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Release 0.2.0 #214

Merged
merged 202 commits into from
Jul 18, 2023
Merged

Release 0.2.0 #214

merged 202 commits into from
Jul 18, 2023

Commits on Apr 28, 2023

  1. move to xarray@main instead of custom branch with xr#7739, next relea… 

    …se until we can conda/pip install xarray
    @jmccreight
    jmccreight committed Apr 28, 2023
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  2. Merge pull request #153 from jmccreight/feat_xr_dep 

    change xarray dep
    @jmccreight
    jmccreight authored Apr 28, 2023
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  3. fix examples env

    @jmccreight
    jmccreight committed Apr 28, 2023
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  4. catch up to main

    @jmccreight
    jmccreight committed Apr 28, 2023
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  5. Merge pull request #154 from jmccreight/bug_ex_env 

    fix examples env
    @jmccreight
    jmccreight authored Apr 28, 2023
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Commits on May 3, 2023

  1. prms parameters from dictionary

    @jmccreight
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  2. merge upstream

    @jmccreight
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  3. lint

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  4. linted

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  5. lint again

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  6. Merge pull request #155 from jmccreight/feat_csdms_details 

    Feat csdms details
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    jmccreight authored May 3, 2023
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Commits on May 5, 2023

  1. python version in mamba, rm python setup action

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  2. unpin black and click

    @jmccreight
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  3. black formatting changes

    @jmccreight
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  4. unpin black, rm click, more widely

    @jmccreight
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  5. Merge pull request #157 from jmccreight/feat_unpin_black 

    Feat unpin black
    @jmccreight
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  6. merge upsream/main

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  7. try micromamba python version again

    @jmccreight
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  8. bump to 3.8 minimum version

    @jmccreight
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Commits on May 8, 2023

  1. refactor: refactor dependencies for standard installation

    @jdhughes-usgs
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  2. Merge remote-tracking branch 'upstream/main' into refactor-pypi 

    # Conflicts:
#	.flake8
    @jdhughes-usgs
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  3. bump to 3.9 and GCC 12

    @jmccreight
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  4. back to GCC 11, work from setup-fortran side

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Commits on May 9, 2023

  1. self-driving: all but channel budget

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  2. self-driving: channel variables to track inputs to channel and fix ma… 

    …ss balance
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  3. Merge pull request #156 from jmccreight/bug_mamba 

    python version in mamba, rm python setup action
    @jmccreight
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  4. test_self_drive added

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  5. merge upstream/main

    @jmccreight
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  6. make skipped fortran tests obvious

    @jmccreight
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  7. minor gitignore legacy thing

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Commits on May 10, 2023

  1. better numba messages

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  2. linted

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  3. merge upstream/main

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  4. Merge pull request #160 from jmccreight/bug_self_driving 

    self driving
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  5. Merge branch 'main' into feat_better_numba_msgs

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  6. Merge pull request #161 from jmccreight/feat_better_numba_msgs 

    better numba messages
    @jmccreight
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  7. solve merge conflicts

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  8. 'revert' notebooks

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Commits on May 12, 2023

  1. fix and fix up model graphs

    @jmccreight
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  2. linted

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  3. Merge pull request #162 from jmccreight/bug_model_graph 

    fix and fix up model graphs
    @jmccreight
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  4. Merge branch 'main' into refactor-pypi

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  5. Merge branch 'refactor-pypi' of github.com:jdhughes-usgs/pywatershed … 

    …into refactor-pypi

# Conflicts:
#	CITATION.cff
#	pyproject.toml
#	pywatershed/analysis/model_graph.py
#	pywatershed/analysis/process_plot.py
#	pywatershed/analysis/utils/colorbrewer.py
#	pywatershed/utils/__init__.py
#	setup.py
    @jdhughes-usgs
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  6. Bump python version in pyproject.toml

    @jdhughes-usgs
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  7. modify setup py

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  8. Merge pull request #164 from jdhughes-usgs/refactor-pypi 

    refactor: refactor dependencies for standard installation
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  9. pyproject.toml rm3.8 support, add "all" dependencies option

