GSTT-CSC / hazen

Quality assurance framework for Magnetic Resonance Imaging
https://github.com/GSTT-CSC/hazen
Apache License 2.0
22 stars 12 forks source link

Change SNR kernel size to 9x9 #371

Closed sophie22 closed 1 year ago

sophie22 commented 1 year ago

revert default kernel size to 9 when making the smoothing image for SNR calculation

TODO: in next version make optional CLI argument for kernel size, head coil - 9x9, body coil - 25x25

github-actions[bot] commented 1 year ago

Coverage

Coverage Report
FileStmtsMissCoverMissing
hazenlib
   ACRObject.py1011090%59–61, 66–69, 107, 123–124
   HazenTask.py26388%32–34
   __init__.py501178%140, 171–173, 176–178, 190–192, 206
   exceptions.py21576%17–21, 38
   utils.py1894377%61, 65, 75, 80, 117, 124–129, 140, 143–150, 170–172, 190–192, 211–213, 222, 227, 233, 284, 287, 295–300, 303, 346, 355, 371
hazenlib/tasks
   acr_geometric_accuracy.py1216447%41–73, 121–146, 160–194
   acr_ghosting.py1094361%34–49, 75–77, 107–109, 145–186
   acr_slice_position.py1354765%46–61, 187–233
   acr_slice_thickness.py1345857%34–48, 157–216
   acr_snr.py1356353%43–83, 93, 163–173, 207–222, 255–272
   acr_spatial_resolution.py2097166%58–83, 128, 171, 184–193, 275–326
   acr_uniformity.py833360%35–51, 108–133
   ghosting.py1525365%18–35, 50, 112–113, 117, 127–128, 154–156, 173–175, 221–259
   relaxometry.py2908969%207–208, 210, 221–224, 230–236, 265–309, 351, 385–403, 578, 624–626, 693, 767–789, 807–822
   slice_position.py1172380%28, 37–38, 49, 103–104, 130, 210, 217–234
   slice_width.py3605385%34–37, 41, 109, 168–188, 453, 458–459, 465, 470, 532–533, 782–823
   snr.py1676760%51, 68–73, 170–188, 203–212, 230–240, 267–277, 282–292, 323–336, 341–349, 378–391
   snr_map.py104199%291
   spatial_resolution.py2484582%36–39, 43, 64, 149, 208, 334–370
   uniformity.py792075%42–45, 51, 93–94, 101, 135–149
TOTAL285580272% 

Tests Skipped Failures Errors Time
200 0 :zzz: 0 :x: 0 :fire: 3m 17s :stopwatch: