[Freesurfer] mri_vol2surf projections for subcortical structures

2020-03-29 Thread Niels Janssen .
External Email - Use Caution Dear list I am working on a project in which we want to extract hippocampal surfaces using mri_tessellate and then overlay these surfaces with fmri activations from nifti files using mri_vol2surf. However, I am unclear whether mri_vol2surf can be used

Re: [Freesurfer] mri_vol2surf projections for subcortical structures

2020-03-29 Thread Bruce Fischl
Hi Niels I don't see why not. vol2surf takes the surface location and the surface normal and sampled from the volume onto the surface using those two pieces of local information. Global surface topology shouldn't matter cheers Bruce On Sun, 29 Mar 2020, Niels Janssen . wrote: Ext

[Freesurfer] segmentThalamicNuclei.sh - Undefined symbol error, Invalid MEX file

2020-03-29 Thread Chester Kang
External Email - Use Caution Hi, We are wanting to run the hippocampal subfields which is part of the developmental version of FreeSurfer ("freesurfer-darwin-macOS-dev.pkg"). The FreeSurfer v7.0.0 Dev and the Matlab2014b (Run Time Version) has also been installed. But are get

[Freesurfer] libpng12.so.0

2020-03-29 Thread Gonzalo Rojas Costa
External Email - Use Caution Hi: I tried to use the tkregisterfv command in Ubuntu 18.04.4 LTS, but I got the following error: "freeview.bin: error while loading shared libraries: libpng12.so.0: cannot open shared object file: No such file or directory". How can I solve it ?

Re: [Freesurfer] libpng12.so.0 (Freesurfer on Ubuntu)

2020-03-29 Thread fsbuild
External Email - Use Caution Hello Gonzalo, Please try downloading and  installing the following, https://drive.google.com/file/d/1OWQSWL8a3Y8f1Weiauj9Lr2d3mtvZOm5/view?usp=sharing $ sudo apt install -y ./libpng12-0_1.2.54-1ubuntu1.1_amd64.deb https://drive.google.com/file/d/1Zdd-C

Re: [Freesurfer] segmentThalamicNuclei.sh - Undefined symbol error, Invalid MEX file

2020-03-29 Thread Hoopes, Andrew
Hi Chester This is now fixed in the newest dev release. The osx gcc libraries required by the matlab binaries weren’t being distributed correctly. Sorry for the inconvenience best Andrew From: on behalf of Chester Kang Reply-To: FS Help Date: Sunday, March 29, 2020 at 6:54 PM To: FS Help