Erin W Dickie

The only csv that has ever been tested with PINT is the one at the link below. https://github.com/edickie/ciftify/blob/master/ciftify/data/PINT/Yeo7_2011_80verts.csv The algorithm reads from the "vertex" column and the "network" columns because...

It looks like you might be mounting /Users/neurolab/Desktop/Test_sub_002_fcmriprep_ciftify to both /data and /out? This might be causing issues? Try mounting two different folders to /data and /out? The /data folder...

Yes, something definitely went wrong there. One question - is your T1w higher resolution (i.e. voxel size less than 1x1x1mm)? I have noticed one bug where the header from the...

The last version `--FLIRT-to-T1w` does look a lot better.. The good news is that the versions of ciftify above 2.2.0 use boundary-based registration (BBR) when running `--FLIRT-to-T1w` using a white...

From the Error message - it's makes me wonder if you have run out the tmp storage space during the pipeline? (so it's stopped copying templates into temp) How much...

it's worth a try

weird - so if you built the container yourself - a clone of the ciftify github repo needs to be in the ciftify path (in this case - /home/code/ciftify) the...

Hi Stephan, 1. ciftify does not do any cleaning in the pipeline because, like fMRIprep, we want to keep the decision of what nuisance signals to remove up to the...

The reduced size is odd - I don't know it one of the step did this by changing the encoding? (i.e. from 32 to 16 bit?). Are the dimensions of...

the python code in ciftify doesn't do anything to the LAS vs RAS orientation. But the dependencies (FSL and connectome-workbench) might?