def exportLayer():
while atom.get() < min(nLayers, currentWrittenLayer + nLayersAtATime + 1):
k = atom.getAndIncrement()
if k < min(nLayers, currentWrittenLayer + nLayersAtATime):
IJ.log('Start exporting layer ' + str(k) +
' currentWrittenLayer - ' + str(currentWrittenLayer))
fc.exportFlat(project,
exportFolder,
1 / float(LMEMFactor),
baseName='alignedDownsampledEM',
bitDepth=8,
layers=[k])
str(toAlignPatchPath))
aff = AffineTransform(
[float(transforms[a]) for a in range(i + 2, i + 8)])
patch = Patch.createPatch(project, toAlignPatchPath)
layer = layerset.getLayers().get(l)
layer.add(patch)
patch.setAffineTransform(aff)
patch.updateBucket()
time.sleep(1)
IJ.log('Readjusting display')
fc.resizeDisplay(layerset)
IJ.log('Blending all layers')
Blending.blendLayerWise(layerset.getLayers(), True, None)
IJ.log('Exporting')
for scaleFactor in scaleFactors:
theBaseName = 'exported_downscaled_' + str(int(
1 / float(scaleFactor))) + '_' + channel
outputFolder = fc.mkdir_p(
os.path.join(os.path.dirname(transformsPath), theBaseName))
fc.exportFlat(project,
outputFolder,
scaleFactor,
baseName=theBaseName,
bitDepth=8,
flipX=flipX)
fc.closeProject(project)
fc.terminatePlugin(namePlugin, MagCFolder)