Dylan Nielson

@AndysWorth, are you able to look into why the singularity build is failing?https://app.circleci.com/pipelines/github/ReproNim/neurodocker/148/workflows/454ff119-e13c-4370-b9e8-41d1e7fc9bfd/jobs/1529

@kaczmarj, @satra, should this PR be submitted to a different branch?

@satra, that's what it's doing, but Freesurfer's current version has some small broken bits and as far as I know, has no plans on releasing an update to fix these...

Ah, ok, I think I understand. Make a little repo with a bash script that executes the patch. Then add an action to the neurodocker generate command that pulls that...

I think a script that applies the patch. On Thu, Apr 1, 2021 at 12:08 PM Andrew J. Worth ***@***.***> wrote: > I can set up a repo. Should it...

Oh, I thought we’d add another step in the neurodocker install for free surfer, maybe controlled by a parameter, that would pull the patch repo and apply it. Isn’t that...

Cool, thanks! On Thu, Apr 1, 2021 at 5:42 PM Satrajit Ghosh ***@***.***> wrote: > i was thinking of something super simple. either something like this > > neurodocker generate...

@kaczmarj Any chance of integrating this fix and cutting a new release of neurodocker? We've started using it for the neurodocker bids app and I'd like to build a version...

Thanks for posting the bug @yarikoptic! Her's the datalad and git annex versions: ``` (/gpfs/gsfs11/users/MBDU/midla/env) [nielsond@helix fitlins_tests]$ datalad --version datalad 0.14.2 (/gpfs/gsfs11/users/MBDU/midla/env) [nielsond@helix fitlins_tests]$ git-annex version git-annex version: 8.20201007-g903b2f1 build...

Yeah, I think this would be really helpful for efforts to share fmriprep derivatives in the case that people will be downloading that data and running subsequent processes themselves. If...