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copick / labeled-data-from-picks / 0.0.4

Process Copick Runs and Save Features and Labels

A solution that processes all Copick runs and saves the resulting features and labels into an HDF5 file.
Tags
imagingcryoetPython
Solution written by
Kyle Harrington
License of solution
MIT
Source Code
View on GitHub

Arguments

--copick_config_path
Path to the Copick configuration JSON file. (default value: PARAMETER_VALUE)
--painting_segmentation_name
Name for the painting segmentation. (default value: PARAMETER_VALUE)
--session_id
Session ID for the segmentation. (default value: PARAMETER_VALUE)
--user_id
User ID for segmentation creation. (default value: PARAMETER_VALUE)
--voxel_spacing
Voxel spacing used to scale pick locations. (default value: PARAMETER_VALUE)
--output_hdf5_path
Path for the output HDF5 file containing the features and labels. (default value: PARAMETER_VALUE)

Usage instructions

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