Re: [Freesurfer] Solving the Lazy Symbol binding errors

External Email - Use Caution Sorry - forgot the download link, https://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/6.0.0/freesurfer-Darwin-OSX-stable-pub-v6.0.0.dmg On May 12, 2020, at 23:59, fsbuild fsbu...@contbay.com wrote:External Email - Use CautionHello Renxi,You could

Re: [Freesurfer] Solving the Lazy Symbol binding errors

External Email - Use Caution Hello Renxi, You could try downloading the 6.0.0 release from here and use the installer package. Since the package is unsigned, you will need sudo/admin privileges to install it, but you should not need to disable SIP. After downloading and

Re: [Freesurfer] Fw: Error: Command Not Found

I’ll try emailing SimNIBS support. It’s either FSL or FreeSurfer, I wasn’t sure which. Thanks! Get Outlook for iOS From: freesurfer-boun...@nmr.mgh.harvard.edu on behalf of Douglas N. Greve Sent: Tuesday, May 12, 2020 11:22:33 PM To:

Re: [Freesurfer] Compare individual to a group

External Email - Use Caution Hi Douglas, I have tried to follow your suggestion to use the transformed thickness file like this: mris_preproc --fsgd xxx.fsgd \ --meas $meas.fwhm$smoothing.xformed.mgz \ --target

Re: [Freesurfer] Fw: Error: Command Not Found

Is that a FreeSurfer command? I can't find it in our tree. It looks like it might be FSL(?). On 5/12/2020 10:34 PM, Chung, Evan R. wrote: *From:* Chung, Evan R. *Sent:* Tuesday, May 12, 2020 10:30 PM *To:*

[Freesurfer] Fw: Error: Command Not Found

From: Chung, Evan R. Sent: Tuesday, May 12, 2020 10:30 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Error: Command Not Found Hello Freesurfer Developers, I'm attempting to run the command "mri2mesh --all (specific folder and files)" but a "command not

Re: [Freesurfer] Information regarding FreeSurferColorLUT.txt

you can look in the stats folder in the recon-all output. Eg, aseg.stats, wmparc.stats. The ?h.aparc*.stats file are surface-based (so not in the LUT per se), but you can create segmentation volumes from them (eg, the aparc+aseg.mgz) On 5/11/2020 10:56 PM, Safi Ullah . wrote:

[Freesurfer] FreeSurfer v6.0 minimal Docker image

External Email - Use Caution Hello together!   I’d like to share my attempt on providing minimal Docker image of the FreeSurfer that is fully operational in terms of recon-all functionality.   Please see: https://hub.docker.com/r/alerokhin/freesurfer6   Compressed size is 732.6

Re: [Freesurfer] tkmedit in FreeSurfer 7.0

There is a script called tkmeditfv which runs freeview with tkmedit-style arguments. Most of the time, this is much easier On 5/12/2020 3:30 PM, Hoopes, Andrew wrote: Hi Aylin, You can add this to your SetUpFreeSurfer script in $FREESURFER_HOME, but in general tkmedit is no longer supported

Re: [Freesurfer] tkmedit in FreeSurfer 7.0

Hi Aylin, You can add this to your SetUpFreeSurfer script in $FREESURFER_HOME, but in general tkmedit is no longer supported after v6, please just use freeview. Best Andrew From: on behalf of "Dincer, Aylin" Reply-To: FS Help Date: Monday, May 11, 2020 at 3:17 PM To: FS Help Subject:

Re: [Freesurfer] mri_glmfit ERROR: matrix is ill-conditioned or badly scaled -

Can you email the fsgd file? On 5/12/2020 1:35 PM, Marina Fernández wrote: External Email - Use Caution Dear Freesurfer experts, I get the error that you can find at the end of this message when I am running mri_glmfit. Whenever I run an analysis in which the experimental design

[Freesurfer] mri_glmfit ERROR: matrix is ill-conditioned or badly scaled -

External Email - Use Caution Dear Freesurfer experts, I get the error that you can find at the end of this message when I am running mri_glmfit. Whenever I run an analysis in which the experimental design has more than 12 columns, I get the same error, whereas if the

[Freesurfer] mri_glmfit error

External Email - Use Caution Dear Freesurfer experts, I get the error that you can find at the end of this message when I am running mri_glmfit. Whenever I run an analysis in which the experimental design has more than 12 columns, I get the same error, whereas if the

[Freesurfer] Robust Regression with Univariate LME

External Email - Use Caution Hi FreeSurfer Experts, There are a couple of outliers in my data. I had winsorized the variable, but now I am trying to use robust regression to weight these outliers in my longitudinal analyses. In Matlab there is a robustfit function. Is there a