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jarmarshall avatar jarmarshall commented on August 25, 2024

Preliminary functionality added, as illustrated in MuMoTtestNonConstant.ipynb

To do:

  • check SSA and MA implementation of this functionality ( @joefresna )
  • check Master Equation implementation of this functionality ( @tbose1 )
  • enable field-based plots for non-constant system size ( me )
  • remove simplex for non-constant system size in field-based plots; check status via _constantSystemSize(NB do constant reactants lead to non-constant system size?) ( @tbose1 / me)

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jarmarshall avatar jarmarshall commented on August 25, 2024

In recent commits:

  • Field-based plots enabled
  • Simplex removed from field-based plots

Still to do:

  • SSA / MA / Master Equation integration
  • Representation of constant reactants in visualise and _controller (brackets and LaTeX rendering)

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jarmarshall avatar jarmarshall commented on August 25, 2024

_plotLimitsWidget changes possibly being overriddden by _fig_formatting_2D and _fig_formatting_3D, @tbose1 ? (see also issue #49 )

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tbose1 avatar tbose1 commented on August 25, 2024

Possibly right, I will look into it.

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tbose1 avatar tbose1 commented on August 25, 2024

in the class MuMoTview there is the line self._plotLimits = 1 in the init() function. Could that cause the problem that the limit slider doesnโ€™t work?

_fig_formatting_2D/3D should read the axes limits from the figure passed on to it. So, if an axis limit is preset by the limit slider then this information should not be altered by _fig_formatting_2D/3D except you set 'ax_reformat=True'. However, in the stream plot we have 'ax_reformat=False', so the problem should not be caused by _fig_formatting_2D/3D, I think.

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jarmarshall avatar jarmarshall commented on August 25, 2024

Axes limit setting in 2d plots now fixed - 3d plots should work but be good to test with a 3d non-constant size system

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joefresna avatar joefresna commented on August 25, 2024

Varying population cannot be used with network multiagent simulations.
MuMoT should automatically detect this situation and deactivate networks (leaving active only the moving-particles view).

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