make_objs_from_state_file - jaybgager/tracertools GitHub Wiki

This function generates convex hull meshes as OBJ files from all the point annotation layers in a local neuroglancer JSON state file.

Arguments:

• datastack (string, mandatory)
  • the name of the CAVE datastack the JSON state is from
  • for a list of datastacks currently supported with tracertools configs, use get_supported_configs
• json_path (stringype, mandatory)
  • the absolute path to the neuroglancer JSON state file to pull annotations from
  • e.g. "/home/username/ng_jsons/state.json"
• output_path (type, mandatory)
  • the absolute path to the folder where you want to save the mesh output
  • e.g. "/home/username/ng_meshes"
  • will create folders where none exist

Returns:

• makes an OBJ file for each point annotation layer in the JSON state file

Example

The following code makes a folder called ng_meshes in the directory /home/user and populates it with an OBJ file of a convex hull mesh for each point annotation layer present in the JSON state file at /home/user/ng_states/state.json.

INPUT:

import tracertools as tt

tt.make_objs_from_state_file(
    datastack = "brain_and_nerve_cord",
    json_path = "/home/user/ng_states/state.json",
    output_path = "/home/user/ng_meshes",
)