Source code for fsleyes.displaycontext.freesurferopts

#
# freesurferopts.py - The FreesurferOpts class.
#
# Author: Paul McCarthy <pauldmccarthy@gmail.com>
#
"""This module provides the :class:`FreesurferOpts` class, which contains
settings for displaying a :class:`.FreesurferMesh` overlay.
"""


import fsl.data.freesurfer  as fslfs
import fsl.data.mghimage    as fslmgh
import fsl.transform.affine as affine
from . import                  meshopts


[docs]class FreesurferOpts(meshopts.MeshOpts): """The :class:`FreesurferOpts` class, which contains settings for displaying a :class:`.FreesurferMesh` overlay. This class differs from the :class:`.MeshOpts` class only in that it tries to identify auxillary vertex and data files for the :attr:`.MeshOpts.vertexSet` and :attr:`.MeshOpts.vertexData` properties based on <freesurfer file naming conventions. """
[docs] def __init__(self, overlay, *args, **kwargs): """Create a ``FreesurferOpts`` instance. All arguments are passed to the :class:`.MeshOpts` constructor. """ self.getProp('coordSpace').setDefault('torig', self) self.coordSpace = 'torig' # Find surface files that # contain other vertex sets vertFiles = [overlay.dataSource] + \ fslfs.relatedGeometryFiles(overlay.dataSource) vdataFiles = [None] + fslfs.relatedVertexDataFiles(overlay.dataSource) self.getProp('vertexSet') .setChoices(vertFiles, instance=self) self.getProp('vertexData').setChoices(vdataFiles, instance=self) meshopts.MeshOpts.__init__(self, overlay, *args, **kwargs)