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DCAN-Labs / abcd-hcp-pipeline

bids application for processing functional MRI data, robust to scanner, acquisition and age variability.
https://hub.docker.com/r/dcanumn/abcd-hcp-pipeline
BSD 3-Clause "New" or "Revised" License
49 stars 19 forks source link

provide an option to run filemapper at the end #29

Open ericfeczko opened 4 years ago

ericfeczko commented 4 years ago

It would be great if the pipeline could include an option to run filemapper after it finishes. Not sure how feasible that would be to pull off.

ericearl commented 4 years ago

@kathy-snider Didn't we think of a solution for this and just never implemented it?

ericfeczko commented 4 years ago

That would be fantastic if we could implement! I would use the ABCD defaults if it makes it easier -- this allows collaborators already leveraging ABCD protocols to use the pipeline to go fully to BIDS derivatives. I recently found out that this is a chief complaint for some collaborators, so perhaps low effort for huge benefit.

kathy-snider commented 4 years ago

Somehow I didn't get the whole conversation. You just want filemapper to be another stage, right? Like custom-clean, it would run if we gave it a .json file? We can do that.

It's just one of many things I would like to do, but I spend all of my time processing BCP!!! I'll put it on my Trello, but don't hold your breath.

From: ericfeczko notifications@github.com Sent: Friday, September 4, 2020 12:28 PM To: DCAN-Labs/abcd-hcp-pipeline Cc: Kathy Snider; Mention Subject: Re: [DCAN-Labs/abcd-hcp-pipeline] provide an option to run filemapper at the end (#29)

That would be fantastic if we could implement! I would use the ABCD defaults if it makes it easier -- this allows collaborators already leveraging ABCD protocols to use the pipeline to go fully to BIDS derivatives. I recently found out that this is a chief complaint for some collaborators, so perhaps low effort for huge benefit.

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