ENH: Add mris_expand interface #1893
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| >>> from nipype.interfaces.freesurfer import MRIsExpand | ||
| >>> mris_expand = MRIsExpand(thickness=True, distance=0.5) | ||
| >>> mris_expand.inputs.in_file = 'lh.white' |
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Travis issue is exists=True. Not really clear why this should be causing an error while the Apas2Aseg (immediately above) interface is fine.
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there is no lh.white dummy file in the testing directory, the above interface uses lh.pial
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Ah, should have thought of that. I thought there was some voodoo in the test setup.
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The only VooDoo is in our correlations.
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Was having issues with actually running until I realized it was dropping the output in the subject's surf directory by default. Updated out_file functionality to be more contained, and added all of the options. There's one that went in post-6.0 release that I added in its own commit. Not sure how to set |
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@effigies - we need to augment min_ver and max_ver to allow for regarding things leaving it in the surf directory, if that's the default behavior of the underlying interface, then that should be retained at the interface level. however the node(interface) should always leave things inside the node's working directory. generally we use copyfile to achieve this, but some interfaces also require recreating directory structures locally. |
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Augmenting The directory structure isn't needed, but in this case, if we copy the surface file, we also need to copy the associated |
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@satra Would appreciate a look at the latest commit. The goal is to support file names (or specifiers, really) as |
Mimics the FreeSurfer MRIsBuildFileName to select appropriate files If copying files, defines pial and thickness_name (as needed) to ensure copy. Adds a non-argument sphere trait that MUST NOT be changed. mris_expand will not run in a node if there is not a `?h.sphere` associated with the in_file.
This utility is the Fischl-endorsed way to get a midthickness/graymid surface.