    @jmccreight
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Commits on May 22, 2023

  1. Add whats-new logs workflow

    @jmccreight
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  2. limit python

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  3. Merge pull request #181 from jmccreight/feat_whats_new 

    Add whats-new logs workflow
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Commits on May 23, 2023

  1. ci(release): automate release procedure 

    * add release.yaml workflow to automate release/packaging/publishing
* symlink gfortran dylibs on macOS to workaround CI errors
* reorganize utility scripts under .github/scripts
* add DEVELOPER.md, CONTRIBUTING.md, .github/RELEASE.md
* use git-cliff to make changelogs, introduce cumulative HISTORY.md
* consolidate conda environments in environment.yml in proj root
* add doc optional dependency group to pyproject.toml, use for RTD
* switch provision-with-micromamba to setup-micromamba action
* remove pip requirements files
    @wpbonelli
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Commits on May 25, 2023

  1. what is new rst

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  2. Feat: automatic release to PyPi workflow. #179

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  3. Merge pull request #179 from w-bonelli/release 

    Automate release, workaround macOS CI errors
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Commits on May 26, 2023

  1. Refactor: PRMSChannel init self._muskingum_mann from numpy, numba, fo… 

    …rtran instead if during calculate
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  2. Merge pull request #182 from jmccreight/refactor_channel 

    Refactor: PRMSChannel init self._muskingum_mann from numpy, numba, fo…
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  3. Bug: protect parameters as readonly np.arrays and MappingProxyTypes i… 

    …nstead of dicts
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  4. update docs and merge conflicts

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  5. Merge pull request #183 from jmccreight/bug_protect_parameters 

    Bug: protect parameters as readonly np.arrays and MappingProxyTypes i…
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Commits on May 27, 2023

  1. Feat asv pws (#184) 

    Feat: ASV performance benchmarking (locally only, for now)
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  2. Update README.md

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  3. Merge pull request #185 from EC-USGS/jmccreight-patch-1 

    Update README.md
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  4. Update README.md

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  5. Merge pull request #186 from EC-USGS/jmccreight-patch-asv_badge 

    Update README.md
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Commits on Jun 6, 2023

  1. redo param separation with new parameter class

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Commits on Jun 7, 2023

  1. Feature: individual process models run from separated parameters.

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  2. lint

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  3. add separated param files to test data

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Commits on Jun 8, 2023

  1. numba typing fix for windows

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Commits on Jun 9, 2023

  1. update README.md

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  2. update README.md 2

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  3. Merge pull request #192 from jmccreight/doc_update_readme 

    Doc update readme
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  4. update .github/RELEASE.md

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  5. Merge pull request #193 from jmccreight/doc_update_release 

    update .github/RELEASE.md
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Commits on Jun 12, 2023

  1. numba typing fixes for prms channel

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  2. Merge remote-tracking branch 'upstream/develop' into feat_run_param_sep

    @jmccreight
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  3. finalize whats new for release

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  4. Merge pull request #195 from jmccreight/doc_whats_new_for_release 

    finalize whats new for release
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  5. lint

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  6. merge upstream/develop

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Commits on Jun 14, 2023

  1. refactor: separated PRMS parameters into discretizations for hrus and… 

    … segments (dis_hru, dis_seg) and onto individual PRMS processes defined in pywatershed
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  2. lint

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Commits on Jun 15, 2023

  1. Refactor: control does not take/know parameters, pass dis and paramet… 

    …ers to individual processes, individual process tests passing
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Commits on Jun 16, 2023

  1. Refactor: model now takes a dictionary of [control, dis, process, ord… 

    …er] while maintaining backwards compatability, very minor changes to api (passing list instead of unpacking list for arguments).
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  2. linted

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  3. re-xfail snow

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  4. fix notebooks

    @jmccreight
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  5. improve test_model

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  6. case sensitive error from macos

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  7. details with asv

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Commits on Jun 21, 2023

  1. feature: Model and Control from yaml files

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  2. lint

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  3. fix parameter access

    @jmccreight
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  4. clean up more dead code

