def main(InputFile, ContrastName, Interleave, TR, Regressor, RunMC=""):
print "RunFillPipelineOnFile_SC.py"
print "RunMC:\t{}".format(RunMC)
print 'RunMC=="first":\t{}'.format(RunMC == "first")
print 'RunMC=="last":\t{}'.format(RunMC == "last")
print 'RunMC=="none":\t{}'.format(RunMC == "none")
if RunMC == "first":
print "Running MC first"
InputFile = RMC.main(InputFile)
print InputFile
STCFiles, Methods = STC.main(InputFile, TR, Interleave)
for stcfile, meth in zip(STCFiles, Methods):
if RunMC == "last":
MCstcfile = RMC.main(stcfile)
else:
MCstcfile = stcfile
print MCstcfile
GLM.main(MCstcfile, meth, Regressor, ContrastName, TR, Interleave)
def main(InputFile,ContrastName,Interleave,TR,Regressor):
print 'RunFillPipelineOnFile_SC.py'
STCFiles,Methods=STC.main(InputFile,TR,Interleave)
RMC.main(InputFile)
for stcfile,meth in zip(STCFiles,Methods):
GLM.main(stcfile,meth,Regressor,ContrastName)
print 'Method:\t{MC}\n{ln}'.format(MC=MC,ln=ln)
Files,MethOrder=STC.main(target)
print 'STC Files:\n{}'.format(Files)
for InputNii,meth in zip(Files,MethOrder):
if meth=='Filt':
Regressor='/share/studies/David_FS/Real/MotionCorrection/{}/{}/{}/20_Visual.txt'.format(motion,subID,MC)
else:
Regressor='/share/studies/David_FS/Real/MotionCorrection/{}/{}/{}/Visual.txt'.format(motion,subID,MC)
MCInputNii=RMC.main(InputNii)
GLM.main(MCInputNii,meth,Regressor,con)
print 'Reg:\t{Regressor}\nFile:\t{InputNii}\nMeth:\t{meth}'.format(Regressor=Regressor,InputNii=MCInputNii,meth=meth)
elif MC=='MCST':
print 'Method:\t{MC}\n{ln}'.format(MC=MC,ln=ln)
MCinputNii=RMC.main(target)
Files,MethOrder=STC.main(MCinputNii)
print 'STC Files:\n{}'.format(Files)