e0c9d018aca7bf05486c385484d5ed1c37bac423,pynets/diffconnectometry.py,,coreg_WM_mask_to_diff,#Any#Any#,151

Before Change

    flirt.inputs.apply_xfm = True
    flirt.run()
    args = "-bin"
    maths = fsl.ImageMaths(in_file=out_file, op_string=args, out_file=out_file)
    print("\nBinarizing WM mask...")
    os.system(maths.cmdline)
    return out_file


def coreg_mask_to_diff(dwi_dir, mask):

After Change

    out_file = "%s%s" % (dwi_dir, "/wm_mask_diff.nii.gz")
    wm_transforms_wf = pe.Workflow(name="wm_transforms")
    inputnode = pe.Node(niu.IdentityInterface(fields=["dwi_infile", "wm_mask_loc", "out_file", "mat_file", "dwi_dir"]),
                        name="inputnode")
    inputnode.inputs.dwi_infile = dwi_infile
    inputnode.inputs.wm_mask_loc = wm_mask_loc
    inputnode.inputs.out_file = out_file
    inputnode.inputs.mat_file = "%s%s" % (dwi_dir, "/xfms/MNI2diff.mat")

Instances