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fMRI pipeline doesn't work - csf_mask #44

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ncullen93 opened this issue Aug 5, 2016 · 2 comments
Open

fMRI pipeline doesn't work - csf_mask #44

ncullen93 opened this issue Aug 5, 2016 · 2 comments
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@agriffa @davidrs06

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@ncullen93
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I still get an error saying "No such file ../Freesurfer/mri/csf_mask.nii.gz" when trying to run the fMRI pipeline. I have the latest commit... Is there a fix to this?
@ncullen93
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ncullen93 commented Aug 7, 2016 •
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Note this is only when Lausanne parcellation is specified. With NativeFreesurfer, the pipeline proceeds further.

@davidrs06
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Hello ! Thanks for reporting it, we were not saving the CSF mask when the Lausanne parcellation was computed. The latest version of cmp_nipype should handle it properly now. Could you give it a try with your data and tell us if it works ?

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@agriffa @davidrs06 @ncullen93