Sir earlier I was trying to use FreeSurfer using Virtual Box in my Windows machine. There the mri_convert command did not work so I switched to a Linux machine. Now, I'm using centos6_x86_64 version as my machine has the Ubuntu 12.04 platform and here also facing the same problem.
I want to share one thing that in my institute I tried hard to download FreeSurfer but every time it resulted into a time-out situation so I had to ask someone to get it downloaded and send me through Google drive. This was how I installed it in my system.
Best regards, Gunjan On Nov 12, 2014 9:15 PM, "Z K" zkaufman@nmr.mgh.harvard.edu wrote:
Gunjan,
Are you using your own version of VirtualBox, with freesurfer installed on it by you? Or the VirtualBox version of freesurfer made by us and downloaded from our website? I am confused because in your email below, freesurfer appears to be installed on the Desktop whereas the prepackaged version made by us is installed in /usr/local
-Zeke
On 11/12/2014 08:54 AM, Gunjan Gautam wrote:
Hello Sir,
License file is present in the folder but with the name LICENSE. Should I download it again ?
Best Regards, Gunjan
On Nov 12, 2014 7:01 PM, "Bruce Fischl" <fischl@nmr.mgh.harvard.edu mailto:fischl@nmr.mgh.harvard.edu> wrote:
Hi Gunjan do you have a license? If not you need to download and install it (as noted in the error message). They are free. cheers Bruce On Wed, 12 Nov 2014, Gunjan Gautam wrote: Hello Sir, I'm using FreeSurfer through Virtual Box. I tried the below command for reslicing my volume according to a reference volume but the process gets stuck at " reading volume". mri_convert A.nii.gz A.resliced.nii.gz -rl B.nii.gz A: Volume to be resampled / resliced B: Reference Volume Error message is being shown like below: mri_convert a.nii a.resliced.nii -rl b.nii $Id: mri_convert.c,v 1.179.2.7 2012/09/05 21:55:16 mreuter Exp $ reading from a.nii...------------------------------__------------------------------__--------------
ERROR: Invalid FreeSurfer license key found in license file /home/bibl04/Data_Home/__Desktop/freesurfer/license.txt If you are outside the NMR-Martinos Center, go to http://surfer.nmr.mgh.harvard.__edu <http://surfer.nmr.mgh.harvard.edu> to get a valid license file (it's free). If you are inside the NMR-Martinos Center, make sure to source the standard environment. Actually, I have two volumes, belong to the same subject. One volume is the ground truth which will be considered as standard for the second volume which is the processed one or the extracted brain. To perform a perfect comparison between both volumes, these must generate equal number of slices in order to compare the corresponding slide. But here there is problem with my volumes, that is while performing slicing Ground Truth volumeis
generating 360 slice and processed volume is generating 181 slides. So comparison can't take place in this way. What all I need is to do the resampling or generating the 181 slides from the Ground Truth as well. Best Regards, Gunjan _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu>
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer