer argument to nlmod.gwf.chd and nlmod.gwf.ghb (just like nlmo…

    …d.gwf.drn, but then with a default value of 0 for chd)
    
    The defaults remain the same (although questionable), so this will not alter existing scripts
    rubencalje committed Aug 16, 2023
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Commits on Aug 22, 2023

  1. fix #215 (#216)

    OnnoEbbens authored Aug 22, 2023
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Commits on Aug 23, 2023

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Commits on Aug 24, 2023

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  2. Merge pull request #230 from ArtesiaWater/improve-plots

    add contour-array flopy func
    dbrakenhoff authored Aug 24, 2023
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  3. Merge pull request #231 from ArtesiaWater/zeeland

    Updates based on model in Zeeland
    dbrakenhoff authored Aug 24, 2023
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  8. Codacy

    OnnoEbbens authored Aug 24, 2023
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  10. codacy fix

    OnnoEbbens committed Aug 24, 2023
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  12. Merge branch 'dev' into 227-write-dataset-to-model-workspace-instead-…

    …of-cachedir-in-write_and_run_model
    OnnoEbbens committed Aug 24, 2023
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  13. Make recharge more uniform

    OnnoEbbens committed Aug 24, 2023
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  14. nb_path -> script_path

    OnnoEbbens committed Aug 24, 2023
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  15. fix Projection issue in backgroundmaps #240

    - add custom crs definition string
    dbrakenhoff committed Aug 24, 2023
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  16. Add calculate_sea_coverage

    And implement in transport notebook
    rubencalje committed Aug 24, 2023
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  17. improve plotting in notebooks #224

    - use nlmod.plot.get_map() where possible
    - simplify plotting with nlmod.plot.map_array()
    - other nb improvements (e.g. descriptions, text, etc).
    - rename kwarg background to backgroundmap in get_map
    - improve default axis ticks in get_map
    - some typos
    - rename layer coord to source_layer in get_concentration_at_gw_surface()
    dbrakenhoff committed Aug 24, 2023
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  19. Merge pull request #236 from ArtesiaWater/227-write-dataset-to-model-…

    …workspace-instead-of-cachedir-in-write_and_run_model
    
    227 write dataset to model workspace instead of cachedir in write and run model
    dbrakenhoff authored Aug 24, 2023
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  21. Merge pull request #239 from ArtesiaWater/210-nlmod-adding-rch-and-ev…

    …t-packages
    
    210 nlmod adding rch and evt packages
    dbrakenhoff authored Aug 24, 2023
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  24. nb_path -> script_path

    OnnoEbbens committed Aug 24, 2023
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  26. Merge pull request #242 from ArtesiaWater/calculate_sea

    Add calculate_sea_coverage
    dbrakenhoff authored Aug 24, 2023
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  27. Add test

    rubencalje committed Aug 24, 2023
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Commits on Aug 25, 2023

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  2. Merge pull request #238 from ArtesiaWater/218-getting-an-extra-layer-…

    …when-reading-geotop-from-cache
    
    218 getting an extra layer when reading geotop from cache
    dbrakenhoff authored Aug 25, 2023
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  3. Merge pull request #246 from ArtesiaWater/label_layers

    Add DatasetCrossSection.label_layers
    dbrakenhoff authored Aug 25, 2023
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  4. fix typos

    dbrakenhoff committed Aug 25, 2023
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  6. update gwt nb

    dbrakenhoff committed Aug 25, 2023
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  8. codacy, pass on fmt_base kwarg

    black formatting
    dbrakenhoff committed Aug 25, 2023
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  9. Fix bug found by tests

    rubencalje committed Aug 25, 2023
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  10. Update test_006_caching.py

    rubencalje committed Aug 25, 2023
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  12. codacy suggestions

    dbrakenhoff committed Aug 25, 2023
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  14. Merge pull request #244 from ArtesiaWater/plotting-in-notebooks

    improve plotting in notebooks #224
    dbrakenhoff authored Aug 25, 2023
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  15. Merge pull request #241 from ArtesiaWater/epsg-28992-issue

    fix Projection issue in backgroundmaps #240
    dbrakenhoff authored Aug 25, 2023
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  16. Merge pull request #243 from ArtesiaWater/stop_overwriting_kh_and_kv_…

    …geotop
    
    Stop overwriting kh and kv of geotop in add_geotop_to_regis_layers
    dbrakenhoff authored Aug 25, 2023
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  20. codacy fix

    dbrakenhoff committed Aug 25, 2023
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  21. codacy fix

    dbrakenhoff committed Aug 25, 2023
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  23. Merge pull request #248 from ArtesiaWater/codacy

    codacy suggestions
    dbrakenhoff authored Aug 25, 2023
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  24. improve gwf bc pkgs

    - add RIV pkg #97
    - fix mask checks in bc pkgs #213
    - add check on dataarray coords #214
    dbrakenhoff committed Aug 25, 2023
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  29. Merge pull request #247 from ArtesiaWater/add_caching_data_array

    Add caching for DataArrays as well
    rubencalje authored Aug 25, 2023
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  31. Merge pull request #249 from ArtesiaWater/97-drn-riv-ghb-packages-in-…

    …nlmodgwf
    
    improve gwf bc pkgs
    dbrakenhoff authored Aug 25, 2023
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  32. Change typo

    rubencalje committed Aug 25, 2023
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  33. Merge pull request #250 from ArtesiaWater/calculate_idomain_on_the_fly

    Remove idomain from Dataset
    rubencalje authored Aug 25, 2023
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  34. Attributes encoding (#245)

    * Small doc changes to gwt/output.py
    
    * Create attributes_encodings.py
    
    * Removed unused imports
    
    * Extended get_encodings
    
    * Added test to encoding
    
    * Minor indentation bug in get_encodings()
    
    * Better error message in attributes encoding
    bdestombe authored Aug 25, 2023
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Commits on Aug 28, 2023

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