# -*- 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:
"""
FSL is a comprehensive library of analysis tools for fMRI, MRI and DTI brain imaging data.

The fsl module provides classes for interfacing with the `FSL
<http://www.fmrib.ox.ac.uk/fsl/index.html>`_ command line tools.
"""

from .base import FSLCommand, Info, check_fsl, no_fsl, no_fsl_course_data
from .preprocess import (
    FAST,
    FLIRT,
    ApplyXFM,
    BET,
    MCFLIRT,
    FNIRT,
    ApplyWarp,
    SliceTimer,
    SUSAN,
    PRELUDE,
    FUGUE,
    FIRST,
)
from .model import (
    Level1Design,
    FEAT,
    FEATModel,
    FILMGLS,
    FEATRegister,
    FLAMEO,
    ContrastMgr,
    MultipleRegressDesign,
    L2Model,
    SMM,
    MELODIC,
    SmoothEstimate,
    Cluster,
    Randomise,
    GLM,
)
from .utils import (
    AvScale,
    Smooth,
    Slice,
    Merge,
    ExtractROI,
    Split,
    ImageMaths,
    ImageMeants,
    ImageStats,
    FilterRegressor,
    Overlay,
    Slicer,
    PlotTimeSeries,
    PlotMotionParams,
    ConvertXFM,
    SwapDimensions,
    PowerSpectrum,
    Reorient2Std,
    Complex,
    InvWarp,
    WarpUtils,
    ConvertWarp,
    WarpPoints,
    WarpPointsToStd,
    WarpPointsFromStd,
    RobustFOV,
    CopyGeom,
    MotionOutliers,
)

from .epi import (
    PrepareFieldmap,
    TOPUP,
    ApplyTOPUP,
    Eddy,
    EPIDeWarp,
    SigLoss,
    EddyCorrect,
    EpiReg,
    EddyQuad,
)
from .dti import (
    BEDPOSTX,
    XFibres,
    DTIFit,
    ProbTrackX,
    ProbTrackX2,
    VecReg,
    ProjThresh,
    FindTheBiggest,
    DistanceMap,
    TractSkeleton,
    MakeDyadicVectors,
    BEDPOSTX5,
    XFibres5,
)
from .maths import (
    ChangeDataType,
    Threshold,
    MeanImage,
    ApplyMask,
    IsotropicSmooth,
    TemporalFilter,
    DilateImage,
    ErodeImage,
    SpatialFilter,
    UnaryMaths,
    BinaryMaths,
    MultiImageMaths,
    MaxnImage,
    MinImage,
    MedianImage,
    PercentileImage,
    AR1Image,
)
from .possum import B0Calc
from .fix import (
    AccuracyTester,
    Classifier,
    Cleaner,
    FeatureExtractor,
    Training,
    TrainingSetCreator,
)
from .aroma import ICA_AROMA