Add thirty models#13

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joeyshuttleworth wants to merge 89 commits intomasterfrom

fix_transition_matrix

Commits on Oct 24, 2022

Change default parameter handling
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Remove unnecessary line from test
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Add first 4 models. Add tests to generate .mmt and graph files
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Commits on Oct 25, 2022

Add tests for connectedness as reversibility. Add models 4,5
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Commits on Nov 1, 2022

Fix draw_graph handling of transition rates
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Add more models
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Commits on Apr 28, 2023

Fix get_transition_matrix. Fix reversibility check. Add show_html switch to draw_graph
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Merge branch 'master' into fix_transition_matrix
joeyshuttleworth
authored

Commits on May 3, 2023

Add models 11 and 30. Remove duplicated test file
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Merge branch 'fix_transition_matrix' of github.com:CardiacModelling/Markov-builder into fix_transition_matrix
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Lint and isort
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Update test_parameterise_rates
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Add test_30_models.py
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Add myokit files for testing
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Update pytest.yml
joeyshuttleworth
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Update pytest.yml
joeyshuttleworth
authored

Commits on Jun 13, 2023

Make single quote use more consistent
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Fix indentation. Distribute trajectories according to number of trajectories
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Fix sympy depreciation warning (latex output)
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Add test for dataclass exception (must be subclass of state_attributes_class)
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Merge branch 'fix_transition_matrix' of github.com:CardiacModelling/Markov-builder into fix_transition_matrix
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Raise TypeError not Exception
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Remove old, broken test output
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Fix test_bad_dataclass_exception
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Remove unnecessary checks on attribute dataclass
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Lint
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Add models
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Commits on Jun 16, 2023

Add some models with HH-style gating
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Sort imports
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Fix myokit model generation
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Commits on Aug 2, 2023

Commits on Sep 5, 2023

Change model parameterisation
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Commits on Sep 6, 2023

Standardise model parameterisation
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Commits on Nov 14, 2023

Fix model generation
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Commits on Dec 6, 2023

Simplify Kemp model into two connected components
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Commits on Jun 25, 2024

Replace depcreciated np.NaN with np.nan
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Commits on Jul 8, 2024

NaN -> nan
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Commits on Mar 17, 2025

Add model 20
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Add model20.py
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Commits on Mar 18, 2025

Parameterise Mazhari model. Fix parameter bug
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Change order of state addition
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Reorder parameters
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Commits on Oct 6, 2025

Strenghten test for "get_eliminate_state..." Move permutation code to Q matrix func
Joseph G. Shuttleworth
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Remove print
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Commits on Oct 7, 2025

Fix doctstring
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Commits on Nov 20, 2025

Update build system
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Fix whitespace
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Commits on Nov 27, 2025

Update docstrings, .gitignore, and type hints
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Update init and use clearer param names. Update models
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Update models and tests
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Simplify exception for undefined parameters
Joseph G. Shuttleworth
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Change error type to align with code
Joseph G. Shuttleworth
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Commits on Nov 28, 2025

More docstring change. Variable name change
Joseph G. Shuttleworth
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Lint
Joseph G. Shuttleworth
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Add drug_bound field by default
Joseph G. Shuttleworth
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Update param names. Remove debug format string
Joseph G. Shuttleworth
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Turn off E501 "line too long"
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Lint
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Remove () from class defn
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Fix unused var
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Modify project setup for isort
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Merge branch 'master' into HEAD
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Update workflow
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Update isort conf
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Update isort settings (again)
Joseph G. Shuttleworth
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Change isort settings
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Update isort settings
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Remove unnecessary "get" function
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Commits on Dec 2, 2025

Fix docstrings using ruff. Add ruff and sphinx to docs optional dependencies
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Commits on Dec 5, 2025

Delete setup.py
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Commits on Dec 16, 2025

Add extra models
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Improve exception messages
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Lint
Joseph G. Shuttleworth
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Lint and isort
Joseph G. Shuttleworth
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Commits on Dec 17, 2025

Revert ah<->bh swap
joeyshuttleworth
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Fix mangled model file
Joseph G. Shuttleworth
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Remove `open_state` logic form 30 models
Joseph G. Shuttleworth
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Fix tests and use pytest
Joseph G. Shuttleworth
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Split readme sentences onto newlines
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Lint, isort
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Remove old config
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move config to toml
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Tidy 30 new models
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Restore flake8 file
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isort
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Commits on Dec 18, 2025

Fix model 0 parameter
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Eliminate correct state in test comparison
Joseph G. Shuttleworth
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Remove redundant 'open_state' vars
Joseph G. Shuttleworth
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