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Hello Bruce,

I reattached the whole recon-all. log.

I've solved the following error:

-------------------------------------------------------------------------- GNU libc version: 2.19 ERROR: Systems running GNU glibc version greater than 2.15 require a newly formatted license file (it's free). Please download a new one from the following page: http://surfer.nmr.mgh.harvard.edu/registration.html --------------------------------------------------------------------------

However, I still get the error message: "Could not set locale" whenever I run the recon-all. Could you tell me how I can solve the problem?

Thank you in advance for your help.

Regards, Kayeong Tak

________________________________ From: 가영 탁 kytak1123@hotmail.com Sent: Thursday, July 5, 2018 12:45 PM To: Freesurfer support list Subject: Re: [Freesurfer] Recon-all error: could not set locale

Hi Bruce,

Thank you for your prompt response.

Attached is the whole recon-all.log from a failed run. The complete screen output:

kt@kt-B85M-DS3H-A:~/Downloads/Thalamus$ ./reconall Subject Stamp: freesurfer-linux-centos7_x86_64-dev-20180703-82d87f8 Current Stamp: freesurfer-linux-centos7_x86_64-dev-20180703-82d87f8 INFO: SUBJECTS_DIR is /home/kt/Downloads/Thalamus/Outputs Actual FREESURFER_HOME /home/kt/Downloads/freesurferDev Linux kt-B85M-DS3H-A 4.4.0-130-generic #156~14.04.1-Ubuntu SMP Thu Jun 14 13:51:47 UTC 2018 x86_64 x86_64 x86_64 GNU/Linux Could not set locale No such file or directory Could not set locale No such file or directory Could not set locale No such file or directory Could not set locale No such file or directory Could not set locale No such file or directory Could not set locale No such file or directory Could not set locale No such file or directory Could not set locale Could not set locale No such file or directory Could not set locale No such file or directory Could not set locale No such file or directory Could not set locale No such file or directory Could not set locale Could not set locale No such file or directory Could not set locale No such file or directory Could not set locale No such file or directory Could not set locale '/home/kt/Downloads/freesurferDev/bin/recon-all' -> '/home/kt/Downloads/Thalamus/Outputs/161019_x3DT1_SAG/scripts/recon-all.local-copy' /home/kt/Downloads/Thalamus/Outputs/161019_x3DT1_SAG

mri_convert /home/kt/Downloads/Thalamus/rf161019_x3DT1_SAG.nii /home/kt/Downloads/Thalamus/Outputs/161019_x3DT1_SAG/mri/orig/001.mgz

Could not set locale No such file or directory Could not set locale No such file or directory Could not set locale mri_convert.bin /home/kt/Downloads/Thalamus/rf161019_x3DT1_SAG.nii /home/kt/Downloads/Thalamus/Outputs/161019_x3DT1_SAG/mri/orig/001.mgz error parsing license file, expected 4 values $Id: mri_convert.c,v 1.227 2017/02/16 19:15:42 greve Exp $ reading from /home/kt/Downloads/Thalamus/rf161019_x3DT1_SAG.nii... -------------------------------------------------------------------------- GNU libc version: 2.19 ERROR: Systems running GNU glibc version greater than 2.15 require a newly formatted license file (it's free). Please download a new one from the following page: http://surfer.nmr.mgh.harvard.edu/registration.html -------------------------------------------------------------------------- Linux kt-B85M-DS3H-A 4.4.0-130-generic #156~14.04.1-Ubuntu SMP Thu Jun 14 13:51:47 UTC 2018 x86_64 x86_64 x86_64 GNU/Linux

recon-all -s 161019_x3DT1_SAG exited with ERRORS at 2018. 07. 05. (목) 10:45:52 KST

For more details, see the log file /home/kt/Downloads/Thalamus/Outputs/161019_x3DT1_SAG/scripts/recon-all.log To report a problem, see http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting

Thank you again for your help.

Regards, Kayeong Tak

________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Bruce Fischl fischl@nmr.mgh.harvard.edu Sent: Thursday, July 5, 2018 5:01 AM To: Freesurfer support list Subject: Re: [Freesurfer] Recon-all error: could not set locale

Hi Kayeong

can you send us the whole recon-all.log from a failed run and the complete screen output? The locale is needed to specify the format of numbers I believe (e.g. 1,00 vs. 1.00)

cheers Bruce

On Wed, 4 Jul 2018, ?? ? wrote:

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Hi Freesurfer Team,

I am aware that segmentation of thalamic nuclei is only available in developmental versions of Freesurfer.

After I have downloaded the Freesurfer dev version(freesurfer-linux-centos7_x86_64-dev), I get the following error whenever I use the recon-all command:

Could not set locale No such file or directory

Recon-all works fine when I use the stable 6.0 version.

Could anyone tell me how I can fix this problem?

Also, I was wondering it is ok to use recon-all from 6.0 version and thalamic nuclei analysis from dev version.

Thanks in advance,

Kayeong Tak