Hi Areumevery brain will have a somewhat different number of vertices depending on size and geometry. If you want them to be comparable you need to map them into the fsaverage space using e.g. the -qcache switch to recon-all (or mri_surf2surf directly if you prefer).
cheers Bruce On Sat, 16 Jan 2016, A-reum Min wrote:
Hello expert.
I'm Areum.
I have some question to you.
A weeks ago, i compared two groups (OSA patients VS control) and then the
number of vertices were confirmed.
Each group has the same number of vertices.(176416) -experiment 1.
And yesterday, i compared two groups(partial sleep deprivation:PSD VS
control) and then the number of vertices were confirmed.
Each group has the same number of vertices(169548) -experiment 2.
1) Why isn't the same number of total vertices? is it related rain size?
2) How can i extract the number of total vertices(ex.#1 vertex : cortical
thickness value) to 1 subject(PSD) and average of PSD ?
I want to compared asymmetry of brain (lateralization). So, i really
necessary above value(cortical thickness value of vertex).
plz answer me.
Thank you.
2016-01-07 3:52 GMT+09:00 Bruce Fischl <fis...@nmr.mgh.harvard.edu>:
Hi A-reum
did you talk to the Wash U group? If you have nifti files they
can be processed using recon-all (i.e. recon-all -i <full path
to nifti file> -s <subject id> -sd <directory to contain all
subjects> -all)
cheers
Bruce
On Tue, 29 Dec 2015, A-reum Min wrote:
hello experts!my name is areum.
i have some question to you.i have never seen before
these NIFTI
format(fig.1.png)
I want to see these data subjects's cortical
thickness using qdec.
how can i to do? plz answer me
2015-12-25 2:16 GMT+09:00 Bruce Fischl
<fis...@nmr.mgh.harvard.edu>:
Hi A-reum
you should probably ask the Wash U HCP group.
I'll cc Matt
Glasser who might be able to answer your
question
cheers
Bruce
On Thu, 24 Dec 2015, A-reum Min wrote:
hello experts!my name is areum.
i have some question to you.
a few days ago i was down load HCP(human
connectom
project) data.
but.. how can i use these HCP format.
i have never seen before these
format(fig.1.png)
I want to see HCP data subjects's
cortical thickness
using qdec.
how can i to do?
plz answer me
2015-11-10 7:49 GMT+09:00 A-reum Min
<naniy...@gmail.com>:
Hello experts!
I have some question to you..
I don't need to show up so small blue
regions(fig.1
blue region)
How can i control these?
2015-11-10 7:41 GMT+09:00 Douglas N
Greve
<gr...@nmr.mgh.harvard.edu>:
Hi, please create a new thread
since this is a
new topic.
Also, I don't
understand your question so please
elaborate.
On 11/09/2015 05:34 AM, A-reum Min
wrote:
> Hello experts!
>
> i have some question to you..
>
> How can i control the cluster
size?
>
> My cluster threshold is 1.
>
> then, too many blue regions (as
shown
fig.1).
>
> so, i want to control cluster
threshold 1-->
cluster
threshold 5.
>
> 2015-11-08 20:44 GMT+09:00
A-reum Min
<naniy...@gmail.com
> <mailto:naniy...@gmail.com>>:
>
> Hello bruce!
>
> I solve the problem for your
answer.
>
> And.. i have some question
to you..
>
> How can i control the
cluster size?
>
> My cluster threshold is 1.
>
> then, too many blue regions
(as shown
fig.1).
>
> so, i want to control
cluster threshold
1--> cluster
threshold 5.
>
> How can i to do?
>
>
>
>
>
> 2015-11-05 22:22 GMT+09:00
Bruce Fischl
> <fis...@nmr.mgh.harvard.edu
<mailto:fis...@nmr.mgh.harvard.edu>>:
>
> are
/usr/local/freesurfer/subjects/OSA/0165766_1/P016001.dcm
> and
/usr/local/freesurfer/subjects/OSA/0165766_1/P016002.dcm
> images from *different*
series or
from the
*same* series? If
> they are in the same
series than
that explains
what is
> happening. You should
only give
recon-all a
single file from
> any one acquisition - it
will figure
out the
rest of the files
> that are part of it.
