def process_opts(self):
"""apply each option"""
# ----------------------------------------
# set verb first
self.verb,err = self.user_opts.get_type_opt(int, '-verb')
if err: return 1
if self.verb == None: self.verb = gDEF_VERB
# ----------------------------------------
# required args
self.infiles, err = self.user_opts.get_string_list('-infiles')
if self.infiles == None or err: return 1
# ----------------------------------------
# optional arguments
val, err = self.user_opts.get_string_opt('-kernel')
if err: return 1
if val != None: self.kernel = val
val, err = self.user_opts.get_string_opt('-kernel_file')
if err: return 1
if val != None: self.kfile = val
val, err = self.user_opts.get_string_opt('-mask_dset')
if err: return 1
if val != None: self.maskset = val
# allow use of old method
if self.user_opts.find_opt('-old'): self.stype = 'old'
val, err = self.user_opts.get_string_opt('-outdir')
if err: return 1
if val != None: self.outdir = val
val, err = self.user_opts.get_string_opt('-prefix')
if err: return 1
if val != None: self.prefix = val
self.script, err = self.user_opts.get_string_opt('-script')
if self.script == None or err: return 1
val,err = self.user_opts.get_type_opt(float, '-tr')
if err: return 1
if val != None: self.tr = val
val,err = self.user_opts.get_type_opt(int, '-tr_nup')
if err: return 1
if val != None: self.tr_nup = val
# ----------------------------------------
# check over the inputs
if len(self.infiles) < 1:
print '** missing option -infiles'
return 1
# check over -input as an AFNI dataset
self.aname = BASE.afni_name(self.infiles[0])
if self.aname == None: return 1
if self.verb > 2: self.aname.show()
if self.aname.type == '1D':
if self.tr == None:
print '** -tr is required if the input is in 1D format'
self.reps = UTIL.max_dim_1D(self.infiles[0])
else:
if self.aname.type != 'BRIK':
print "** unknown 'type' for -input '%s'" % self.infiles[0]
err,self.reps,self.tr = \
UTIL.get_dset_reps_tr(self.aname.pv(),self.verb)
if err: return 1
if self.verb > 1:
print '-- using kernel %s, kfile %s, tr = %s, reps = %s' % \
(self.kernel, self.kfile, self.tr, self.reps)
return None
def process_opts(self):
"""apply each option"""
# ----------------------------------------
# set verb first
self.verb,err = self.user_opts.get_type_opt(int, '-verb')
if err: return 1
if self.verb == None: self.verb = gDEF_VERB
# ----------------------------------------
# required args
self.input, err = self.user_opts.get_string_opt('-input')
if self.input == None or err: return 1
self.prefix, err = self.user_opts.get_string_opt('-prefix')
if self.prefix == None or err: return 1
self.script, err = self.user_opts.get_string_opt('-script')
if self.script == None or err: return 1
if self.verb > 1:
print "-- have input '%s', script '%s', prefix '%s'" % \
(self.input, self.script, self.prefix)
# ----------------------------------------
# optional arguments
val, err = self.user_opts.get_string_opt('-kernel')
if err: return 1
if val != None: self.kernel = val
val, err = self.user_opts.get_string_opt('-kernel_file')
if err: return 1
if val != None: self.kfile = val
val, err = self.user_opts.get_string_opt('-mask_dset')
if err: return 1
if val != None: self.maskset = val
val,err = self.user_opts.get_type_opt(float, '-tr')
if err: return 1
if val != None: self.tr = val
# ----------------------------------------
# check over the inputs
# check over -input as an AFNI dataset
self.aname = BASE.afni_name(self.input)
if self.aname == None: return 1
if self.verb > 2: self.aname.show()
if self.aname.type == '1D':
if self.tr == None:
print '** -tr is required if the input is in 1D format'
self.reps = UTIL.max_dim_1D(self.input)
else:
if self.aname.type != 'BRIK':
print "** unknown 'type' for -input '%s'" % self.input
err,self.reps,self.tr = \
UTIL.get_dset_reps_tr(self.aname.pv(),self.verb)
if err: return 1
if self.verb > 1:
print '-- using kernel %s, kfile %s, tr = %s, reps = %s' % \
(self.kernel, self.kfile, self.tr, self.reps)
return None
def process_opts(self):
"""apply each option"""
# ----------------------------------------
# set verb first
self.verb, err = self.user_opts.get_type_opt(int, '-verb')
if err: return 1
if self.verb == None: self.verb = gDEF_VERB
# ----------------------------------------
# required args
self.infiles, err = self.user_opts.get_string_list('-infiles')
if self.infiles == None or err: return 1
# ----------------------------------------
# optional arguments
val, err = self.user_opts.get_string_opt('-kernel')
if err: return 1
if val != None: self.kernel = val
val, err = self.user_opts.get_string_opt('-kernel_file')
if err: return 1
if val != None: self.kfile = val
val, err = self.user_opts.get_string_opt('-mask_dset')
if err: return 1
if val != None: self.maskset = val
# allow use of old method
if self.user_opts.find_opt('-old'): self.stype = 'old'
val, err = self.user_opts.get_string_opt('-outdir')
if err: return 1
if val != None: self.outdir = val
val, err = self.user_opts.get_string_opt('-prefix')
if err: return 1
if val != None: self.prefix = val
self.script, err = self.user_opts.get_string_opt('-script')
if self.script == None or err: return 1
val, err = self.user_opts.get_type_opt(float, '-tr')
if err: return 1
if val != None: self.tr = val
val, err = self.user_opts.get_type_opt(int, '-tr_nup')
if err: return 1
if val != None: self.tr_nup = val
# ----------------------------------------
# check over the inputs
if len(self.infiles) < 1:
print '** missing option -infiles'
return 1
# check over -input as an AFNI dataset
self.aname = BASE.afni_name(self.infiles[0])
if self.aname == None: return 1
if self.verb > 2: self.aname.show()
if self.aname.type == '1D':
if self.tr == None:
print '** -tr is required if the input is in 1D format'
self.reps = UTIL.max_dim_1D(self.infiles[0])
else:
if self.aname.type != 'BRIK':
print "** unknown 'type' for -input '%s'" % self.infiles[0]
err,self.reps,self.tr = \
UTIL.get_dset_reps_tr(self.aname.pv(),self.verb)
if err: return 1
if self.verb > 1:
print '-- using kernel %s, kfile %s, tr = %s, reps = %s' % \
(self.kernel, self.kfile, self.tr, self.reps)
return None
