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Update master-branch to Pastas 1.0: Arrabiata #529

Merged
merged 100 commits into from
Feb 6, 2023
Merged

Update master-branch to Pastas 1.0: Arrabiata #529

merged 100 commits into from
Feb 6, 2023

Commits on Jan 9, 2023

  1. update dev-branch to v0.23.0b 

    - drop official python 3.7 support
- add python 3.11 support
    @raoulcollenteur
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Commits on Jan 10, 2023

  1. wait with Python 3.11 support 

    As noted by @martinvonk , Numba is not ready yet, let's try again before the next release.
    @raoulcollenteur
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  2. bump minimum scipy to 1.8 to fix #177 

    Bumped minimum Scipy function to 1.8 to fix issue #177. Closes #177
    @raoulcollenteur
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  3. Implement Type Hints (#441) 

    Co-authored-by: Raoul Collenteur <raoulcollenteur@gmail.com>
    @martinvonk @raoulcollenteur
    martinvonk and raoulcollenteur committed Jan 10, 2023
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  4. 448 black formatting (#457)

    @dbrakenhoff
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  5. update contributing.rst 

    - reference black
- travis -> GitHub Actions
- remove release notes step (this is automated now)
    @dbrakenhoff
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  6. 454 Add .gitattribute file for linguist settings (#456) 

    - ignore .pas files since they are recognized as Pascal language
- count Jupyter Notebooks as Python language
    @martinvonk
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  7. remove ReservoirModel and StressModel2 

    - Move ReservoirModel to separate branch for future development
- Remove StressModel2, will throw Error with instructions when used (#421).
    @raoulcollenteur
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  8. remove import of Reservoir model

    @raoulcollenteur
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  9. update ci with black formatting check

    @dbrakenhoff
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  10. black and isort formatting part2

    @dbrakenhoff
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  11. update git ignore blame refs

    @dbrakenhoff
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  12. introduce new validate_timeseries method 

    This method can be used by users and stress models to thoroughly check the user-provided time series that are stresses (not oseries).
    @raoulcollenteur
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  13. Merge branch 'dev' of https://github.com/pastas/pastas into dev

    @raoulcollenteur
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  14. Revert "introduce new validate_timeseries method" 

    This reverts commit 81550df.
    @raoulcollenteur
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Commits on Jan 11, 2023

  1. Transition to pyproject.toml (#443) 

    Co-authored-by: dbrakenhoff <d.brakenhoff@artesia-water.nl>
    @martinvonk @dbrakenhoff
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  2. change iteritems to items

    @raoulcollenteur
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  3. Delete 19_reservoir.ipynb

    @raoulcollenteur
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Commits on Jan 12, 2023

  1. update ci 

    only print files failing black formatting check.
    @dbrakenhoff
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  2. Delete reservoir.py

    @raoulcollenteur
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Commits on Jan 13, 2023

  1. 442 fix python-publish.yml and improve version.py (#461) 

    Co-authored-by: dbrakenhoff <d.brakenhoff@artesia-water.nl>
    @martinvonk @dbrakenhoff
    martinvonk and dbrakenhoff committed Jan 13, 2023
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  2. Update pull_request_template.md 

    Add black formatting (#448) and removing NB output to PR list.
    @raoulcollenteur
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Commits on Jan 16, 2023

  1. Fix runtime error in ChangeModel (#464)

    @raoulcollenteur
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  2. Have acf return conf instead of stderr (#465)

    @raoulcollenteur
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  3. 455 only allow pandas series as user input (#459) 

    Co-authored-by: dbrakenhoff <d.brakenhoff@artesia-water.nl>
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Commits on Jan 17, 2023

  1. Require user-provided response function to be instances (#466)

    @raoulcollenteur
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  2. Update (docstring) formatting on model.py

    @raoulcollenteur
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  3. Update docstrings from recharge.py

    @raoulcollenteur
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  4. Format docstrings in plots.py

    @raoulcollenteur
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  5. Format docstring for rfunc, solver, and decorators 

    Update after black
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  6. Format docstring of stats files and add references

    @raoulcollenteur
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  7. Fix RTD warnings and update api-docs a bit.

