Erin W Dickie

Sorry may need a slash before fs license ``` docker run -ti --rm -v /Users/neurolab/Desktop/Pipeline_test3/:/data:ro -v /Users/neurolab/Desktop/Pipeline_test4:/out -v /Users/neurolab/Desktop/license.txt:/fs_licence.txt tigrlab/fmriprep_ciftify:latest /data /out participant --participant_label 1 --fs-license /fs_license.txt ```

One cause if missing data might be the medial wall mask, which gets rewritten with zeros if you convert to gifti. p.s. nibabel can read cifti directly. Do you see...

Yeah the registration looks completely off! That would be the problem.. On Wed, Dec 29, 2021, 13:45 Brian Winston ***@***.***> wrote: > hi @edickie thank you for the response!! >...

Hello, and thanks for trying ciftify! Do you get the same errors with ciftify_statclust_report? It should be replacing ciftify_peaktable functionality.. On Tue, May 25, 2021 at 11:17 AM SamDaou ***@***.***>...

I think it has to do with the functional file being a different voxel resolution than the labels..although ciftify_subject_fmri is suppose to account for this internally so I think it's...

Weird. I'm not replicating the error on my end. What version of ciftify are you using? Can I have a copy of you cifti_subject_fmri.log file so I can debug further?

This one seems to have another error. wb_command is failing on the first file read.. Are you able to run other functions on that input file? ``` Running: wb_command -volume-math...

So, your right, the issue is that the ROIs.2.nii.gz file are registered to the FSL MNI template which is actually slightly different than MNI152NLin2009 cAsMNI152NLin2009 cAsymym. (I think we are...

Sorry about not coming back to this. Yes, ciftify is supposed to do all the internal resampling but it does so assuming that inputs are in "individual" or "T1w" space,...

For the paper...something comparing SynDC to other SDC options...