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Commits on Jun 22, 2023

  1. refactor: calc_method clean up on channel and gw

    @jmccreight
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  2. refactor: calc_method clean up on canopy

    @jmccreight
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  3. refactor: calc_method clean up on prms snow

    @jmccreight
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  4. refactor: calc_method clean up on prms runoff and soilzone

    @jmccreight
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  5. rename module storageUnit to storage_unit

    @jmccreight
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  6. reactor: StorageUnit renamed to Process, before going to Conservative… 

    …Process subclass Process is conservative
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Commits on Jun 23, 2023

  1. Refactor Process to ConservativeProcess WIP incl Canopy, Runoff, Snow

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  2. Refactor Process to ConservativeProcess WIP incl PRMSGroundwater, PRM… 

    …SRunoff, PRMSSoilzone
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  3. Refactor Process to ConservativeProcess w/ PRMSChannel

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  4. refactor: rename StorageUnit to ConservativeProcess class, subclass i… 

    …t from a Process class which does not have a budget. remove options from model except for input_dir, all other options go via control, new set_options on Process and ConservativeProcess
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  5. rename PRMSSolarGeometry and PRMSAtmosphere modules

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  6. refactor rename prms canopy module

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  7. lint

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  8. refactor move all hydrology module names to lower case

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  9. Refactor of hydrology module names complete, including fortran compile

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  10. Bugfix standard install and editable installs without and with fortra… 

    …n, respectively. Details of control.yml files input_dir.
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  11. xfail test_prms_to_mf6

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  12. fix notebooks after refactor

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  13. Update README.md

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  14. minor fix to nb

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  15. merge upstream/develop

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  16. introduce pre-commit

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  17. try pre-commit

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  18. try pre-commit 2

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  19. Feature: add pre-commit hook to strip output from jupyter notebooks

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  20. Merge remote-tracking branch 'jmccreight/feat_run_param_sep' into fea… 

    …t_precommit_nbstripout
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Commits on Jun 27, 2023

  1. documentation: major documentation polish and additions

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  2. end of documentation epic (for now)

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  3. update whats new

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  4. lint

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Commits on Jun 28, 2023

  1. fix notebook

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  2. minor

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  3. remove input_dir arg from Model

    @jmccreight
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  4. update Model examples

    @jmccreight
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  5. clean up calc_method

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  6. clean up calc_method a bit more

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  7. lint

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  8. merge conflicts in DEVELOPER.md and new pre-commit-config

    @jmccreight
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  9. blackdoc again

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  10. merge jmccreight/feat_param_sep

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  11. blackdoc again?

    @jmccreight
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  12. fix pre-commit yaml

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Commits on Jun 29, 2023

  1. move old notebooks to examples/developer, introduce new notebook 01, … 

    …other catch up
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  2. fix tests for non-fortran installs

    @jmccreight
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  3. move Control attribute "config" to "options"

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  4. merge jmccreight/feat_param_sep

    @jmccreight
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  5. typing and calc_methods

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  6. data_model dd.from_netcdf(encoding=False) by default instead of True

    @jmccreight
    jmccreight committed Jun 29, 2023
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  7. fix notebook config->options

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Commits on Jun 30, 2023

  1. Merge pull request #188 from jmccreight/feat_run_param_sep 

    Feat run param sep
    @jmccreight
    jmccreight authored Jun 30, 2023
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  2. remove old notebook

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  3. a few details

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  4. notebook 00_processes draft

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  5. feature: new notebook 01_multi-process_models

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  6. fix notebook 02

    @jmccreight
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  7. fix nb 02 for realz

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  8. change environment.yml to acommodate wholetale

    @jmccreight
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  9. update env for notebook deps

    @jmccreight
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  10. update readme and envionment

    @jmccreight
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  11. Merge pull request #197 from jmccreight/feat_precommit_nbstripout 

    Feat precommit nbstripout
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    jmccreight authored Jun 30, 2023
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Commits on Jul 1, 2023

  1. ci(release): remove post-release reset PR steps

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Commits on Jul 2, 2023

  1. Merge pull request #203 from w-bonelli/release 

    ci(release): remove post-release reset PR steps
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  2. update nb 00