>
> cheers
> Bruce
>
>
> On Thu, 5 Nov 2015,
A-reum Min
wrote:
>
> hello experts.
> i have some question
to you...
>
> when i enter the
recon-all -i
/paht~
>
> error showed up....
like below
one..
>
> how can i to fix it?
>
> [areum@localhost
0165766_1]#
recon-all -i
>
/usr/local/freesurfer/subjects/OSA/0165766_1/P016001.dcm
-i
>
/usr/local/freesurfer/subjects/OSA/0165766_1/P016002.dcm
> -all -s sub002
> Subject Stamp:
>
freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0
> Current Stamp:
>
freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0
> INFO: SUBJECTS_DIR
is
>
/usr/local/freesurfer/subjects/OSA/0165766_1
> Actual
FREESURFER_HOME
/usr/local/freesurfer
> Linux
localhost.localdomain
2.6.32-504.el6.x86_64 #1 SMP
> Wed Oct 15 04:27:16
> UTC 2014 x86_64
x86_64 x86_64
GNU/Linux
>
/usr/local/freesurfer/subjects/OSA/0165766_1/sub002
>
> mri_convert
>
/usr/local/freesurfer/subjects/OSA/0165766_1/P016001.dcm
>
/usr/local/freesurfer/subjects/OSA/0165766_1/sub002/mri/orig/001.mgz
>
>
> mri_convert
>
/usr/local/freesurfer/subjects/OSA/0165766_1/P016001.dcm
>
/usr/local/freesurfer/subjects/OSA/0165766_1/sub002/mri/orig/001.mgz
>
> $Id: mri_convert.c,v
1.179.2.7
2012/09/05
21:55:16 mreuter
> Exp $
> reading from
>
/usr/local/freesurfer/subjects/OSA/0165766_1/P016001.dcm...
> Starting
DICOMRead2()
> dcmfile =
>
/usr/local/freesurfer/subjects/OSA/0165766_1/P016001.dcm
> dcmdir =
/usr/local/freesurfer/subjects/OSA/0165766_1
> Ref Series No = 3
> Found 247 files,
checking for
dicoms
> Found 244 dicom
files in series.
> First Sorting
> Computing Slice
Direction
> Vs: -0.8 0 0
> Vs: -1 0 0
> Second Sorting
> Counting frames
> nframes = 1
> nslices = 244
> ndcmfiles = 244
> PE Dir = ROW (dicom
read)
> TransferSyntaxUID:
--1.2.840.10008.1.2.1--
> Loading pixel data
> TR=7.70, TE=3.37,
TI=400.00,
flip
angle=12.00
> i_ras = (0, -1, 0)
> j_ras = (0, 0, -1)
> k_ras = (1, -0, 0)
> writing to
>
/usr/local/freesurfer/subjects/OSA/0165766_1/sub002/mri/orig/001.mgz...
>
/usr/local/freesurfer/subjects/OSA/0165766_1/sub002
>
> mri_convert
>
/usr/local/freesurfer/subjects/OSA/0165766_1/P016002.dcm
>
/usr/local/freesurfer/subjects/OSA/0165766_1/sub002/mri/orig/002.mgz
>
>
> mri_convert
>
/usr/local/freesurfer/subjects/OSA/0165766_1/P016002.dcm
>
/usr/local/freesurfer/subjects/OSA/0165766_1/sub002/mri/orig/002.mgz
>
> $Id: mri_convert.c,v
1.179.2.7
2012/09/05
21:55:16 mreuter
> Exp $
> reading from
>
/usr/local/freesurfer/subjects/OSA/0165766_1/P016002.dcm...
> Starting
DICOMRead2()
> dcmfile =
>
/usr/local/freesurfer/subjects/OSA/0165766_1/P016002.dcm
> dcmdir =
/usr/local/freesurfer/subjects/OSA/0165766_1
> Ref Series No = 3
> Found 247 files,
checking for
dicoms
> Found 244 dicom
files in series.
