External Email - Use Caution
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-boun...@nmr.mgh.harvard.edu
<freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Bruce Fischl
<fis...@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:
>
> External Email - Use Caution
>
> 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
>
>
>
2018. 07. 05. (목) 10:45:40 KST
/home/kt/Downloads/Thalamus/Outputs/161019_x3DT1_SAG
/home/kt/Downloads/freesurferDev/bin/recon-all
-i rf161019_x3DT1_SAG.nii -subjid 161019_x3DT1_SAG -all
subjid 161019_x3DT1_SAG
setenv SUBJECTS_DIR /home/kt/Downloads/Thalamus/Outputs
FREESURFER_HOME /home/kt/Downloads/freesurferDev
Actual FREESURFER_HOME /home/kt/Downloads/freesurferDev
build-stamp.txt: freesurfer-linux-centos7_x86_64-dev-20180703-82d87f8
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
cputime unlimited
filesize unlimited
datasize unlimited
stacksize 8192 kbytes
coredumpsize 0 kbytes
memoryuse unlimited
vmemoryuse unlimited
descriptors 1024
memorylocked 64 kbytes
maxproc 63693
maxlocks unlimited
maxsignal 63693
maxmessage 819200
maxnice 0
maxrtprio 0
maxrttime unlimited
total used free shared buffers cached
Mem: 16330356 12319988 4010368 362804 361892 6969136
-/+ buffers/cache: 4988960 11341396
Swap: 244141052 72156 244068896
########################################
program versions used
$Id: recon-all,v 1.601 2017/02/08 21:17:33 greve Exp $
$Id: lta_convert.cpp,v 1.10 2016/08/09 02:11:11 zkaufman Exp $
ProgramName: lta_convert ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:41-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: lta_convert.cpp,v 1.10 2016/08/09 02:11:11 zkaufman Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_and ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:41-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_and.c,v 1.4 2011/03/02 00:04:13 nicks Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_annotation2label ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:41-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_annotation2label.c,v 1.32 2016/08/02 21:20:27 nicks Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_aparc2aseg ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:41-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_aparc2aseg.c,v 1.54 2016/12/26 15:29:30 fischl Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_aparc2wmseg ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:41-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_aparc2wmseg.c,v 1.6 2011/03/02 00:04:13 nicks Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_binarize.bin ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:41-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_binarize.c,v 1.43 2016/06/09 20:46:21 greve Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_ca_label ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:42-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_ca_label.c,v 1.115 2016/10/22 17:31:36 fischl Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_ca_normalize ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:42-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_ca_normalize.c,v 1.69 2016/10/22 17:30:57 fischl Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_ca_register ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:42-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_ca_register.c,v 1.99 2016/10/22 17:31:24 fischl Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_cc ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:42-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_cc.c,v 1.39 2015/12/04 13:59:56 fischl Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_compute_overlap ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:42-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_compute_overlap.c,v 1.19 2015/10/20 20:07:19 fischl Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_compute_seg_overlap ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:43-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_compute_seg_overlap.c,v 1.18 2015/08/28 18:05:30 greve Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_concat.bin ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:43-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_concat.c,v 1.67 2017/02/16 19:49:35 greve Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_concatenate_lta.bin ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:43-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_concatenate_lta.c,v 1.16 2015/11/21 00:06:20 greve Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
mri_convert.bin -all-info
ProgramName: mri_convert.bin ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:43-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_convert.c,v 1.227 2017/02/16 19:15:42 greve Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_diff ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:43-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_diff.c,v 1.37 2017/01/11 18:15:33 greve Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_edit_wm_with_aseg ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:43-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_edit_wm_with_aseg.c,v 1.25 2012/03/29 13:17:38 fischl Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_em_register ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:44-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_em_register.c,v 1.106 2016/10/22 17:31:12 fischl Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_fill ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:44-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_fill.c,v 1.119 2011/10/25 14:09:58 fischl Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_fuse_segmentations ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:44-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_fuse_segmentations.c,v 1.8 2011/03/02 00:04:15 nicks Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_fwhm ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:44-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_fwhm.c,v 1.35 2016/11/01 20:25:24 greve Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_gcut ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:44-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_gcut.cpp,v 1.14 2011/03/02 00:04:16 nicks Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_info ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:44-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_info.c,v 1.87 2014/11/20 23:46:54 greve Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_label2label.bin ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:44-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_label2label.c,v 1.50 2016/12/10 22:57:43 fischl Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_label2vol ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:45-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_label2vol.c,v 1.46 2014/12/08 21:11:54 greve Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_log_likelihood ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:45-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_log_likelihood.c,v 1.4 2011/03/02 00:04:22 nicks Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_mask.bin ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:45-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_mask.c,v 1.24 2016/11/28 20:30:57 fischl Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_matrix_multiply ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:45-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_matrix_multiply.c,v 1.13 2011/03/02 00:04:23 nicks Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_normalize ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:45-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_normalize.c,v 1.92 2017/01/27 22:31:34 ah221 Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_normalize_tp2 ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:45-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_normalize_tp2.c,v 1.8 2011/03/02 00:04:23 nicks Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_or ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:45-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_or.c,v 1.5 2013/03/20 15:03:29 lzollei Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_relabel_hypointensities ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:46-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_relabel_hypointensities.c,v 1.13 2015/05/15 18:44:10 nicks Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_relabel_nonwm_hypos ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:46-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_relabel_nonwm_hypos.c,v 1.2 2014/04/17 18:03:22 greve Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_remove_neck ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:46-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_remove_neck.c,v 1.10 2011/03/02 00:04:24 nicks Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
$Id: mri_robust_register.cpp,v 1.77 2016/01/20 23:36:17 greve Exp $
ProgramName: mri_robust_register.bin ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:46-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_robust_register.cpp,v 1.77 2016/01/20 23:36:17 greve Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
