Fit Sample Volume from segmentation

fit a mesh describing the sample from a binary segmentation.

Arguments

--copick_config_path

Path to the Copick configuration JSON file. (default value: PARAMETER_VALUE)

--run_names

Comma-separated list of run names. (default value: )

--top_object

Name of the object defining top layer. (default value: top-layer)

--bottom_object

Name of the object defining bottom layer. (default value: bottom-layer)

--seg_name

Name of the object defining bottom layer. (default value: segmentation)

--seg_label_name

Name of the label defining the sample. (default value: valid-sample)

--input_user

Name of the input user. (default value: PARAMETER_VALUE)

--input_session

ID of the input session. (default value: PARAMETER_VALUE)

--voxel_spacing

Voxel spacing. (default value: PARAMETER_VALUE)

--tomo_type

Type of tomogram. (default value: PARAMETER_VALUE)

--fit_resolution

Resolution of the fit (2 comma-separated ints). (default value: 50,50)

--output_object

Name of the output object. (default value: sample)

--output_user

Name of the output user. (default value: fit)

--output_session

Name of the output session. (default value: 0)

Please follow this link for details on how to install and run this solution.