motile_plugin.widgets.tracks_view.tracks_viewer
Classes
Purposes of the TracksViewer: |
Module Contents
- class motile_plugin.widgets.tracks_view.tracks_viewer.TracksLayerGroup
- tracks_layer: motile_plugin.layers.track_graph.TrackGraph | None = None
- seg_layer: motile_plugin.layers.track_labels.TrackLabels | None = None
- points_layer: motile_plugin.layers.track_points.TrackPoints | None = None
- class motile_plugin.widgets.tracks_view.tracks_viewer.TracksViewer(viewer: napari.viewer)
Purposes of the TracksViewer: - Emit signals that all widgets should use to update selection or update
the currently displayed Tracks object
Storing the currently displayed tracks
Store shared rendering information like colormaps (or symbol maps)
Interacting with the napari.Viewer by adding and removing layers
- tracks_updated
- classmethod get_instance(viewer=None)
- viewer
- selected_nodes
- tracking_layers
- tracks = None
- colormap
- symbolmap: dict[motile_plugin.core.NodeType, str]
- mode = 'all'
- remove_napari_layer(layer: napari.layers.Layer | None) None
Remove a layer from the napari viewer, if present
- remove_napari_layers() None
Remove all tracking layers from the viewer
- add_napari_layers() None
Add new tracking layers to the viewer
- view_external_tracks(tracks: motile_plugin.core.Tracks, name: str) None
View tracks created externally. Assigns tracklet ids, adds a hypothesis dimension to the segmentation, and relabels the segmentation based on the assigned track ids. Then calls update_tracks.
- Args:
tracks (Tracks): A tracks object to view, created externally from the plugin name (str): The name to display in napari layers
- update_tracks(tracks: motile_plugin.core.Tracks, name: str) None
Stop viewing a previous set of tracks and replace it with a new one. Will create new segmentation and tracks layers and add them to the viewer.
- Args:
tracks (motile_plugin.core.Tracks): The tracks to visualize in napari. name (str): The name of the tracks to display in the layer names
- toggle_display_mode(event=None) None
Toggle the display mode between available options
- set_display_mode(mode: str) None
Update the display mode and call to update colormaps for points, labels, and tracks
- Args:
mode (str): “all” or “lineage”
- filter_visible_nodes() list[int]
Construct a list of track_ids that should be displayed
- update_selection() None
Sets the view and triggers visualization updates in other components
- set_napari_view() None
Adjust the current_step of the viewer to jump to the last item of the selected_nodes list