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  3. nb 00 again

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Commits on Jul 7, 2023

  1. update nbs a bit

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Commits on Jul 8, 2023

  1. complete notebooks 00 and 01

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  2. optional hvplot, add nhm_id to hvplot hru process plot on hrus

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    jmccreight committed Jul 8, 2023
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Commits on Jul 10, 2023

  1. rid of the symlinked control files for windows sake

    @jmccreight
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  2. * add tqdm for model iteration progress bar 

    * dont initialize_netcdf twice for Model or Process/ConservativeProcess
* add Process class name to netcdf output
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  3. Pass selected netcdf files from control through output

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Commits on Jul 11, 2023

  1. clean up options dispatch by model, atmosphere netcdf_finalize

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  2. update notebooks 00-02 again

    @jmccreight
    jmccreight committed Jul 11, 2023
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  3. lint

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  4. update index.rst to welcome and point to wholetale

    @jmccreight
    jmccreight committed Jul 11, 2023
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  5. update index.rst to welcome and point to wholetale

    @jmccreight
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  6. update DEVELOPER.md

    @jmccreight
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  7. update notebook 02

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  8. update developer.md

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Commits on Jul 12, 2023

  1. Merge pull request #204 from jmccreight/feat_nb_improvements 

    Feat nb improvements
    @jmccreight
    jmccreight authored Jul 12, 2023
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  2. prep for release docs/whats_new, markdown docs, etc

    @jmccreight
    jmccreight committed Jul 12, 2023
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  3. release polish

    @jmccreight
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  4. Merge remote-tracking branch 'upstream/develop' into feat_prep_release

    @jmccreight
    jmccreight committed Jul 12, 2023
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  5. more release polish

    @jmccreight
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  6. ci: use packaging.version.Version in update_version.py

    @wpbonelli
    wpbonelli committed Jul 12, 2023
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  7. update .github/RELEASE.md

    @wpbonelli
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  8. Merge pull request #206 from w-bonelli/fix-version-script 

    ci: use packaging.version.Version in update_version.py
    @jmccreight
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  9. update README.md

    @jmccreight
    jmccreight committed Jul 12, 2023
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  10. Update RELEASE.md

    @jmccreight
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  11. Merge pull request #205 from jmccreight/feat_prep_release 

    Feat prep release
    @jmccreight
    jmccreight authored Jul 12, 2023
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  12. ci: fix update_version.py, make version.txt and version.py compatible

    @wpbonelli
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  13. Merge pull request #207 from w-bonelli/version 

    ci: fix update_version.py, make version.txt and version.py compatible
    @jmccreight
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  14. update RELEASE.md

    @jmccreight
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  15. release and asv updates

    @jmccreight
    jmccreight committed Jul 12, 2023
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  16. asv updates

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  17. update Model doc examples

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Commits on Jul 17, 2023

  1. Merge pull request #208 from jmccreight/asv_for_release 

    Asv for release
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  2. update RELEASE.md

    @jmccreight
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  3. merge upstream/develop

    @jmccreight
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  4. details

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  5. Merge pull request #209 from jmccreight/doc_updates_pre_v0.2.0 

    Doc updates pre v0.2.0
    @jmccreight
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  6. test release

    @wpbonelli
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  7. just cat version.txt, don't use update_version.py -g (needs filelock)

    @wpbonelli
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  8. Merge pull request #211 from w-bonelli/fix-release-ci 

    Fix release ci
    @jmccreight
    jmccreight authored Jul 17, 2023
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Commits on Jul 18, 2023

  1. fix update_version.py: read authors from CITATION.cff and write to ve… 

    …rsion.py
    @wpbonelli
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  2. empty merge of upstream/develop

    @jmccreight
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  3. Merge pull request #213 from w-bonelli/fix-update-version 

    fix update_version.py: read authors from CITATION.cff, write to version.py
    @jmccreight
    jmccreight authored Jul 18, 2023
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  4. whats-new.rst for release

    @jmccreight
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  5. ci(release): set version to 0.2.0, update changelog

    @github-actions
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