    @raoulcollenteur
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  8. Fix all warnings on RTD 

    And stop running notebooks in groundwater_paper folder for RTD built.
    @raoulcollenteur
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Commits on Jan 18, 2023

  1. 452 Change Numba from optional to full dependency (#468)

    @martinvonk
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Commits on Jan 19, 2023

  1. Raise deprecation warnings for all read methods (#470)

    @raoulcollenteur
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  2. remove dump menyanthes method (#471)

    @raoulcollenteur
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  3. Don't make stats docs twice anymore

    @raoulcollenteur
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  4. Fix a couple of pytest warnings

    @raoulcollenteur
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  5. Fix GH actions errors for tests

    @raoulcollenteur
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  6. fix #473 (#474)

    @dbrakenhoff
    dbrakenhoff committed Jan 19, 2023
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  7. Add impulse response functions to all rfunc (#472) 

    Co-authored-by: Martin Vonk <vonk.mart@gmail.com>
Co-authored-by: Mark Bakker <markbak@gmail.com>
    @raoulcollenteur @martinvonk @mbakker7
    3 people committed Jan 19, 2023
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Commits on Jan 20, 2023

  1. Update __init__.py 

    Remove Edelman It was added in branch 453 for testing purpose only, but was not removed again before the merge.
    @mbakker7
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  2. Update check_response_functions.ipynb 

    Removed Edelman from notebook as it is not imported by Pastas (and will likely be removed entirely in the future)
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Commits on Jan 24, 2023

  1. Add a warning when fit_constanc is False and transform is used 

    fixes issue #444
Also, update example_transform.py
    @rubencalje
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  2. 460 enhancement streamline time series pre processing utilities (#467) 

    Co-authored-by: Raoul Collenteur <raoulcollenteur@gmail.com>
Co-authored-by: Ruben Caljé <r.calje@artesia-water.nl>
Co-authored-by: Martin Vonk <vonk.mart@gmail.com>
    @dbrakenhoff @raoulcollenteur
    @rubencalje @martinvonk
    4 people committed Jan 24, 2023
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  3. Fix readthedocs issues

    @raoulcollenteur
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  4. Merge branch 'dev' of https://github.com/pastas/pastas into dev

    @raoulcollenteur
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  5. Fix example gallery

    @raoulcollenteur
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  6. Update 13_timestep_analysis.ipynb

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Commits on Jan 25, 2023

  1. Updated all docstrings to linewidth=88 format

    @raoulcollenteur
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  2. Merge branch 'master' into dev

    @raoulcollenteur
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  3. Update pyproject.toml

    @raoulcollenteur
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  4. change meanstress to gain_scale_factor (#483) 

    Co-authored-by: Martin Vonk <vonk.mart@gmail.com>
    @raoulcollenteur @martinvonk
    raoulcollenteur and martinvonk committed Jan 25, 2023
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  5. Update development.md (#489)

    @martinvonk
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  6. Move configuration files to pyproject.toml and delete setup.cfg (#490)

    @martinvonk
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Commits on Jan 26, 2023

  1. No need for this check anymore

    @raoulcollenteur
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  2. Delete B28H1808_2.pas 

    File was replaced by a pastas 0.22.0 version and unused since.
    @raoulcollenteur
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  3. Properly store recharge models and settings (#493)

    @raoulcollenteur
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  4. Update response arguments (#491)

    @raoulcollenteur
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  5. Fix to_dict methods for stressmodels (#497)

    @raoulcollenteur
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  6. Stop storing stresses as list if not necessary (#498)

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Commits on Jan 27, 2023

  1. Remove scipy 1.8 check (#496)

    @mbakker7
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  2. make "class" keyword consistent in to_dict methods (#499)

