freesurfer-surface/tests/test_annotation.py

# freesurfer-surface - Read and Write Surface Files in Freesurfer’s TriangularSurface Format
#
# Copyright (C) 2020 Fabian Peter Hammerle <fabian@hammerle.me>
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# any later version.
#
# This program is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
# GNU General Public License for more details.
#
# You should have received a copy of the GNU General Public License
# along with this program.  If not, see <https://www.gnu.org/licenses/>.

from conftest import ANNOTATION_FILE_PATH
from freesurfer_surface import Annotation


def test_load_annotation():
    annotation = Annotation.read(ANNOTATION_FILE_PATH)
    assert len(annotation.vertex_label_index) == 155622
    assert annotation.vertex_label_index[64290] == 22
    assert annotation.vertex_label_index[72160] == 22
    assert annotation.vertex_label_index[84028] == 24
    assert annotation.vertex_label_index[97356] == 24
    assert annotation.vertex_label_index[123173] == 27
    assert annotation.vertex_label_index[140727] == 27
    assert annotation.vertex_label_index[93859] == 28
    assert annotation.vertex_label_index[78572] == 0
    assert annotation.vertex_label_index[120377] == 0
    assert (
        annotation.colortable_path == b"/autofs/space/tanha_002/users/greve"
        b"/fsdev.build/average/colortable_desikan_killiany.txt"
    )
    assert len(annotation.labels) == 36
    assert vars(annotation.labels[0]) == {
        "index": 0,
        "name": "unknown",
        "red": 25,
        "green": 5,
        "blue": 25,
        "transparency": 0,
    }
    assert vars(annotation.labels[28]) == {
        "index": 28,
        "name": "superiorfrontal",
        "red": 20,
        "green": 220,
        "blue": 160,
        "transparency": 0,
    }
    (precentral,) = filter(lambda l: l.name == "precentral", annotation.labels.values())
    (postcentral,) = filter(
        lambda l: l.name == "postcentral", annotation.labels.values()
    )
    assert vars(precentral) == {
        "index": 24,
        "name": "precentral",
        "red": 60,
        "green": 20,
        "blue": 220,
        "transparency": 0,
    }
    assert vars(postcentral) == {
        "index": 22,
        "name": "postcentral",
        "red": 220,
        "green": 20,
        "blue": 20,
        "transparency": 0,
    }
    (superiorfrontal,) = filter(
        lambda l: l.color_code == 10542100, annotation.labels.values()
    )
    assert superiorfrontal.name == "superiorfrontal"