External Email - Use Caution
Hello Freesurfer developers,
I am new to Freesurfer and I'm hoping that someone can help me; I'm attempting to get a flattened patch of an entire hemisphere. Below is a page outlining how to use mris_flatten to achieve this:
https://surfer.nmr.mgh.harvard.edu/fswiki/FreeSurferOccipitalFlattenedPatch
I am just trying to achieve this with the tutorial data to start with.
1. First problem is that when I run the command 'tksurferfv bert lh inflated'; I am getting the error outlined in Image 1.
2. I realised that I could create a patch using freeview instead of tksurfer. However I attempted to follow the instructions on the page above to do this and ran into some problems. Image 2 shows an example of the patch that I created and image 3 shows the error that I get when I attempt to press the Press Fill Uncut Area button (I tried this many times and got the same result).
3. However one time I did succeed in making a patch (I don't know what I did differently this time?) - see image 4 attached. I saved it as lh.full.patch.3d. When I tried to run the command mris_flatten below I got the error outlined in image 5.
mris_flatten -w 10 lh.full.patch.3d lh.full.flat.patch.3d
The version of Freesurfer and the platform that I'm using is outlined below: 1) FreeSurfer version: freesurfer-darwin-macOS-7.1.1-20200811-8b40551 2) Platform: macOS High Sierra 10.13.6 (17G7024)
If anyone could shed some light on any of these errors or suggest an alternative method it would be greatly appreciated.
Thanks a lot.
Kind Regards Ornaith O'Reilly
