Terrific--thanks! I'm a little confused about one thing, though: You only
need to specify one node as CUT.FACE, not the entire perimeter of the
surface? Does it matter which node you choose?
-- Ed
----- Original Message -----
From: "Donna Hanlon" <[EMAIL PROTECTED]>
To: "Edward Craft" <[EMAIL PROTECTED]>; "Caret, SureFit, and SuMS software
users" <[email protected]>
Sent: Friday, November 11, 2005 12:08 PM
Subject: Re: [caret-users] CUT.FACE Error
> Hi Ed,
>
> The volume route didn't work, because it generates a surface from the
> volume when it creates the paint file (i.e., no way in Caret to turn off
> surface generation when you generate curvature and paint, even though I
> was happy with your fiducial surface), and that fiducial was much
> smoother than yours (not as good).
>
> So, I went the label-an-edge-node-CUT-FACE route. I zoomed way up;
> switched from Surface Miscellaneous tiles and lights view to nodes and
> links; ID's a node at a corner; and used Draw Borders to label it
> CUT.FACE. My Draw Borders failed to actually capture the node, though,
> so I saved the paint file as ASCII and used File: Text Editor to
> actually change the paint number for node 6685 from 0 to 1. Then, I
> saved the paint file; reopened it; and Caret flattening was happy.
>
> I don't know if you're happy with the result, but you can tweak on your
> end. Here is a capture; the paint; and my cut topo (removed corners and
> stragglers):
>
> http://brainmap.wustl.edu/pub/donna/IEEE/flat.jpg
> http://brainmap.wustl.edu/pub/donna/IEEE/Macaque.m17.L.geography2.paint
>
http://brainmap.wustl.edu/pub/donna/IEEE/Macaque.m17.L.topology_file_46.2005-10-20.12400.CUTdh.topo
> login pub
> password download
>
> Donna
>
> On 11/11/2005 09:18 AM, Edward Craft wrote:
>
> >Hi,
> >
> >Thank you both for your suggestions--I'll give them a try. Per Donna's
> >suggestion I've also uploaded my files, as
ECraftDataset_11-10-2005.tar.gz
> >(includes both the uncut and cut surfaces).
> >
> >
> >
> >>This is a bit tough, because you didn't generate your surface from a
> >>segmentation using the SureFit segmentation feature ....
> >>
> >>
> >
> >I never considered using SureFit, because (unfortunately) I only have
> >histological sections--no MRI data. I got the impression from Tutorial 9
> >(Caret4.6 Documentation) that it wouldn't be a problem to flatten a
surface
> >reconstructed from traced contours, though. Was the "Draw Cuts" feature
> >supposed to label the cut face? Any idea why it was sampling the cuts I
drew
> >so sparsely?
> >
> >
> >
> >>job of identifying the cut face, and you can use spherical registration
> >>rather than flat registration, assuming you want to register your
> >>surface to our atlas (which you may not need to do).
> >>
> >>
> >
> >I was aiming for a flatmap because I want to reconstruct a partial
> >visuotopic map (by pairing electrode recording positions in the
histological
> >sections with their associated receptive field positions) and make some
> >cortical distance measurements. I'm hoping my small portion of cortex is
> >topologically well-behaved enough to flatten without "too much"
distortion.
> >
> > -- Ed
> >
> >_______________________________________________
> >caret-users mailing list
> >[email protected]
> >http://pulvinar.wustl.edu/mailman/listinfo/caret-users
> >
> >
> >
>
