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  <title>NITRC News Group Forum: freesurfer-error-fov---256</title>
  <link>http://www.nitrc.org/forum/forum.php?forum_id=9129</link>
  <description> &lt;p&gt;Hi, Chris,&lt;br&gt;
I also encountered similar problem with my own data when using recon function (with --fs-no-reconall, I could finish the preprocessing)&lt;/p&gt;
&lt;p&gt;Here is the log from recon-all.log:&lt;/p&gt;
&lt;blockquote&gt;
&lt;p&gt;Mon Mar 11 00:13:28 UTC 2019&lt;br&gt;
/out/out/freesurfer/sub-001&lt;br&gt;
/opt/freesurfer/bin/recon-all&lt;br&gt;
-autorecon1 -i /data/sub-001/ses-d1/anat/sub-001_ses-d1_T1w.nii.gz -noskullstrip -cw256 -hires -openmp 7 -subjid sub-001 -sd /out/out/freesurfer -expert /work/fmriprep_wf/single_subject_001_wf/anat_preproc_wf/surface_recon_wf/autorecon1/expert.opts&lt;br&gt;
subjid sub-001&lt;br&gt;
setenv SUBJECTS_DIR /out/out/freesurfer&lt;br&gt;
FREESURFER_HOME /opt/freesurfer&lt;br&gt;
Actual FREESURFER_HOME /opt/freesurfer&lt;br&gt;
build-stamp.txt: freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.1-f53a55a&lt;br&gt;
Linux 3e5932778b80 4.15.0-46-generic &lt;span class=&quot;hashtag&quot;&gt;#49-Ubuntu&lt;/span&gt; SMP Wed Feb 6 09:33:07 UTC 2019 x86_64 x86_64 x86_64 GNU/Linux&lt;br&gt;
cputime      unlimited&lt;br&gt;
filesize     unlimited&lt;br&gt;
datasize     unlimited&lt;br&gt;
stacksize    8192 kbytes&lt;br&gt;
coredumpsize unlimited&lt;br&gt;
memoryuse    unlimited&lt;br&gt;
vmemoryuse   unlimited&lt;br&gt;
descriptors  1048576&lt;br&gt;
memorylocked 16384 kbytes&lt;br&gt;
maxproc      unlimited&lt;br&gt;
maxlocks     unlimited&lt;br&gt;
maxsignal    63302&lt;br&gt;
maxmessage   819200&lt;br&gt;
maxnice      0&lt;br&gt;
maxrtprio    0&lt;br&gt;
maxrttime    unlimited&lt;/p&gt;
&lt;pre&gt;&lt;code&gt;          total        used        free      shared  buff/cache   available
&lt;/code&gt;&lt;/pre&gt;
&lt;p&gt;Mem:       16284864     4278568     2888448      294604     9117848    11211380&lt;br&gt;
Swap:       7812092      456192     7355900&lt;/p&gt;
&lt;p&gt;########################################&lt;br&gt;
program versions used&lt;br&gt;
$Id: recon-all,v 1.580.2.16 2017/01/18 14:11:24 zkaufman Exp $&lt;br&gt;
$Id: mri_motion_correct.fsl,v 1.15 2016/02/16 17:17:20 zkaufman Exp $&lt;br&gt;
mri_convert.bin -all-info&lt;br&gt;
ProgramName: mri_convert.bin  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2019/03/11-00:13:28-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
FLIRT version 5.5&lt;br&gt;
$Id: talairach_avi,v 1.13 2015/12/23 04:25:17 greve Exp $&lt;br&gt;
mri_convert.bin --version&lt;br&gt;
stable6&lt;br&gt;
ProgramName: tkregister2_cmdl  ProgramArguments: --all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2019/03/11-00:13:28-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: tkregister2.c,v 1.132.2.1 2016/08/02 21:17:29 greve Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
Program nu_correct, built from:&lt;br&gt;
Package MNI N3, version 1.12.0, compiled by nicks@terrier (x86_64-unknown-linux-gnu) on 2015-06-19 at 01:25:34&lt;br&gt;
ProgramName: mri_make_uchar  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2019/03/11-00:13:28-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mri_make_uchar.c,v 1.4 2011/03/02 00:04:14 nicks Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mri_normalize  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2019/03/11-00:13:28-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mri_normalize.c,v 1.88.2.3 2016/12/27 16:47:13 zkaufman Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mri_watershed  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2019/03/11-00:13:28-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mri_watershed.cpp,v 1.103 2016/06/17 18:00:49 zkaufman Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mri_gcut  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mri_gcut.cpp,v 1.14 2011/03/02 00:04:16 nicks Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mri_segment  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mri_segment.c,v 1.43.2.1 2016/10/27 22:24:52 zkaufman Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mri_label2label.bin  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mri_label2label.c,v 1.48.2.2 2016/12/12 14:15:26 zkaufman Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mri_em_register  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mri_em_register.c,v 1.105.2.1 