def __init__(self, arguments):
VisSettings.__init__(self, arguments, qc_mode='fmri')
self.fmri_name = arguments['<task_label>']
self.subject = arguments['<subject>']
self.snaps = arguments['subject'] or arguments['snaps']
self.dtseries_s0 = self.get_dtseries_s0()
self.fwhm = self.get_fwhm(arguments)
self.surf_mesh = '.32k_fs_LR'
def __init__(self, arguments, temp_dir):
self.temp = temp_dir
VisSettings.__init__(self, arguments, qc_mode='mapvis')
self.map_name = arguments['<map-name>']
self.subject = arguments['<subject>']
self.resample = arguments['--resample-nifti']
self.snap = self.get_cifti(arguments)
self.surf_mesh = self.get_surf_mesh()
self.surf_dir = self.get_surf_dir()
self.surf_subject = self.get_surf_subject()
self.T1w = self.get_T1w()
self.subject_filter = arguments['--subjects-filter']
def __init__(self, arguments):
VisSettings.__init__(self, arguments, qc_mode='PINT')
## Hack to account for fact that index doesnt expect these variables
if arguments['subject'] or arguments['snaps']:
self.subject = arguments['<subject>']
self.func = self.__get_input_file(arguments['<func.dtseries.nii>'])
self.pint_summary = self.__get_input_file(
arguments['<PINT_summary.csv>'])
self.left_surface = self.__get_surface('L')
self.right_surface = self.__get_surface('R')
else:
self.subject = None
self.func = None
self.pint_summary = None
self.subject_filter = arguments['--subjects-filter']
self.roi_radius = arguments['--roi-radius']
def __init__(self, arguments):
VisSettings.__init__(self, arguments, qc_mode='recon_all')
self.subject = arguments['<subject>']
self.tempdir = arguments['--temp-dir']