[STORY] Port remaining interfaces required for sMRIPrep - Part II - Githubissues

Australian-Imaging-Service / pipelines

Scripts to generate analysis pipelines that can be run in XNAT's container service

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[STORY] Port remaining interfaces required for sMRIPrep - Part II #196

Closed tclose closed 2 years ago

tclose commented 2 years ago

Metadata

Epic: #17 Feature: #79 Feature Release: 1

Description

The following "helper" tasks need to be ported into Pydra. They can probably go into the workflow repository rather than separate task

Acceptance Criteria

The following "helper" tasks need to be ported into Pydra. They can probably go into the workflow repository rather than separate task

[x] niworkflows.interfaces.freesurfer.FSDetectInputs()
[x] niworkflows.interfaces.freesurfer.FSInjectBrainExtracted()
[x] niworkflows.interfaces.freesurfer.MakeMidthickness()
[x] niworkflows.interfaces.freesurfer.PatchedLTAConvert()
[x] niworkflows.interfaces.freesurfer.PatchedRobustRegister()
[x] niworkflows.interfaces.freesurfer.RefineBrainMask()
[x] niworkflows.interfaces.header.CopyXForm()
[x] niworkflows.interfaces.header.ValidateImage()
[x] niworkflows.interfaces.nitransforms.ConcatenateXFMs()
[x] niworkflows.interfaces.reportlets.masks.ROIsPlot()
[x] niworkflows.interfaces.reportlets.registration.SimpleBeforeAfterRPT()
[x] niworkflows.interfaces.surf.Path2BIDS()

Notes

@tclose will create a new repository for these tasks to be implemented in

tclose commented 2 years ago

remaining tasks moved to #216