$Id: mri_robust_template.cpp,v 1.54 2016/05/05 21:17:08 mreuter Exp $
ProgramName: mri_robust_template ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:46-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_robust_template.cpp,v 1.54 2016/05/05 21:17:08 mreuter Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mris_anatomical_stats ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:46-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mris_anatomical_stats.c,v 1.79 2016/03/14 15:15:34 greve Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mris_ca_label ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:47-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mris_calc ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:47-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mris_calc.c,v 1.55 2016/09/27 18:50:16 greve Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mris_convert ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:47-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id$ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mris_curvature ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:47-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mris_curvature.c,v 1.31 2011/03/02 00:04:30 nicks Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mris_curvature_stats ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:47-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mris_curvature_stats.c,v 1.65 2015/06/04 20:50:51 nicks Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mris_diff ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:47-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mris_diff.c,v 1.20 2014/03/21 23:57:48 greve Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mris_divide_parcellation ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:47-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mris_divide_parcellation.c,v 1.12 2012/10/24 19:50:06 maritza Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_segment ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:48-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_segment.c,v 1.44 2016/10/22 17:29:37 fischl Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_segstats ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:48-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_segstats.c,v 1.122 2017/01/23 18:23:14 greve Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mris_euler_number ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:48-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mris_euler_number.c,v 1.10 2013/01/14 22:39:14 greve Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mris_fix_topology ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:48-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mris_fix_topology.c,v 1.51 2016/10/27 19:43:58 fischl Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mris_topo_fixer ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:48-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mris_topo_fixer.cpp,v 1.29 2011/03/02 00:04:34 nicks Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mris_jacobian ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:48-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mris_jacobian.c,v 1.11 2015/02/05 23:34:40 zkaufman Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mris_label2annot ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:48-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mris_label2annot.c,v 1.20 2016/01/07 23:28:11 greve Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mris_left_right_register ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:49-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mris_left_right_register.c,v 1.2 2011/12/16 20:49:37 greve Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mris_make_surfaces ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:49-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mris_make_surfaces.c,v 1.172 2017/02/16 19:42:36 fischl Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mrisp_paint ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:49-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mrisp_paint.c,v 1.12 2016/03/22 14:47:57 fischl Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mris_register ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:49-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mris_register.c,v 1.64 2017/02/07 19:04:44 fischl Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mris_smooth ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:49-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mris_smooth.c,v 1.30 2014/01/21 18:48:21 fischl Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mris_sphere ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:49-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mris_sphere.c,v 1.62 2017/02/07 19:04:37 fischl Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mris_surface_stats ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:49-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mris_surface_stats.c,v 1.10 2011/03/02 00:04:34 nicks Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_stats2seg ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:50-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_stats2seg.c,v 1.9 2011/03/02 00:04:24 nicks Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mris_thickness ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:50-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mris_thickness.c,v 1.28 2012/11/27 17:41:26 fischl Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mris_thickness_diff ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:50-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mris_thickness_diff.c,v 1.16 2011/03/02 00:04:34 nicks Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mris_topo_fixer ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:50-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mris_topo_fixer.cpp,v 1.29 2011/03/02 00:04:34 nicks Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_surf2surf ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:50-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_surf2vol ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:50-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_surf2vol.c,v 1.28 2014/12/08 19:49:02 greve Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_surfcluster.bin ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:50-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_surfcluster.c,v 1.60 2016/11/01 19:49:22 greve Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mris_volmask ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:51-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mris_volmask.cpp,v 1.28 2016/11/18 19:19:29 fischl Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_tessellate ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:51-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_tessellate.c,v 1.39 2016/07/20 21:05:04 zkaufman Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_vol2surf ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:51-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_vol2surf.c,v 1.68 2014/05/30 20:58:47 greve Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_vol2vol.bin ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:51-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_vol2vol.c,v 1.89 2016/06/22 22:33:40 fischl Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_voldiff ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:51-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_voldiff.c,v 1.6 2011/03/02 00:04:25 nicks Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: mri_watershed ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:51-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_watershed.cpp,v 1.103 2016/06/17 18:00:49 zkaufman Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
ProgramName: tkregister2_cmdl ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:52-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: tkregister2.c,v 1.133 2016/08/02 21:17:11 greve Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
$Id: mri_motion_correct.fsl,v 1.15 2016/02/16 17:17:20 zkaufman Exp $
mri_convert.bin -all-info
ProgramName: mri_convert.bin ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2018/07/05-01:45:52-GMT BuildTimeStamp: Jul 3 2018 00:05:53 Id: $Id: mri_convert.c,v 1.227 2017/02/16 19:15:42 greve Exp $ User: kt Machine: kt-B85M-DS3H-A Platform: Linux PlatformVersion: 4.4.0-130-generic CompilerName: GCC CompilerVersion: 40800
FLIRT version 6.0
Program nu_correct, built from:
Package MNI N3, version 1.12.0, compiled by nicks@terrier (x86_64-unknown-linux-gnu) on 2015-06-19 at 01:25:34
#######################################
GCADIR /home/kt/Downloads/freesurferDev/average
GCA RB_all_2016-05-10.vc700.gca
GCASkull RB_all_withskull_2016-05-10.vc700.gca
AvgCurvTif folding.atlas.acfb40.noaparc.i12.2016-08-02.tif
GCSDIR /home/kt/Downloads/freesurferDev/average
GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs
#######################################
/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
To report a problem, see http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
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