> First Sorting
> Computing Slice
Direction
> Vs: -0.8 0 0
> Vs: -1 0 0
> Second Sorting
> Counting frames
> nframes = 1
> nslices = 244
> ndcmfiles = 244
> PE Dir = ROW (dicom
read)
> TransferSyntaxUID:
--1.2.840.10008.1.2.1--
> Loading pixel data
> TR=7.70, TE=3.37,
TI=400.00,
flip
angle=12.00
> i_ras = (0, -1, 0)
> j_ras = (0, 0, -1)
> k_ras = (1, -0, 0)
> writing to
>
/usr/local/freesurfer/subjects/OSA/0165766_1/sub002/mri/orig/002.mgz...
>
#--------------------------------------------
> #@# MotionCor Thu
Nov 5
02:27:17 PST 2015
> Found 2 runs
>
/usr/local/freesurfer/subjects/OSA/0165766_1/sub002/mri/orig/001.mgz
>
/usr/local/freesurfer/subjects/OSA/0165766_1/sub002/mri/orig/002.mgz
> Checking for
(invalid)
multi-frame inputs...
> Checking for
(invalid)
multi-frame inputs...
>
#-----------------------------------------------
>
/usr/local/freesurfer/subjects/OSA/0165766_1/sub002
>
> mri_robust_template
--mov
>
/usr/local/freesurfer/subjects/OSA/0165766_1/sub002/mri/orig/001.mgz
>
/usr/local/freesurfer/subjects/OSA/0165766_1/sub002/mri/orig/002.mgz
> --average 1
--template
>
/usr/local/freesurfer/subjects/OSA/0165766_1/sub002/mri/rawavg.mgz
> --satit
> --inittp 1 --fixtp
--noit
--iscale
>
--iscaleout/usr/local/freesurfer/subjects/OSA/0165766_1/sub002/mri/orig/
0
0
1-iscale.txt
>
/usr/local/freesurfer/subjects/OSA/0165766_1/sub002/mri/orig/002-iscale.
t
x
t
> --subsample 200
--lta
>
/usr/local/freesurfer/subjects/OSA/0165766_1/sub002/mri/orig/001.lta
>
/usr/local/freesurfer/subjects/OSA/0165766_1/sub002/mri/orig/002.lta
>
>
> $Id:
mri_robust_template.cpp,v
1.37.2.2
2012/10/10
> 19:59:06 mreuter Exp
$
>
> --mov: Using
>
/usr/local/freesurfer/subjects/OSA/0165766_1/sub002/mri/orig/001.mgz
> as
> movable/source
volume.
> --mov: Using
>
/usr/local/freesurfer/subjects/OSA/0165766_1/sub002/mri/orig/002.mgz
> as
> movable/source
volume.
> Total: 2 input
volumes
> --average: Using
method 1 for
template
computation.
> --template: Using
>
/usr/local/freesurfer/subjects/OSA/0165766_1/sub002/mri/rawavg.mgz
> as
> template output
volume.
> --satit: Will
estimate SAT
iteratively!
> --inittp: Using TP 1
as target
for
initialization
> --fixtp: Will map
everything to
init TP!
> --noit: Will output
only first
template (no
iterations)!
> --iscale: Enableing
intensity
scaling!
> --iscaleout: Will
perform
intensity scaling
and output results
> --subsample: Will
subsample if
size is
larger than 200 on
> all axes!
> --lta: Will output
LTA
transforms
> reading source
>
'/usr/local/freesurfer/subjects/OSA/0165766_1/sub002/mri/orig/001.mgz'...
> converting source
>
'/usr/local/freesurfer/subjects/OSA/0165766_1/sub002/mri/orig/001.mgz'
> to
> bspline ...
> MRItoBSpline degree
3
> reading source
>
'/usr/local/freesurfer/subjects/OSA/0165766_1/sub002/mri/orig/002.mgz'...
> converting source
>
'/usr/local/freesurfer/subjects/OSA/0165766_1/sub002/mri/orig/002.mgz'
> to
> bspline ...
