copick / project_from_dataportal / 0.2.3

Fetch Data from CryoET Data Portal and Integrate with Copick

Fetches tomograms, tilt series, annotations, segmentations, and metadata from cryoet_data_portal and integrates them into the specified Copick project.

Arguments

--dataset_id

Dataset ID to process. (default value: PARAMETER_VALUE)

--copick_config_path

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

--voxel_spacing

Optional voxel spacing to filter tomograms. (default value: PARAMETER_VALUE)

--overlay_root

Path to the overlay root directory. (default value: PARAMETER_VALUE)

--static_root

Path to the static root directory. (default value: PARAMETER_VALUE)

Usage instructions

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