Source code for tvb.adapters.visualizers.pca
# -*- coding: utf-8 -*-
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"""
A displayer for the principal component analysis.
.. moduleauthor:: Marmaduke Woodman <marmaduke.woodman@univ-amu.fr>
"""
import json
from tvb.adapters.datatypes.db.mode_decompositions import PrincipalComponentsIndex
from tvb.adapters.visualizers.time_series import ABCSpaceDisplayer
from tvb.core.adapters.abcadapter import ABCAdapterForm
from tvb.core.adapters.abcdisplayer import URLGenerator
from tvb.core.neocom import h5
from tvb.core.neotraits.forms import TraitDataTypeSelectField
from tvb.core.neotraits.view_model import ViewModel, DataTypeGidAttr
from tvb.core.utils import TVBJSONEncoder
from tvb.datatypes.mode_decompositions import PrincipalComponents
[docs]
class PCAModel(ViewModel):
pca = DataTypeGidAttr(
linked_datatype=PrincipalComponents,
label='Principal component analysis:'
)
[docs]
class PCA(ABCSpaceDisplayer):
_ui_name = "Principal Components Analysis Visualizer"
[docs]
def get_required_memory_size(self, view_model):
# type: (PCAModel) -> int
"""Return required memory. Here, it's unknown/insignificant."""
return -1
[docs]
def launch(self, view_model):
# type: (PCAModel) -> dict
"""Construct data for visualization and launch it."""
with h5.h5_file_for_gid(view_model.pca) as ts_h5:
source_gid = ts_h5.source.load()
with h5.h5_file_for_gid(source_gid) as source_h5:
labels_data = self.get_space_labels(source_h5)
fractions_update_url = URLGenerator.build_h5_url(view_model.pca, 'read_fractions_data')
weights_update_url = URLGenerator.build_h5_url(view_model.pca, 'read_weights_data')
return self.build_display_result("pca/view", dict(labels_data=json.dumps(labels_data, cls=TVBJSONEncoder),
fractions_update_url=fractions_update_url,
weights_update_url=weights_update_url))