# -*- coding: utf-8 -*-
# emacs: -*- mode: python; py-indent-offset: 4; indent-tabs-mode: nil -*-
# vi: set ft=python sts=4 ts=4 sw=4 et:
"""FreeSurfer is an open source software suite for processing and analyzing brain MRI images."""

from .base import Info, FSCommand, no_freesurfer
from .preprocess import (
    ParseDICOMDir,
    UnpackSDICOMDir,
    MRIConvert,
    Resample,
    ReconAll,
    BBRegister,
    ApplyVolTransform,
    Smooth,
    DICOMConvert,
    RobustRegister,
    FitMSParams,
    SynthesizeFLASH,
    MNIBiasCorrection,
    WatershedSkullStrip,
    Normalize,
    CANormalize,
    CARegister,
    CALabel,
    MRIsCALabel,
    SegmentCC,
    SegmentWM,
    EditWMwithAseg,
    ConcatenateLTA,
)
from .model import (
    MRISPreproc,
    MRISPreprocReconAll,
    GLMFit,
    OneSampleTTest,
    Binarize,
    Concatenate,
    SegStats,
    SegStatsReconAll,
    Label2Vol,
    MS_LDA,
    Label2Label,
    Label2Annot,
    SphericalAverage,
)
from .utils import (
    SampleToSurface,
    SurfaceSmooth,
    SurfaceTransform,
    Surface2VolTransform,
    SurfaceSnapshots,
    ApplyMask,
    MRIsConvert,
    MRITessellate,
    MRIPretess,
    MRIMarchingCubes,
    SmoothTessellation,
    MakeAverageSubject,
    ExtractMainComponent,
    Tkregister2,
    AddXFormToHeader,
    CheckTalairachAlignment,
    TalairachAVI,
    TalairachQC,
    RemoveNeck,
    MRIFill,
    MRIsInflate,
    Sphere,
    FixTopology,
    EulerNumber,
    RemoveIntersection,
    MakeSurfaces,
    Curvature,
    CurvatureStats,
    Jacobian,
    MRIsCalc,
    VolumeMask,
    ParcellationStats,
    Contrast,
    RelabelHypointensities,
    Aparc2Aseg,
    Apas2Aseg,
    MRIsExpand,
    MRIsCombine,
)
from .longitudinal import RobustTemplate, FuseSegmentations
from .registration import (
    MPRtoMNI305,
    RegisterAVItoTalairach,
    EMRegister,
    Register,
    Paint,
    MRICoreg,
)