Add dsegtissue to hippunfold-quick

[mackenziesnyder]

• add the dsegtissue modality to hippunfold-quick
• dsegtissue requires an additional input [--derivatives [PATH ...]]
• from my understanding, this path variable also needs to be collected from user input with the command line

Solution:

• create dictionary for modalities
• make --derivatives mandatory when --modality dsegtissue is specified

[akhanf]

Ah the --derivatives flag can just point to the temporary bids folder that you create, so it doesn't need to be a user CLI option.

In the dict for modalities you could have a boolean like use_derivatives, which would be True for dsegtissue and False for T1w and T2w. If its true you would add the --derivatives <bids_dir> to the command.

[akhanf]

an example is in the dry run file:

./hippunfold/run.py test_data/bids_dsegtissue test_out participant -np --modality dsegtissue --derivatives test_data/bids_dsegtissue

[mackenziesnyder]

Thank you that makes sense, will do!

[akhanf]

Closed with #449