Update 6/1

​Charge Exchange Paper

Made the changes discussed, responded to Luca's comments. Have a job queued on Stampede to test changes with collisional ionization.

MHD

Pressure protections started immediately, so there must have been some in the missing portion last time, too. But it still seems to be running reasonably ok. Here's the current frame:

https://www.pas.rochester.edu/~adebrech/MHD/MHD_high_res0036.png

https://www.pas.rochester.edu/~adebrech/MHD/MHD_high_res_B0036.png

https://www.pas.rochester.edu/~adebrech/MHD/MHD_high_res_temp0036.png

GJ 436b

Haven't hit a problem yet, it seems, so I'm continuing the current run to see where it does. If we do run into an issue, I'll run some tests with the outer boundary out farther, see if I can find a better balance between keeping the atmosphere hydrostatic and still having a decently-low ambient temperature.

​Spring code

Pretty much completely done with current to-do list. Merged into master branch on GitHub. Would still like to figure out how particles are distributed using MPI (how is an essential tree implemented?) and possibly adapt the spring portion to be a hybrid code, but OpenMP works well enough for now (though I'm segfaulting in the tests while using OpenMP, so need to fix that).

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