e and run a step directly (both with ""
> empty value and the values below)
..."
Hope to that helps!
Regards,
Chester
--
Message: 4
Date: Fri, 11 Jun 2021 11:43:21 +
From: "Iglesias Gonzalez, Juan E."
Subject: Re: [Freesurfer] Hippoca
ct line so it is more specific
>> than "Re: Contents of Freesurfer digest..."
>>
>>
>> Today's Topics:
>>
>> 1. Re: Hippocampal Subfields error "no such file or
>> directory"/"dyld library not loaded" (Iglesias Gonzalez, Juan E.)
>> 2. Ill-Con
---------
>
>Message: 1
>Date: Wed, 9 Jun 2021 12:24:19 +
>From: "Iglesias Gonzalez, Juan E."
>Subject: Re: [Freesurfer] Hippocampal Subfields error "no such file or
> directory"/"dyld library not loaded"
>To: Freesurfer
Dear Chester,
What command did you exactly run? There seems to be a mix of T1 and
T1+additionalMRI segmentation commands in there.
Cheers,
/Eugenio
Juan Eugenio Iglesias
Senior research fellow
CMIC (UCL), MGH (HMS) and CSAIL (MIT)
http://www.jeiglesias.com
> On Jun 9, 2021, at 00:23, Chester
External Email - Use Caution
Hello FreeSurfer Developers,
I am trying to run subfield segmentation of the hippocampus using Freesurfer
v7.1.0. Recon-all has been previously run on all subjects, however with a
different version of Freesurfer (v5.3.0).
Getting the error(s): "No
dataset we need to be able to extract the older hippocampal subfields,
starting with the recon-all hippocampal subfields processing.
Thanks,
Emily
Date: Wed, 9 Sep 2020 21:21:41 +
From: "Iglesias Gonzalez, Juan E."
Subject: Re: [Freesurfer] Hippocampal subfi
External Email - Use Caution
The whole log message:
#
#@# Hippocampal Subfields processing (T1 only) left Mon Aug 10 18:54:21 EDT
2020
--
Setting up environment variables
---
LD_LIBRARY_PATH is
) and CSAIL (MIT)
http://www.jeiglesias.com
From: on behalf of Courtney Haswell
Reply-To: Freesurfer support list
Date: Wednesday, August 12, 2020 at 09:34
To: "freesurfer@nmr.mgh.harvard.edu"
Subject: [Freesurfer] hippocampal subfields error
External Email - Use Caution
We a
External Email - Use Caution
We are getting an error after running the hippocampal subfields pipeline
that we have never received before. It is happening for all subjects. We
run recon-all and then the hippocampal pipeline and the output files are
not being created. Below is the
pport list
Date: Monday, 17 June 2019 at 10:11
To: Freesurfer support list
Subject: Re: [Freesurfer] hippocampal subfields error
External Email - Use Caution
Dear Eugenio,
attached you’ll find the picture. Looks as though the left hippocampus has
erroneously been
attribut
) and CSAIL (MIT)
http://www.jeiglesias.com
From: on behalf of "Mennecke,
Angelika"
Reply-To: Freesurfer support list
Date: Monday, 17 June 2019 at 10:11
To: Freesurfer support list
Subject: Re: [Freesurfer] hippocampal subfields error
External Email - Use Caution
De
necke,
Angelika"
Reply-To: Freesurfer support list
Date: Monday, 17 June 2019 at 06:36
To: "freesurfer@nmr.mgh.harvard.edu"
Subject: [Freesurfer] hippocampal subfields error
External Email - Use Caution
Hi all,
I’m doing hippocampal subfields analysis with freesurfer
External Email - Use Caution
Hi all,
I'm doing hippocampal subfields analysis with freesurfer 6.0 with T1 and high
resolution T2 data from a 7T MRT. With at least one of my datasets Matlab
throws an error during the hippocampal-subfields-T2 -pipeline:
Making Unknown map to
://cmictig.cs.ucl.ac.uk/
From: on behalf of Marcel Heers
Reply-To: Freesurfer support list
Date: Wednesday, 3 October 2018 at 20:11
To: "freesurfer@nmr.mgh.harvard.edu"
Subject: [Freesurfer] hippocampal subfields error
External Email - Use Caution
Dear Eugenio,
I am current
External Email - Use Caution
Dear Eugenio,
I am currently testing the newest version of your hippocampal subfield
analysis script. If I process the data on my macbook the files
hipposubfields.lh.T2.v21.file_ID contain the volumes of the different
nuclei, but on the linux server
]
Sent: Thursday, June 16, 2016 12:44 PM
To: Freesurfer support list
Subject: Re: [Freesurfer] Hippocampal subfields error
No, I just wanted to mention that in case it helps with troubleshooting what
went wrong with the new dev version build.
Matt
From: free
]
Sent: Thursday, June 16, 2016 12:44 PM
To: Freesurfer support list
Subject: Re: [Freesurfer] Hippocampal subfields error
No, I just wanted to mention that in case it helps with troubleshooting what
went wrong with the new dev version build.
Matt
From
...@mgh.harvard.edu]
Sent: Thursday, June 16, 2016 11:24 AM
To: Freesurfer support list
Subject: Re: [Freesurfer] Hippocampal subfields error
Thanks Matt. Did you somehow get it to work or recognize the file without the
ctf extension?
Thanks
Jonathan
From
...@mgh.harvard.edu]
Sent: Thursday, June 16, 2016 11:10 AM
To: Freesurfer support list
Subject: Re: [Freesurfer] Hippocampal subfields error
I've also gotten this error recently, with T1, T2, and combined T1+T2
hippocampal segmentations. It looks like the files exist at
/autofs/cluster/freesurfer/centos6_x86_64
ion.
Matt
From: freesurfer-boun...@nmr.mgh.harvard.edu
[freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Greenberg, Jonathan
[jgreenbe...@mgh.harvard.edu]
Sent: Thursday, June 16, 2016 10:29 AM
To: freesurfer@nmr.mgh.harvard.edu
Subject: [Freesurfer] Hippocampal
Hi all
I ran recon-all on data from about 60 participants pre and post an
intervention, with the hippocampal subfields flag
(e.g. "recon-all -all -subjid SPS01-1910_pre_lazar -hippocampal-subfields-T1").
The recon-all.log file states that the process finished without errors.
However, the
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