2016/10/27 22:25:10 zkaufman Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mri_ca_normalize  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mri_ca_normalize.c,v 1.67.2.2 2016/10/27 22:25:09 zkaufman Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mri_ca_register  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mri_ca_register.c,v 1.96.2.3 2016/10/27 22:25:10 zkaufman Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mri_ca_label  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mri_ca_label.c,v 1.113.2.2 2016/10/27 22:25:10 zkaufman Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mri_pretess  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mri_pretess.c,v 1.22 2013/08/30 18:12:25 mreuter Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mri_fill  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mri_fill.c,v 1.119 2011/10/25 14:09:58 fischl Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mri_tessellate  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mri_tessellate.c,v 1.38.2.1 2016/07/26 18:46:38 zkaufman Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mri_concatenate_lta.bin  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mri_concatenate_lta.c,v 1.16 2015/11/21 00:06:20 greve Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mri_normalize_tp2  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mri_normalize_tp2.c,v 1.8 2011/03/02 00:04:23 nicks Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mris_smooth  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mris_smooth.c,v 1.30 2014/01/21 18:48:21 fischl Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mris_inflate  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mris_inflate.c,v 1.45 2016/01/20 23:42:15 greve Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mris_curvature  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mris_curvature.c,v 1.31 2011/03/02 00:04:30 nicks Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mris_sphere  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mris_fix_topology  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mris_fix_topology.c,v 1.50.2.1 2016/10/27 22:25:58 zkaufman Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mris_topo_fixer  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mris_topo_fixer.cpp,v 1.29 2011/03/02 00:04:34 nicks Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mris_ca_label  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mris_euler_number  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mris_euler_number.c,v 1.10 2013/01/14 22:39:14 greve Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mris_make_surfaces  ProgramArguments: -all-info  ProgramVersion: $Name:  $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mris_make_surfaces.c,v 1.164.2.4 2016/12/13 22:26:32 zkaufman Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mris_register  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mris_register.c,v 1.63 2016/01/20 23:43:04 greve Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mris_volmask  ProgramArguments: --all-info  ProgramVersion: $Name:  $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mris_volmask.cpp,v 1.26.2.2 2016/11/18 20:05:18 zkaufman Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mris_anatomical_stats  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mris_anatomical_stats.c,v 1.79 2016/03/14 15:15:34 greve Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mrisp_paint  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mrisp_paint.c,v 1.12 2016/03/22 14:47:57 fischl Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mris_curvature_stats  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mris_curvature_stats.c,v 1.65 2015/06/04 20:50:51 nicks Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mris_calc  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mris_calc.c,v 1.54.2.1 2016/09/27 18:51:28 greve Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
$Id: mri_robust_register.cpp,v 1.77 2016/01/20 23:36:17 greve Exp $&lt;/p&gt;
&lt;p&gt;ProgramName: mri_robust_register.bin  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mri_robust_register.cpp,v 1.77 2016/01/20 23:36:17 greve Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
$Id: mri_robust_template.cpp,v 1.54 2016/05/05 21:17:08 mreuter Exp $&lt;/p&gt;
