James Marshall

icon indicating a website link http://staffwww.dcs.shef.ac.uk/people/J.Marshall/james.html

icon company Opteran Technologies icon location Chief Scientific Officer at Opteran Technologies / Professor of Theoretical and Computational Biology at University of Sheffield

Results 39 comments of James Marshall

Stream lines shading should be scaled to avoid barely visible stream lines

Thanks @renapagli - I'm downgrading this to 'enhancement' and moving to the second release as, for me at least, the behaviour is as expected and reasonable. I also don't find...

Stream lines shading should be scaled to avoid barely visible stream lines

A better solution to this may be to allow the colourmap to be specified by keyword argument - other colourmaps would still have visible lines at low intensities.

Use parser library in parseModel

I thought about this of course when first writing the code, but it seemed like complete overkill for such a simple grammar and no simpler than simply writing the pushdown...

Add dynamic plotting while computation is running (especially useful for multiagent simulations)

I think you've added all this functionality now @joefresna ? Fine to close?

Add bounded arena

Shall we stick with periodic boundary conditions for the first release?

Add bounded arena

I'm making a Second Release milestone now - it would be useful for some other issues I'm sure...

Figure download is not working on Chrome

Is this still the case?

Add color selection by user for state

Add colour_list keyword for plotting functions, with default value of global variable `line_color_list` (which should be capitalised ;) - don't use widgets

An error in Jupyter cell stops the plotting of previous figures

Sample code from @joefresna [StrangeBugTest.ipynb.zip](https://github.com/DiODeProject/MuMoT/files/1417461/StrangeBugTest.ipynb.zip)