Hello!
QuNex currently does not provide a command that would enable single-step importing of processed HCP data. If there is a need for that functionality in the community we would consider adding it in the future. Currently, the way to make use of the preprocessed data would be the following.
1/ use import_hcp to import the unprocessed data
This step would populate the nii subfolder with the raw files and it would create the session_hcp.txt files that are necessary for compiling a batch file that can then guide further processing within QuNex.
2/ use setup_hcp to prepare hcp folder for each session
This step generates and populates the sessions/<session id>/hcp/<session_id> folder with the unprocessed data to prepare it for further processing using HCP pipelines.
3/ copy or move the processed data to the hcp folder
This step would need to be done “manually” or using a custom script, which would for each session map the processed data to the sessions/<session id>/hcp/<session_id> folder.
With these three steps done, you could continue processing and run the steps that have not yet been completed using QuNex.
An alternative would be to write a custom script to skip steps 1/ and 2/ and generate all the necessary folders and files in the process. I would only advise this if you have a thorough understanding of the files that need to be generated and the underlying folder/file structure.