&lt;p&gt;ProgramName: mri_robust_template  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mri_robust_template.cpp,v 1.54 2016/05/05 21:17:08 mreuter Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mri_and  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mri_and.c,v 1.4 2011/03/02 00:04:13 nicks Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mri_or  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mri_or.c,v 1.5 2013/03/20 15:03:29 lzollei Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mri_fuse_segmentations  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mri_fuse_segmentations.c,v 1.8 2011/03/02 00:04:15 nicks Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mri_segstats  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
ProgramName: mri_relabel_hypointensities  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2019/03/11-00:13:29-GMT  BuildTimeStamp: Oct 20 2017 13:59:15  CVS: $Id: mri_relabel_hypointensities.c,v 1.13 2015/05/15 18:44:10 nicks Exp $  User: root  Machine: 3e5932778b80  Platform: Linux  PlatformVersion: 4.15.0-46-generic  CompilerName: GCC  CompilerVersion: 40400&lt;br&gt;
#######################################&lt;br&gt;
GCADIR /opt/freesurfer/average&lt;br&gt;
GCA RB_all_2016-05-10.vc700.gca&lt;br&gt;
GCASkull RB_all_withskull_2016-05-10.vc700.gca&lt;br&gt;
AvgCurvTif folding.atlas.acfb40.noaparc.i12.2016-08-02.tif&lt;br&gt;
GCSDIR /opt/freesurfer/average&lt;br&gt;
GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs&lt;br&gt;
#######################################&lt;br&gt;
-cw256 option is now persistent (remove with -clean-cw256)&lt;br&gt;
/out/out/freesurfer/sub-001&lt;/p&gt;
&lt;p&gt;mri_convert /data/sub-001/ses-d1/anat/sub-001_ses-d1_T1w.nii.gz /out/out/freesurfer/sub-001/mri/orig/001.mgz&lt;/p&gt;
&lt;p&gt;mri_convert.bin /data/sub-001/ses-d1/anat/sub-001_ses-d1_T1w.nii.gz /out/out/freesurfer/sub-001/mri/orig/001.mgz&lt;br&gt;
$Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $&lt;br&gt;
reading from /data/sub-001/ses-d1/anat/sub-001_ses-d1_T1w.nii.gz…&lt;br&gt;
TR=1900.00, TE=0.00, TI=0.00, flip angle=0.00&lt;br&gt;
i_ras = (1, 1.94477e-16, -1.10357e-16)&lt;br&gt;
j_ras = (-2e-16, 0.998622, -0.0524728)&lt;br&gt;
k_ras = (1e-16, 0.0524728, 0.998622)&lt;br&gt;
writing to /out/out/freesurfer/sub-001/mri/orig/001.mgz…&lt;br&gt;
&lt;span class=&quot;hashtag&quot;&gt;#--------------------------------------------&lt;/span&gt;&lt;br&gt;
#@# MotionCor Mon Mar 11 00:13:41 UTC 2019&lt;br&gt;
Found 1 runs&lt;br&gt;
/out/out/freesurfer/sub-001/mri/orig/001.mgz&lt;br&gt;
Checking for (invalid) multi-frame inputs…&lt;br&gt;
WARNING: only one run found. This is OK, but motion&lt;br&gt;
correction cannot be performed on one run, so I’ll&lt;br&gt;
copy the run to rawavg and continue.&lt;/p&gt;
&lt;p&gt;cp /out/out/freesurfer/sub-001/mri/orig/001.mgz /out/out/freesurfer/sub-001/mri/rawavg.mgz&lt;/p&gt;
&lt;p&gt;/out/out/freesurfer/sub-001&lt;/p&gt;
&lt;p&gt;mri_convert /out/out/freesurfer/sub-001/mri/rawavg.mgz /out/out/freesurfer/sub-001/mri/orig.mgz --conform_min&lt;/p&gt;
&lt;p&gt;mri_convert.bin /out/out/freesurfer/sub-001/mri/rawavg.mgz /out/out/freesurfer/sub-001/mri/orig.mgz --conform_min&lt;br&gt;
$Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $&lt;br&gt;
reading from /out/out/freesurfer/sub-001/mri/rawavg.mgz…&lt;br&gt;
TR=1900.00, TE=0.00, TI=0.00, flip angle=0.00&lt;br&gt;
i_ras = (1, 1.94477e-16, -1.10357e-16)&lt;br&gt;
j_ras = (-2e-16, 0.998622, -0.0524728)&lt;br&gt;
k_ras = (1e-16, 0.0524728, 0.998622)&lt;br&gt;
changing data type from float to uchar (noscale = 0)…&lt;br&gt;
MRIchangeType: Building histogram&lt;br&gt;
Reslicing using trilinear interpolation&lt;br&gt;
writing to /out/out/freesurfer/sub-001/mri/orig.mgz…&lt;/p&gt;
&lt;hr&gt;
&lt;p&gt;ERROR! FOV=259.201 &amp;gt; 256&lt;br&gt;
Include the flag -cw256 with recon-all!&lt;br&gt;
Inspect orig.mgz to ensure the head is fully visible.&lt;/p&gt;
&lt;hr&gt;
&lt;p&gt;Linux 3e5932778b80 4.15.0-46-generic &lt;span class=&quot;hashtag&quot;&gt;#49-Ubuntu&lt;/span&gt; SMP Wed Feb 6 09:33:07 UTC 2019 x86_64 x86_64 x86_64 GNU/Linux&lt;/p&gt;
&lt;p&gt;recon-all -s sub-001 exited with ERRORS at Mon Mar 11 00:13:54 UTC 2019&lt;/p&gt;
&lt;p&gt;To report a problem, see &lt;a href=&quot;http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting&quot; rel=&quot;nofollow noopener&quot;&gt;http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting&lt;/a&gt;&lt;/p&gt;
&lt;/blockquote&gt; </description>
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