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" <zkauf...@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" <fis...@nmr.mgh.harvard.edu > > <mailto:fis...@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 volume > is > > 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 >
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