Get back to original pre-refactor performance

[rpeltekov]

• [x] fix the eval scan procedure as well, so that i can queue basis check comparisons
• [x] need to make sure shim scan ALL slices works and schedules all relevant slices properly
• [x] that the histograms are being saved correctly,
• [x] #17
• [x] make sure shim actually works effectively
  • this involves making sure the scans are actually performing optimally, as they are expected to be doing so.
  • will likely need to increase the TE to reduce noise in the B0Map acquisitions, and then can hopefully get clearer image
  • to increase TE, will probably need to finish #5
  • if that still does not work, will need to characterize gradients better to see if they are actually linear #16, which is dependent on #2

[rpeltekov]

trying to get the second task working. stumbling here where too many slices are selected...

[rpeltekov]

it looks like to get the "doAllShimmedScans" selecting the correct slices to actually attempt shimming on, the easiest marker / sign of a valid slice with signal after ROI selection is found by whether the slice of the BackgroundB0Map contains any statistics. i.e. is shimTool.shimStats[0][i] is None.

[rpeltekov]

moving the rest to a new issue, #19 , because we have reached pre-refactor performance, passing it now with the phase unwrapping already being implemented. this "bug" has been reached, and to declutter we close it