> MRItoBSpline degree
3
>
>
MultiRegistration::initializing
Xforms (init
1 , maxres 0
> , iterate 5 ,
> epsit 0.01 ) :
>
> [init]
=========================
TP 2 to TP
1
>
==============================
> Register TP
2 (
>
/usr/local/freesurfer/subjects/OSA/0165766_1/sub002/mri/orig/002.mgz
> )
> to TP
1 (
>
/usr/local/freesurfer/subjects/OSA/0165766_1/sub002/mri/orig/001.mgz
> )
>
> -- Original :
(0.4688,
0.4688,
0.800001) mm size
> and (512, 512, 244)
> voxels.
> -- Resampled:
(0.4688,
0.4688,
0.4688) mm size and
> (512, 512, 417)
> voxels.
> -- Reslicing
using cubic
bspline
> MRItoBSpline degree
3
> -- Original :
(0.4688,
0.4688,
0.800001) mm size
> and (512, 512, 244)
> voxels.
> -- Resampled:
(0.4688,
0.4688,
0.4688) mm size and
> (512, 512, 417)
> voxels.
> -- Reslicing
using cubic
bspline
> MRItoBSpline degree
3
>
> - Max Resolution
used: 3
> -- gpS ( 64 ,
64 , 52 )
> -- gpT ( 64 ,
64 , 52 )
> - running loop to
estimate
saturation
parameter:
> Sigma too small: 0
(identical
images?)
> Sigma too small: 0
(identical
images?)
> Sigma too small: 0
(identical
images?)
> Sigma too small: 0
(identical
images?)
> Sigma too small: 0
(identical
images?)
> Sigma too small: 0
(identical
images?)
> Sigma too small: 0
(identical
images?)
> Sigma too small: 0
(identical
images?)
> Sigma too small: 0
(identical
images?)
> Sigma too small: 0
(identical
images?)
> Killed
> Linux
localhost.localdomain
2.6.32-504.el6.x86_64 #1 SMP
> Wed Oct 15 04:27:16
> UTC 2014 x86_64
x86_64 x86_64
GNU/Linux
>
> recon-all -s sub002
exited with
ERRORS at
Thu Nov 5
> 02:37:57 PST 2015
>
> For more details,
see the log
file
>
/usr/local/freesurfer/subjects/OSA/0165766_1/sub002/scripts/recon-all.log
> To report a problem,
see
>
http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
>
>
> 2015-10-19 11:05
GMT+09:00
A-reum Min
<naniy...@gmail.com
>
<mailto:naniy...@gmail.com>>:
> hello experts.
> i have a question to
you..
>
> i'm doing recon-all stage,
but errors
show up like
this
>
>
>
>
>
ects/OSA/14/subj014/mri/orig/002.mgz
--average 1
--template
>
/usr/local/freesurfer/subjects/OSA/14/subj014/mri/rawavg.mgz
> --satit
> --inittp 1 --fixtp --noit
--iscale
--iscaleout
>
/usr/local/freesurfer/subjects/OSA/14/subj014/mri/orig/001-iscale.txt
>
/usr/local/freesurfer/subjects/OSA/14/subj014/mri/orig/002-iscale.txt
> --subsample 200 --lta
>
/usr/local/freesurfer/subjects/OSA/14/subj014/mri/orig/001.lta
>
/usr/local/freesurfer/subjects/OSA/14/subj014/mri/orig/002.lta
>
> /
> $Id:
mri_robust_template.cpp,v
1.37.2.2 2012/10/10
> 19:59:06 mreuter
> Exp $
>
> --mov: Using
>
/usr/local/freesurfer/subjects/OSA/14/subj014/mri/orig/001.mgz
> as
> movable/source volume.
> --mov: Using
>
/usr/local/freesurfer/subjects/OSA/14/subj014/mri/orig/002.mgz
> as
> movable/source volume.
> Total: 2 input volumes
> --average: Using method 1
for template
computation.
> --template: Using
>
/usr/local/freesurfer/subjects/OSA/14/subj014/mri/rawavg.mgz
> as
> template output volume.
> --satit: Will estimate SAT
iteratively!
> --inittp: Using TP 1 as
target for
initialization
> --fixtp: Will map
everything to init
TP!
> --noit: Will output only
first
template (no
iterations)!
