def minctoecatWorkflow(name):
workflow = pe.Workflow(name=name)
#Define input node that will receive input from outside of workflow
inputNode = pe.Node(niu.IdentityInterface(fields=["in_file", "header"]),
name='inputNode')
conversionNode = pe.Node(interface=minctoecatInterfaceCommand(),
name="conversionNode")
#conversionNode.inputs.out_file=name+'.v'
sifNode = pe.Node(interface=sifCommand(), name="sifNode")
eframeNode = pe.Node(interface=eframeCommand(), name="eframeNode")
###imgunitNode = pe.Node(interface=imgunitCommand(), name="imgunitCommand")
###imgunitNode.inputs.u = "Bq/cc"
outputNode = pe.Node(niu.IdentityInterface(fields=["out_file"]),
name='outputNode')
workflow.connect(inputNode, 'in_file', conversionNode, 'in_file')
workflow.connect(inputNode, 'in_file', sifNode, 'in_file')
workflow.connect(inputNode, 'header', sifNode, 'header')
workflow.connect(conversionNode, 'out_file', outputNode, 'out_file')
workflow.connect(conversionNode, 'out_file', eframeNode, 'pet_file')
workflow.connect(sifNode, 'out_file', eframeNode, 'frame_file')
###workflow.connect(eframeNode, 'out_file', imgunitNode, 'in_file')
###workflow.connect(imgunitNode, 'out_file', outputNode, 'out_file')
return (workflow)
def _run_interface(self, runtime):
conversionNode = minctoecatInterfaceCommand()
conversionNode.inputs.in_file = self.inputs.in_file
conversionNode.run()
if isdefined(self.inputs.header):
isotopeNode = e7emhdrInterface()
isotopeNode.inputs.in_file = conversionNode.inputs.out_file
isotopeNode.inputs.header = self.inputs.header
isotopeNode.run()
sifNode = sifCommand()
sifNode.inputs.in_file = self.inputs.in_file
sifNode.inputs.header = self.inputs.header
sifNode.run()
eframeNode = eframeCommand()
eframeNode.inputs.frame_file = sifNode.inputs.out_file
eframeNode.inputs.pet_file = isotopeNode.inputs.out_file
eframeNode.run()
imgunitNode = imgunitCommand()
imgunitNode.inputs.in_file = eframeNode.inputs.pet_file
imgunitNode.inputs.u = "Bq/cc"
imgunitNode.run()
self.inputs.out_file = imgunitNode.inputs.out_file
else:
self.inputs.out_file = conversionNode.inputs.out_file
return runtime