Uzair Hussain

Work around is to reload the same surface for each of the multiple overlays and then play around with the opacity of the different surfaces.

Is there a way to get the boundary curve instead of just the edges?

Sorry, by curve I mean that the coordinates are aranged such that the index parametrizes the curve.

 Actually now that I think about it, it seems they both need a counter clockwise rotation by 90.

I don't know that immediately, but let me see if I can figure it out, will comment back.

Okay so let me just outline the steps I carried out to see if it offers any clarity. 1) I use the `cortex.freesurfer.import_subj("subj01",freesurfer_subject_dir=freesurfer_path)` command to import the subect 2) Then...

Just a tiny update, I plotted the flat surfaces directly on mayavi using: `pts_lh,polys_lh,_=get_surf('subj01','lh','patch','full'+'.flat',freesurfer_subject_dir=freesurfer_path) pts_rh,polys_rh,_=get_surf('subj01','rh','patch','full'+'.flat',freesurfer_subject_dir=freesurfer_path) mlab.triangular_mesh(pts_rh[:,0],pts_rh[:,1],pts_rh[:,2],polys_rh) mlab.triangular_mesh(pts_lh[:,0]+500,pts_lh[:,1],pts_lh[:,2],polys_lh)` And it seems to be correct from freesurfer, so likely something else: 

An update: If I make the following change in `cortex.freesufer.py` : ``` for hemi in hemis: if flat_type == 'freesurfer': pts, polys, _ = get_surf(fs_subject, hemi, "patch", patch+".flat", freesurfer_subject_dir=freesurfer_subject_dir) #...