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)
for MC in MCs:
moveFile=MoveBase.format(sub=subID)
toFile='/share/studies/David_FS/Real/MotionCorrection/{}/{}/{}/HRF.nii'.format(motion,subID,MC)
target='/share/studies/David_FS/Real/MotionCorrection/{}/{}/{}/HRF.nii.gz'.format(motion,subID,MC)
if not os.path.exists(target):
cmd='cp {} {};gzip {}'.format(moveFile,toFile,toFile)
pr=sp.Popen(cmd,shell=True)
pr.wait()
if MC=='ST':
Files,MethOrder=STC.main(target)
print 'STC Files:\n{}'.format(Files)
print 'Method:\t{MC}\n{ln}'.format(MC=MC,ln=ln)
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)
GLM.main(InputNii,meth,Regressor,con)
print 'Reg:\t{Regressor}\nFile:\t{InputNii}\nMeth:\t{meth}'.format(Regressor=Regressor,InputNii=InputNii,meth=meth)
