Add files via upload

scripts/prep_bem_fhlin.m

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+close all; clear all;
+
+subjects_dir='/Users/fhlin/workspace/eegmri_wm/subjects';
+subject='s001';
+
+file_surf={
+{'outer_skin.surf'},
+{'outer_skull.surf'},
+{'inner_skull.surf'},
+{'../surf/lh.orig'};
+{'../surf/rh.orig'},
+};
+
+output_file_surf={
+'s001_skin.mat'
+'s001_skull.mat'
+'s001_csf.mat'
+'s001_gm_lh.mat'
+'s001_gm_rh.mat'
+};
+
+for f_idx=1:length(file_surf)
+    vv=[];ff=[];
+    for i_idx=1:length(file_surf{f_idx})
+        if(length(file_surf{f_idx})==1)
+            [vv,ff]=read_surf(sprintf('%s/%s/bem/%s',subjects_dir,subject, file_surf{f_idx}{i_idx}));
+        else
+            [vv_tmp,ff_tmp]=read_surf(sprintf('%s/%s/%s',subjects_dir,subject, file_surf{f_idx}{i_idx}));
+            vv=cat(1,vv,vv_tmp);
+            ff=cat(1,ff,ff_tmp);
+        end;
+    end;
+    surf_vertex{f_idx}=vv;
+    surf_face{f_idx}=ff;
+
+    surf_face{f_idx}=surf_face{f_idx}+1;
+
+    TR = triangulation(surf_face{f_idx},surf_vertex{f_idx});
+    surf_center{f_idx}= incenter(TR);
+    surf_norm{f_idx} = faceNormal(TR);
+
+    %save files for e-field modeling
+    P=surf_vertex{f_idx};
+    t=surf_face{f_idx};
+    normals=surf_norm{f_idx};
+    save(sprintf('%s',output_file_surf{f_idx}),'P','t','normals');
+
+    hold on;
+    colors=get(gca,'colororder');
+    h=patch('vertices',surf_vertex{f_idx},'faces',surf_face{f_idx},'edgecolor','none','facecolor',colors(f_idx,:),'facealpha',0.2); 
+    %quiver3(surf_center{f_idx}(:,1),surf_center{f_idx}(:,2),surf_center{f_idx}(:,3),surf_norm{f_idx}(:,1),surf_norm{f_idx}(:,2),surf_norm{f_idx}(:,3),0.5,'color','r');
+
+end;
+view(-160,20);
+lighting phong
+camlight
+axis off vis3d equal