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ENH: Load combined scale and translation transforms to generated PVs #139

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merged 1 commit into from
Nov 20, 2024
Merged

ENH: Load combined scale and translation transforms to generated PVs #139

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15 changes: 11 additions & 4 deletions AutoscoperM/AutoscoperM.py
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Original file line number Diff line number Diff line change
Expand Up @@ -595,6 +595,7 @@ def onLoadPV(self):
volumeSubDir = self.ui.tiffSubDir.text
transformSubDir = self.ui.tfmSubDir.text

# Check number of generated scale and translation transform files matches the number of volumes
vols = glob.glob(os.path.join(mainOutputDir, volumeSubDir, "*.tif"))
tfms_t = glob.glob(os.path.join(mainOutputDir, transformSubDir, "*_t.tfm"))
tfms_scale = glob.glob(os.path.join(mainOutputDir, transformSubDir, "*_scale.tfm"))
Expand All @@ -610,11 +611,14 @@ def onLoadPV(self):
)
return

# check 3 transform files have been generated (translation, scale and combined)
# and load only the combined scale and translation transform for each generated partial volume
for i in range(len(vols)):
nodeName = os.path.splitext(os.path.basename(vols[i]))[0]
volumeNode = slicer.util.loadVolume(vols[i])
translationTransformFileName = os.path.join(mainOutputDir, transformSubDir, f"{nodeName}_t.tfm")
scaleTranformFileName = os.path.join(mainOutputDir, transformSubDir, f"{nodeName}_scale.tfm")
transformFileName = os.path.join(mainOutputDir, transformSubDir, f"{nodeName}.tfm")
if not os.path.exists(translationTransformFileName):
raise ValueError(
f"Failed to load partial volume {nodeName}: "
Expand All @@ -625,11 +629,14 @@ def onLoadPV(self):
f"Failed to load partial volume {nodeName}: "
"Corresponding scaling transform file {scaleTranformFileName} not found"
)
translationNode = slicer.util.loadTransform(translationTransformFileName)
scaleNode = slicer.util.loadTransform(scaleTranformFileName)
if not os.path.exists(transformFileName):
raise ValueError(
f"Failed to load partial volume {nodeName}: "
"Corresponding combined transform file {transformFileName} not found"
)
transformNode = slicer.util.loadTransform(transformFileName)

volumeNode.SetAndObserveTransformNodeID(scaleNode.GetID())
scaleNode.SetAndObserveTransformNodeID(translationNode.GetID())
volumeNode.SetAndObserveTransformNodeID(transformNode.GetID())
self.logic.showVolumeIn3D(volumeNode)

slicer.util.messageBox("Success!")
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