> --iscale: Enableing
intensity scaling!
> --iscaleout: Will perform
intensity
scaling and
output results
> --subsample: Will
subsample if size is
larger than
200 on
> all axes!
> --lta: Will output LTA
transforms
> reading source
>
'/usr/local/freesurfer/subjects/OSA/14/subj014/mri/orig/001.mgz'...
> converting source
>
'/usr/local/freesurfer/subjects/OSA/14/subj014/mri/orig/001.mgz'
> to
> bspline ...
> MRItoBSpline degree 3
> reading source
>
'/usr/local/freesurfer/subjects/OSA/14/subj014/mri/orig/002.mgz'...
> converting source
>
'/usr/local/freesurfer/subjects/OSA/14/subj014/mri/orig/002.mgz'
> to
> bspline ...
> MRItoBSpline degree 3
>
>
MultiRegistration::initializing Xforms
(init 1 ,
maxres 0
> , iterate 5
> , epsit 0.01 ) :
>
> [init]
========================= TP 2
to TP 1
>
==============================
> Register TP 2 (
>
/usr/local/freesurfer/subjects/OSA/14/subj014/mri/orig/002.mgz
> )
> to TP 1 (
>
/usr/local/freesurfer/subjects/OSA/14/subj014/mri/orig/001.mgz
> )
>
> -- Original :
(0.4688, 0.4688,
0.800001) mm
size
> and (512, 512,
> 244) voxels.
> -- Resampled:
(0.4688, 0.4688,
0.4688) mm
size and
> (512, 512,
> 417) voxels.
> -- Reslicing using
cubic
bspline
> MRItoBSpline degree 3
> -- Original :
(0.4688, 0.4688,
0.800001) mm
size
> and (512, 512,
> 244) voxels.
> -- Resampled:
(0.4688, 0.4688,
0.4688) mm
size and
> (512, 512,
> 417) voxels.
> -- Reslicing using
cubic
bspline
> MRItoBSpline degree 3
>
> - Max Resolution used:
3
> -- gpS ( 64 , 64 , 52
)
> -- gpT ( 64 , 64 , 52
)
> - running loop to
estimate
saturation
parameter:
> Sigma too small: 0
(identical
images?)
> Sigma too small: 0
(identical
images?)
> Sigma too small: 0
(identical
images?)
> Sigma too small: 0
(identical
images?)
> Sigma too small: 0
(identical
images?)
> Sigma too small: 0
(identical
images?)
> Sigma too small: 0
(identical
images?)
> Sigma too small: 0
(identical
images?)
> Sigma too small: 0
(identical
images?)
> Sigma too small: 0
(identical
images?)
> Killed
> [areum@localhost 14]#
>
> [areum@localhost 14]# $Id:
mri_robust_template.cpp,v 1.37.2.2
> 2012/10/10 19:59:06
mreuter Exp $
> c
> Bad : modifier in $ ( ).
> [areum@localhost 14]#
> [areum@localhost 14]#
--mov: Using
>
/usr/local/freesurfer/subjects/OSA/14/subj014/mri/orig/001.mgz
> as
> movable/source volume.
> --mov:: Too many
arguments.
> [areum@localhost 14]#
--mov: Using
>
/usr/local/freesurfer/subjects/OSA/14/subj014/mri/orig/002.mgz
> as
> movable/source volume.
> --mov:: Too many
arguments.
> [areum@localhost 14]#
Total: 2
input volumes
> Total:: Too many
arguments.
> b
> [areum@localhost 14]#
--average: Using
method 1
for template
> computation.
> --average:: Too many
arguments.
> [areum@localhost 14]#
--template:
Using
>
/usr/local/freesurfer/subjects/OSA/14/subj014/mri/rawavg.mgz
> as
> template output volume.
> --template:: Too many
arguments.
> [areum@localhost 14]#
--satit: Will
estimate SAT
iteratively!
> i
> --satit:: Too many
arguments.
> [areum@localhost 14]#
--inittp: Using
TP 1 as
target for
> initialization
> --inittp:: Too many
arguments.
