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Hello Pedro,

It does not look like you are using a standard installation of freesurfer given the path you list below as /root/freesurfer.

We have information available about how to use either WSL (Windows Subsystem for Linux) to host Ubuntu Linux in order to run Freesurfer on Windows, https://secure-web.cisco.com/1kqIIthfElwIFp4xfRtH02uxDl8MR86sRRP-ugqp0vSmGTw... - or you can install VirtualBox on your Windows machine to run a VM we provide for download with freesurfer already installed and setup to run (see https://secure-web.cisco.com/1v32HavIAAMjouxecLl5yEhLk0tyE2hxIHnDGZC-o-FlJls...)

For WSL, once you have Ubuntu Linux running, we recommend using one of the debian (.deb) package installers listed on the Freesurfer 7 download page that matches your Ubuntu system (https://secure-web.cisco.com/1q0Hyt7h01b-vvXLm4oWRsX0bWB4JcKCG1QCz9R_lYE6XHQ...; So for Ubuntu 22 running in WSL, you would download one of the freesurfer_ubuntu22-7.X.X_amd64.deb files into Ubuntu linux and install it.  That would install freesurfer as /usr/local/freesurfer/7.x.x in the Ubuntu Linux image running in WSL.    In the VM, freesurfer 7.2.0 is already installed as /usr/local/freesurfer/7.2.0

We recommend you verify you are using (or try) one of the setups above.

- R.

On 6/1/23 11:38, Pedro henrique barradas (phbarradas@hotmail.com) wrote:

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Hello!

I'm having a couple problems with the final installation steps

When I attempt to export $FREESURFER_HOME=$HOME/freesurfer it tells me:

bash: export: ´#HOME/freesurfer=root/freesurfer`: not a valid identifier

When I source it, it now says it cannot find the directory

and gives back the following answers:

bash: /root/freesurfer/SetUpFreeSurfer.sh: No such file or directory I also tried doing "source SetUpFreeSurfer.sh" from the freesurfer directory and I got this response:

bash: /root/freesurfer/FreeSurferEnv.sh: No such file or directory

Also,

When I type echo $FREESURFER_HOME I get

root/freesurfer

But when I type pwd $FREESURFER_HOME it gives me

c/mnt/Users/ASUS/Downloads/freesurfer

I greatly appreciate any advice. Thank you

Best wishes

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