: Monday, December 21, 2020 at 15:30
To: Freesurfer support list
Subject: Re: [Freesurfer] segmentHA_T1.sh Error {Disarmed}
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That did the trick, thank you!
On Mon, Dec 21, 2020 at 12:43 PM Iglesias Gonzalez, Juan E.
mailto:jiglesiasgonza...@mgh.harvard.edu>>
chary
> Miller
> *Reply-To: *Freesurfer support list
> *Date: *Monday, December 21, 2020 at 13:17
> *To: *Freesurfer support list
> *Subject: *Re: [Freesurfer] segmentHA_T1.sh Error {Disarmed}
>
>
>
> *External Email - Use Caution*
>
> My
: Freesurfer support list
Date: Monday, December 21, 2020 at 13:17
To: Freesurfer support list
Subject: Re: [Freesurfer] segmentHA_T1.sh Error {Disarmed}
External Email - Use Caution
My directory structure is:
FStests/CDN0001_MSB/CDN0001_10_7.1.1
The command echo Hello > FStests/CDN0001_
IBUl-Q/http%3A%2F%2Fwww.jeiglesias.com
>
>
>
>
>
>
>
> *From: * on behalf of Zachary
> Miller
> *Reply-To: *Freesurfer support list
> *Date: *Monday, December 21, 2020 at 12:14
> *To: *"freesurfer@nmr.mgh.harvard.edu"
> *Subject: *[Freesurfer] segmentH
uot;
Subject: [Freesurfer] segmentHA_T1.sh Error
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Hello,
I am having trouble running segmentHA_T1.sh and I hope that someone will know
the solution. Per a similar thread on this mail archive, I have verified that I
have writing permissions in the subject
External Email - Use Caution
Hello,
I am having trouble running segmentHA_T1.sh and I hope that someone will
know the solution. Per a similar thread on this mail archive, I have
verified that I have writing permissions in the subject directory. My
command line and FS output are be
Hi Keith, what version of ubuntu are you using?
Best
Andrew
From: "Iglesias Gonzalez, Juan E."
Date: Friday, December 4, 2020 at 4:42 PM
To: FS Help
Cc: "Hoopes, Andrew"
Subject: Re: [Freesurfer] segmentHA_T1.sh failing {Disarmed}
Dear Keith,
It is a license problem
, 2020 at 16:24
To: "freesurfer@nmr.mgh.harvard.edu"
Subject: [Freesurfer] segmentHA_T1.sh failing {Disarmed}
External Email - Use Caution
Hello,
I am getting a strange message when trying to run the amygdala and hippocampal
sementations, even when attempting to run the script on s
External Email - Use Caution
Hello,
I am getting a strange message when trying to run the amygdala and
hippocampal sementations, even when attempting to run the script on someone
who the script previously completed.
When it starts, the script immediately displays the following me
://www.jeiglesias.com
From: on behalf of Erik Lindberg
Reply-To: Freesurfer support list
Date: Thursday, December 3, 2020 at 10:04
To: "freesurfer@nmr.mgh.harvard.edu"
Subject: [Freesurfer] segmentHA_T1.sh
External Email - Use Caution
Hi,
I am trying to run the segmentHA_T1.sh with the suffi
External Email - Use Caution
Hi,
I am trying to run the segmentHA_T1.sh with the suffix CA but I seem not be
able to write the call correctly
How should I call this?
best
Olof
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Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
h
://www.jeiglesias.com
From: on behalf of Soichi Hayashi
Reply-To: Freesurfer support list
Date: Friday, May 8, 2020 at 21:53
To: Freesurfer support list
Subject: [Freesurfer] segmentHA_T1.sh outputs "Error using myMRIread (line 16)"
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Hello. I am testing
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Hello. I am testing freesurfer 7.0.0 with segmentHA processing.
I've run recon-all successfully, and now I am trying to run
"segmentHA_T1.sh". When I do, it generates the following error message.
$ segmentHA_T1.sh output .
> --
list
Date: Monday, May 4, 2020 at 09:24
To: Freesurfer support list
Subject: [Freesurfer] segmentHA_T1.sh fails with "Error in myMRIread: temporary
directory does not exist"
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Hello.
I am trying to run segmentHA_T1.sh right after successfully complet
External Email - Use Caution
Hello.
I am trying to run segmentHA_T1.sh right after successfully completing
recon-all -all
I have a freesurfer output directory under my currently working directory
inside ./output. So I ran this command.
$ segmentHA_T1.sh output .
When I do I run
Subject: [Freesurfer] SegmentHA_T1.sh hippocampal sub-field issue
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Hello,
When using segmentHA_T1.sh on one of my subjects the left hippocampus ROI seems
to spill over a lot into white matter and other gray matter regions. See
attached picture. Is there a
:19
To: Freesurfer support list
Subject: [Freesurfer] segmentHA_T1.sh error
External Email - Use Caution
Hello,
When trying to run segmentHA_T1.sh I keep getting the following error log that
I am having a lot of trouble debugging. Matlab 2014b is installed. Any help or
guidance would
External Email - Use Caution
Hello,
When trying to run segmentHA_T1.sh I keep getting the following error log
that I am having a lot of trouble debugging. Matlab 2014b is installed. Any
help or guidance would be greatly appreciated!
--
USER dcallow
HOS
>
> --
>
> Juan Eugenio Iglesias
>
> Senior research fellow
>
> CMIC (UCL), MGH (HMS) and CSAIL (MIT)
>
> http://www.jeiglesias.com
>
>
>
>
>
> *From: * on behalf of Daniel
> Callow
> *Reply-To: *Freesurfer support list
> *Date: *Monday, 1 Apri
April 2019 at 13:19
To: Freesurfer support list
Subject: [Freesurfer] segmentHA_T1.sh
External Email - Use Caution
I thought a solution like this might work but there seems to be an issue
reading in the file.
I tried using mri_segstats on the .mgz file like this to create the stats file
as
External Email - Use Caution
I thought a solution like this might work but there seems to be an issue
reading in the file.
I tried using mri_segstats on the .mgz file like this to create the stats
file as this is what I do for my dt_recon results however it doesn't seem
to work wh
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Hello,
I have finished running segmentHA_T1.sh on my data and have gotten all the
.mgz and .txt files in my mri folder. I would like to collect all the
hippocampal volumes and get them into a table to run stats on.
When reading the documentation it sa
urfer@nmr.mgh.harvard.edu"
Subject: [Freesurfer] segmentHA_T1.sh exits with error
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Dear experts,
I am running segmentHA_T1.sh. In about 3 subjects from 200, the script exits
with following error:
In an assignment A(:) = B, the number of elements in A and B must b
;
Subject: [Freesurfer] segmentHA_T1.sh exits with error
External Email - Use Caution
Dear experts,
I am running segmentHA_T1.sh. In about 3 subjects from 200, the script exits
with following error:
In an assignment A(:) = B, the number of elements in A and B must be the same.
;
Subject: [Freesurfer] segmentHA_T1.sh exits with error
External Email - Use Caution
Dear experts,
I am running segmentHA_T1.sh. In about 3 subjects from 200, the script exits
with following error:
In an assignment A(:) = B, the number of elements in A and B must be the same.
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