> [areum@localhost 14]#
--fixtp: Will
map everything
to init TP!
> --fixtp:: Too many
arguments.
> [areum@localhost 14]#
--noit: Will
output only
first
> template (no
> iterations)!
> Badly placed ()'s.
> [areum@localhost 14]#
--iscale:
Enableing
intensity scaling!
> --iscale:: Too many
arguments.
> [areum@localhost 14]#
--iscaleout:
Will perform
intensity
> scaling and
> output results
> --iscaleout:: Too many
arguments.
> [areum@localhost 14]#
--subsample:
Will subsample
if size
> is larger
> than 200 on all axes!
> --subsample:: Too many
arguments.
> [areum@localhost 14]#
--lta: Will
output LTA
transforms
> --lta:: Too many
arguments.
> [areum@localhost 14]#
reading source
>
'/usr/local/freesurfer/subjects/OSA/14/subj014/mri/orig/001.mgz'...
> -
> reading: Command not
found.
> [areum@localhost 14]#
converting
source
>
'/usr/local/freesurfer/subjects/OSA/14/subj014/mri/orig/001.mgz'
> to
> bspline ...
> b
> converting: Command not
found.
> [areum@localhost 14]#
MRItoBSpline
degree 3
> r
> MRItoBSpline: Command not
found.
> [areum@localhost 14]#
reading source
>
'/usr/local/freesurfer/subjects/OSA/14/subj014/mri/orig/002.mgz'...
> n
> reading: Command not
found.
> [areum@localhost 14]#
converting
source
>
'/usr/local/freesurfer/subjects/OSA/14/subj014/mri/orig/002.mgz'
> to
> bspline ...
>
> converting: Command not
found.
> [areum@localhost 14]#
MRItoBSpline
degree 3
> p
> MRItoBSpline: Command not
found.
> [areum@localhost 14]#
> [areum@localhost 14]#
MultiRegistration::initializing
> Xforms (init 1 ,
> maxres 0 , iterate 5 ,
epsit 0.01 ) :
> /
> Badly placed ()'s.
> [areum@localhost 14]#
> [areum@localhost 14]#
[init]
========================= TP
> 2 to TP 1
>
==============================
> a
> [init]: No match.
> [areum@localhost 14]#
Register TP 2 (
>
/usr/local/freesurfer/subjects/OSA/14/subj014/mri/orig/002.mgz
> )
> Badly placed ()'s.
> e
> [areum@localhost 14]#
to
TP 1 (
>
/usr/local/freesurfer/subjects/OSA/14/subj014/mri/orig/001.mgz
> )
> n
> Badly placed ()'s.
> [areum@localhost 14]#
> [areum@localhost 14]#
--
Original :
(0.4688,
> 0.4688, 0.800001)
> mm size and (512, 512,
244) voxels.
> Badly placed (.
> [areum@localhost 14]#
--
Resampled:
(0.4688,
> 0.4688, 0.4688) mm
> size and (512, 512, 417)
voxels.
> Badly placed (.
> [areum@localhost 14]#
--
Reslicing using
cubic bspline
> a
> --: Command not found.
> [areum@localhost 14]#
MRItoBSpline
degree 3
> T
> MRItoBSpline: Command not
found.
> [areum@localhost 14]#
--
Original :
(0.4688,
> 0.4688, 0.800001)
> mm size and (512, 512,
244) voxels.
> Badly placed (.
> [areum@localhost 14]#
--
Resampled:
(0.4688,
> 0.4688, 0.4688) mm
> size and (512, 512, 417)
voxels.
> Badly placed (.
> [areum@localhost 14]#
--
Reslicing using
cubic bspline
> a
> --: Command not found.
> [areum@localhost 14]#
MRItoBSpline
degree 3
> u
> MRItoBSpline: Command not
found.
> [areum@localhost 14]#
> [areum@localhost 14]# -
Max
Resolution used: 3
> i
> -: Command not found.
> [areum@localhost 14]#
-- gpS ( 64
, 64 , 52 )
> Badly placed ()'s.
> [areum@localhost 14]#
-- gpT ( 64
, 64 , 52 )
> Badly placed ()'s.
