script create_warps.py resource management

[jordandekraker]

No description provided.

[jordandekraker]

Proceeding as discussed in #92

[jordandekraker]

Currently, the max matrix size is set to 200*200*200 = 8M. In space-corobl, matrix size is 128*256*128 = 4.2M.

Could perhaps set the max matrix size even larger, though in my other test cases this hangs (despite never reaching even close to memory limit).

Another quick note: its not actually the matrix size that matters but the number of GM voxels (which in my ex-vivo case was 456K after downsampling. In space-corobl this is typically ~80K). This could vary quite a bit depending on the sample, so matrix size is probably a better basis for downsampling.

[jordandekraker]

After spending a long time trying to get this step (and the next) to work on 3D PLI and BigBrain data at super high resolution, I realized the issue wasn't memory. I'll leave https://github.com/khanlab/hippunfold/tree/create_warps_resource_manage as is in case we need further memory management (in this case by downsampling) in the future.

The actual issue is outlined here:
https://stackoverflow.com/questions/10886971/alternatives-to-scipy-interpolate-griddata-that-dont-hang-on-aligned-points

I created a new branch with this fix: #95

[jordandekraker]

Closing this PR as it is no longer needed, but may be useful if we need downsampling to manage memory in the future!