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<html>
<head>
<title>To Do</title>
</head>
<body>
<h1>To Do</h1>
<ul>
<li> Streamline the process of generating tables. Show one
trajectory at a time.
<li> Hide unused fields in the method editor.
<li> Collect and analyze test problems.
<li> Add copy and paste to the species, reaction and parameter lists.
Also add ability to clear selected columns.
<li> Plot reaction propensities.
<li> Check export of compartments to SBML.
<li> Add import/export capabilities for SBML shorthand.
<li> The MS Windows backend for wxPython does not correctly fade
disabled bitmap buttons. I have added explicit SetBitmapDisabled()
calls to work around this issue. Remove these calls when this issue
is resolved.
</ul>
<!-- Private ToDo
<ul>
<li> Cache the model before duplication.
<li> Refactor by moving code from ContentHandler, Mainframe, and State to
the responsible classes.
<li> Add undo edit to the grid editor.
<li> I need to check if the species populations are negative. I can't just check that the propensities are non-negative. _computePropensities in OdeReaction.
<li> Standardize the solver names.
<li> Add an error tolerance to the inhomogeneous solvers. Then use numerical integration.
<li> Why didn't the all reactions plot work for the Schlogl model?
<li> Preserve the order of models and methods.
<li> Task queue.
<li> Fix names when exporting to Mathematica.
<li> Sort by any field.
<li> Index and large window for recorded species.
<li> Search bar for species and reactions.
<li> Select all species and reactions for Mathematica solver.
<li> Try 53-bit discrete deviates with the direct methods.
<li> Consider using kernel functions to obtain smooth PDF's for simulation
output.
<li> Perhaps I should scale the histogram values by the inverse bin width.
This would give it unit area.
<li> Support SBML export of non-mass-action kinetic laws.
<li> Find out why Proctor fails with ODE.
<li> Reduce validity checks in hybrid method.
<li> Check for negative populations in ODE methods. Solve population == 0
and reduce the time step.
<li> Why doesn't Wilkinson's mm-stoch2 model work?
<li> Get rid of read errors when killing simulations.
<li> Save the preferences.
<li> Write a mass-action propensities functor that stores the
reactants in a StaticArrayOfArrays.
<li> In Propensities: call a function that updates all affected
propensities for a given reaction instead of computing the
propensities individually. Use the reaction influence data
structure. This will save overhead on function calls.
<li> Tweak rebuilding frequencies for sorting methods.
<li> Track errors for next reaction method.
<li> Get rid of EssTerminationCondition.
<li> Check out GUI2Exe.
<li> Record the state of the discrete, uniform generator at the beginning
of each trajectory. This would make each trajectory reproducible.
</ul>
-->
</body>
</html>
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