> [areum@localhost 14]# -
running
loop to
estimate saturation
> parameter:
> l
> -: Command not found.
> [areum@localhost 14]#
Sigma too
small: 0
(identical images?)
> Badly placed ()'s.
> [areum@localhost 14]#
Sigma too
small: 0
(identical images?)
> Badly placed ()'s.
> [areum@localhost 14]#
Sigma too
small: 0
(identical images?)
> Badly placed ()'s.
> [areum@localhost 14]#
Sigma too
small: 0
(identical images?)
> Badly placed ()'s.
> [areum@localhost 14]#
Sigma too
small: 0
(identical images?)
> Badly placed ()'s.
> [areum@localhost 14]#
Sigma too
small: 0
(identical images?)
> Badly placed ()'s.
> 4
> [areum@localhost 14]#
Sigma too
small: 0
(identical images?)
> Badly placed ()'s.
> [areum@localhost 14]#
Sigma too
small: 0
(identical images?)
> Badly placed ()'s.
> [areum@localhost 14]#
Sigma too
small: 0
(identical images?)
> Badly placed ()'s.
> [areum@localhost 14]#
Sigma too
small: 0
(identical images?)
> Badly placed ()'s.
> [areum@localhost 14]#
Killed
> .
> Killed: Command not found.
> [areum@localhost 14]#
Linux
localhost.localdomain
> 2.6.32-504.el6.x86_64 #1
SMP Wed Oct
15 04:27:16
UTC 2014
> x86_64
> x86_64 x86_64 GNU/Linux
>
> Linux: Command not found.
> [areum@localhost 14]#
> [areum@localhost 14]#
recon-all -s
subj014 exited
with
> ERRORS at Sat
> Oct 17 07:50:15 PDT 2015
> a
> ERROR: Flag exited
unrecognized.
> -s subj014 exited with
ERRORS at Sat
Oct 17
07:50:15 PDT 2015
> Linux
localhost.localdomain
2.6.32-504.el6.x86_64
#1 SMP
> Wed Oct 15
> 04:27:16 UTC 2014 x86_64
x86_64 x86_64
GNU/Linux
>
> recon-all -s subj014
exited with
ERRORS at Sat Oct
17
> 08:35:33 PDT
> 2015
>
> For more details, see the
log file
> To report a problem, see
>
http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
>
> [areum@localhost 14]#
> [areum@localhost 14]# For
more
details, see the
log file
>
/usr/local/freesurfer/subjects/OSA/14/subj014/scripts/recon-all.log
>
> For: Command not found.
> [areum@localhost 14]# To
report a
problem, see
>
http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
> e
> To: Command not found.
> [areum@localhost 14]#
> [areum@localhost 14]#
[areum@localhost
14]#
recon-all -i
>
/usr/local/freesurfer/subjects/OSA/14/I0000001.dcm
-i
> /usr/local/
>
> [areum@localhost: Command
not found.
> [areum@localhost 14]#
Subject Stamp:
>
freesurfer-Linux-centos6_x86_6
> i
> Subject: Command not
found.
> [areum@localhost 14]#
Current Stamp:
>
freesurfer-Linux-centos6_x8
> 2
> Current: Command not
found.
> [areum@localhost 14]#
INFO: SUBJEC
> INFO:: Too many arguments.
> [areum@localhost 14]#
Actual
FREESURFER_HOME
> /usr/local/freesurfer
> 8
> Actual: Command not found.
> [areum@localhost 14]#
Linux
localhost.l
> s
> Linux: Command not found.
> [areum@localhost 14]#
>
_______________________________________________
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The information in this e-mail is intended only for the person
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but does not contain patient information, please contact the
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dispose of the e-mail.
--
------------------------------------------------------------
Areum Min
Medical Image Processing Lab.
Department of Biomedical Engineering, Yonsei Univ.
218 San-hak Hall, 1 Yeonsedae-gil, Heungeop-myeon, Wonju, Gangwon, Korea
Office : +82-33-760-2499
Mobile : +82-10-3428-0608
E-Mail : naniy...@gmail.com
_______________________________________________ Freesurfer mailing list 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.
