Subject/session-level `git sparse-checkout` is only applied to non-zipped inputs

[tien-tong]

Summary

Subject/session-level sparse checkout behavior is only applied to non-zipped inputs; for zipped inputs the full work tree under that path is cloned:

https://github.com/PennLINC/babs/blob/main/babs/templates/participant_job.sh.jinja2/#L84-L94

Need to apply git sparse-checkout to zipped input as well (e.g., zipped fMRIPrep outputs used as input in XCP-D project)

[mattcieslak]

are the number of zip files causing inode problems?

[tien-tong]

I think so, especially in projects that ingress both raw unzip and derivative zip (e.g., fmriprep_func).