import nipype.interfaces.io as nio # Data i/o
import nipype.interfaces.utility as util # utility
import os.path as op
import nipype.interfaces.cmtk as cmtk
import nipype.pipeline.engine as pe # pypeline engine
from nipype.workflows.rsfmri.coma.fmri_graphs import create_fmri_graphs, create_fmri_graph_grouping_workflow
from coma.datasets import sample
data_path = sample.data_path()
subjects_dir = op.join(data_path,"subjects_normalized")
output_dir = op.abspath('fmrigraphs')
info = dict(functional_images=[['subject_id', '*swvmsrf*']],
fmri_ICA_timecourse=[['subject_id','*timecourses*']],
fmri_ICA_maps=[['subject_id','*component_ica*']],
ica_mask_image=[['subject_id','*icaAnaMask*']])
subject_list = ['Bend1']
infosource = pe.Node(interface=util.IdentityInterface(fields=['subject_id']),
name="infosource")
infosource.iterables = ('subject_id', subject_list)
datasource = pe.Node(interface=nio.DataGrabber(infields=['subject_id'],
outfields=info.keys()),
name = 'datasource')
datasource.inputs.template = "%s/%s"
datasource.inputs.base_directory = data_path
datasource.inputs.field_template = dict(functional_images='data/%s/restMotionProcessed/%s.img',
fmri_ICA_timecourse='data/%s/restICA/components/%s.img', fmri_ICA_maps='data/%s/restICA/components/%s.img',
import os.path as op
import nipype.interfaces.io as nio # Data i/o
import nipype.interfaces.utility as util # utility
import nipype.pipeline.engine as pe # pypeline engine
import nipype.interfaces.fsl as fsl
fsl.FSLCommand.set_default_output_type('NIFTI_GZ')
from coma.workflows.dmnwf import create_reg_and_label_wf
from coma.datasets import sample
data_path = sample.data_path()
name = 'example_reg_label'
subjects_dir = op.join(data_path, "subjects")
info = dict(aparc_aseg=[['subject_id', 'subject_id', 'aparc+aseg']],
fa=[['subject_id', 'subject_id', 'fa']],
wm_mask=[['subject_id', 'subject_id', 'wm_seed_mask']],
term_mask=[['subject_id', 'subject_id', 'term_mask']])
subject_list = ['Bend1']
infosource = pe.Node(
interface=util.IdentityInterface(fields=['subject_id', 'subjects_dir']),
name="infosource")
infosource.iterables = ('subject_id', subject_list)
infosource.inputs.subjects_dir = subjects_dir