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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

Change respiration filter type with docker/singularity entry point? #63

Closed iamdamion closed 2 years ago

iamdamion commented 2 years ago

Is there any existing option (using the docker/singularity image) that I am missing to change the respiration filter from notch to low pass? I see that in the DCAN bold processing script this is an argument (--motion-filter-type), but it doesn't seem accessible when using the docker/singularity image. Am I missing something?

We are trying to avoid dependency issues and would prefer to use the singularity rather than the python/matlab scripts in the dcan_bold_processing repository, if possible. I just wanted to clarify if this is possible as is, or if the docker entry script would have to be updated. Thanks.

arueter1 commented 2 years ago

Apologies for the delay! I think that Thomas may be able to answer your question. We will get back to you as soon as possible.

iamdamion commented 2 years ago

No problem, I missed this message somehow myself. This isn't really an issue anymore. We were doing some testing and comparing outputs. We have been using the notch filter since, so unless you think it would be useful for others, I probably should have closed this a while back. :)