def createMaskStep(self):
inputObj = self.inputObj.get()
maskFile=self.maskFile.get()
samplingRate = None
if(hasattr(inputObj, "getSamplingRate")):
samplingRate = inputObj.getSamplingRate()
else:
for key, attr in inputObj.iterInputAttributes():
print key
if hasattr(attr.get(), "getSamplingRate"):
samplingRate = attr.get().getSamplingRate()
if not samplingRate:
raise Exception("sampling rate required")
mask = Mask()
mask.setFileName(maskFile)
mask.setSamplingRate(samplingRate)
self._defineOutputs(outputMask=mask)
self._defineSourceRelation(self.inputObj, self.outputMask)
def createMaskStep(self):
inputObj = self.inputObj.get()
maskSrc=self.maskFile.get()
basename = os.path.basename(maskSrc)
maskDst = self._getPath(basename)
moveFile(maskSrc, maskDst)
samplingRate = None
if(hasattr(inputObj, "getSamplingRate")):
samplingRate = inputObj.getSamplingRate()
else:
for key, attr in inputObj.iterInputAttributes():
if hasattr(attr.get(), "getSamplingRate"):
samplingRate = attr.get().getSamplingRate()
if not samplingRate:
raise Exception("sampling rate required")
mask = Mask()
mask.setFileName(maskDst)
mask.setSamplingRate(samplingRate)
self._defineOutputs(outputMask=mask)
self._defineSourceRelation(self.inputObj, self.outputMask)
def importMaskStep(self, path, samplingRate):
""" Copy mask from maskPath.
"""
self.info("Using mask path: '%s'" % path)
# Copy the image file into the project
dst = self._getExtraPath(basename(path))
pwutils.copyFile(path, dst)
# Retrive image dimensions
imgh = ImageHandler()
_, _, z, n = imgh.getDimensions(dst)
# Create a 2D or 3D Mask, consider the case of n>1
# as the case of some volume maps in mrc format
if z > 1 or n > 1:
mask = VolumeMask()
else:
mask = Mask()
mask.setFileName(dst)
mask.setSamplingRate(samplingRate)
self._defineOutputs(outputMask=mask)
def createMaskStep(self):
inputObj = self.inputObj.get()
maskSrc = self.maskFile.get()
basename = os.path.basename(maskSrc)
maskDst = self._getPath(basename)
moveFile(maskSrc, maskDst)
samplingRate = None
if (hasattr(inputObj, "getSamplingRate")):
samplingRate = inputObj.getSamplingRate()
else:
for key, attr in inputObj.iterInputAttributes():
if hasattr(attr.get(), "getSamplingRate"):
samplingRate = attr.get().getSamplingRate()
if not samplingRate:
raise Exception("sampling rate required")
mask = Mask()
mask.setFileName(maskDst)
mask.setSamplingRate(samplingRate)
self._defineOutputs(outputMask=mask)
self._defineSourceRelation(self.inputObj, self.outputMask)
