Before: phase reconstructions varied with the square of the z step size.
After: phase density reconstructions are invariant to the z step size.
This PR:
changes the earlier "phase" reconstruction to a "phase density" reconstruction, which is constant as a function of voxel size. The "phase density" is comparable to a "fluorophore density" or "concentration", which does not change if you change the size of a voxel.
removes scaling factors for simulations and reconstructions, while leaving the reconstruction contrast unchanged
adds automated tests for voxel-size invariance (z and xy)
Note: this is a PR to alg-dev, a new branch from main that I will develop on for the next few PRs. My commit history is not clean (git accident), but this PR's diff is clean.
This PR is paired with a confluence page with more context.
Before: phase reconstructions varied with the square of the z step size. After: phase density reconstructions are invariant to the z step size.
This PR:
Note: this is a PR to
alg-dev, a new branch from main that I will develop on for the next few PRs. My commit history is not clean (git accident), but this PR's diff is clean.