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Commits on Jan 30, 2023

  1. Solver as instance instead of classes (#487) 

    Co-authored-by: Martin Vonk <vonk.mart@gmail.com>
Co-authored-by: Mark Bakker <markbak@gmail.com>
    @raoulcollenteur @martinvonk @mbakker7
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  2. typos and fix some nb issues

    @dbrakenhoff
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  3. typos and fix some nb issues

    @dbrakenhoff
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  4. codacy

    @dbrakenhoff
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  5. rename some series to avoid name validation messages

    @dbrakenhoff
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  6. remove kwargs from rfunc.to_dict

    @raoulcollenteur
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  7. Update dev-branch to pastas 1.0.0b

    @raoulcollenteur
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  8. remove menyanthes dump method (#501)

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  9. update tarso file

    @raoulcollenteur
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  10. fix annoying pas-files.

    @raoulcollenteur
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  11. Update 01_basic_model.ipynb 

    Series recharge was given name "recharge" so that the given warning about nan values actually refers to a series with a name.
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Commits on Jan 31, 2023

  1. remove read module (#494)

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  2. remove deprecated time series and pas-files code (#503)

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  3. remove deprecations from stressmodels and rfunc (#504)

    @raoulcollenteur
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  4. remove old model code (#506)

    @raoulcollenteur
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  5. fix some grammar in docstrings

    @raoulcollenteur
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  6. Dynamic versioning (#507)

    @martinvonk
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  7. Add PyPI downloads badge to readme.rst (#512)

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Commits on Feb 1, 2023

  1. probably smarter to check file version first, then load model

    @dbrakenhoff
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Commits on Feb 2, 2023

  1. Fix TarsoModel

    @rubencalje
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  2. Update example_tarso.py

    @rubencalje
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  3. Update timeseries.py

    @raoulcollenteur
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  4. fix black formatting

    @raoulcollenteur
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  5. fix black formatting again

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  6. Merge branch 'dev' into 510-bug-multiple-info-warnings-about-replacem… 

    …ent-of-nans-in-stresses
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  7. Fix bug #510 (#520)

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  8. Improve testing routine and GitHub CI (#515) 

    Co-authored-by: Martin Vonk <vonk.mart@gmail.com>
Co-authored-by: Martin Vonk <66305055+martinvonk@users.noreply.github.com>
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    3 people committed Feb 2, 2023
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Commits on Feb 3, 2023

  1. Update metrics.py (#521) 

    Co-authored-by: Mark Bakker <markbak@gmail.com>
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  2. fix docstrings and unused code in acf (#524)

    @raoulcollenteur
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  3. 522 fix some bugs in time series and make more efficient (#523)

    @raoulcollenteur
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  4. add error when simulating NaNs (#348) (#526)

    @dbrakenhoff
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Commits on Feb 6, 2023

  1. Pastas docs 1.0 (#502) 

    Co-authored-by: Martin Vonk <vonk.mart@gmail.com>
Co-authored-by: Mark Bakker <markbak@gmail.com>
Co-authored-by: dbrakenhoff <d.brakenhoff@artesia-water.nl>
    @raoulcollenteur @martinvonk
    @mbakker7 @dbrakenhoff
    4 people committed Feb 6, 2023
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  2. Merge branch 'master' of https://github.com/pastas/pastas into dev

    @raoulcollenteur
    raoulcollenteur committed Feb 6, 2023
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  3. Update stressmodels.py

    @raoulcollenteur
    raoulcollenteur committed Feb 6, 2023
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  4. update master to 1.0.0 and status to stable

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    raoulcollenteur committed Feb 6, 2023
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  5. fix some things codacy found

    @dbrakenhoff
    dbrakenhoff committed Feb 6, 2023
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  6. Update metrics.py

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    raoulcollenteur committed Feb 6, 2023
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