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Improve model definition ui#29

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Merged

teddygroves merged 28 commits intomaindtu-qmcm/enzax:mainfrom usable_uidtu-qmcm/enzax:usable_uiCopy head branch name to clipboardDec 13, 2024

+1,202-1,348

Commits

Commits on Nov 27, 2024

• WIP better ui

  teddygroves

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  c8ddebd

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• allostery, tests (not passing!)

  teddygroves

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  c14a469

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• tidying

  teddygroves

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  90e79ab

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• Fix missing jnp.log in test

  teddygroves

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  259961e

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• More fixes - now the rate equations test passes!

  teddygroves

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Commits on Nov 28, 2024

• Updating linear example

  teddygroves

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  952a909

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• Fix incorrect dgf in linear model

  teddygroves

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  3f3937e

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• trying to get methionine to work

  teddygroves

  committed
  2334e1c

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• Fix incorrect kms in methionine model

  teddygroves

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  34cc521

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• flatten species indexes

  teddygroves

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  70395e7

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• Fix methionine kis

  teddygroves

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  31a0cdc

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• Update gradient test

  teddygroves

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  a201922

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• fix gradient test

  teddygroves

  committed
  cccb879

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• delete unused files, tidy grad test

  teddygroves

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  b9736e6

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• Update gh action to use uv

  teddygroves

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  97e5e7b

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• Update grad test to be approximate

  teddygroves

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  6b8b627

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Commits on Nov 29, 2024

• get mcmc demo to work

  teddygroves

  committed
  0da0dd3

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• get steady state demo to work

  teddygroves

  committed
  a0e8c46

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• update readme

  teddygroves

  committed
  c3dffff

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• Merge branch 'main' into usable_ui

  teddygroves

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  12b4dac

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• update getting started docs

  teddygroves

  committed
  841ae08

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• Fix typo in python example

  teddygroves

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  296befa

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Commits on Dec 11, 2024

• define rate equation models using reaction ids

  teddygroves

  committed
  62884a1

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• Fix sbml model errors

  teddygroves

  committed
  fc15ee6

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• Remove use of deprecated KeyArray

  teddygroves

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  01cd8ce

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• Update KineticModelSbml

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  AlberteSloth

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Commits on Dec 13, 2024

• Updated sbml_demo

  AlberteSloth

  committed
  5495772

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• fix pre-commit

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