quot;freesurfer@nmr.mgh.harvard.edu"
Subject: Re: [Freesurfer] Autorecon1 failure
No, we have not talked
On 4/16/2021 12:20 PM, Abdollahi, Shervin (NIH/NINDS) [C] wrote:
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So yes running it from scratch would work. But I was trying to implement
fmriprep approac
*Reply-To: *Freesurfer support list
*Date: *Sunday, April 18, 2021 at 10:21 PM
*To: *"freesurfer@nmr.mgh.harvard.edu"
*Subject: *Re: [Freesurfer] Autorecon1 failure
No, we have not talked
On 4/16/2021 12:20 PM, Abdollahi, Shervin (NIH/NINDS) [C] wrote:
*External Email - Use C
quot;freesurfer@nmr.mgh.harvard.edu"
*Subject: *Re: [Freesurfer] Autorecon1 failure
If you run it from scratch (recon-all -s subject -all), does it work?
If you are going to pick and chose which options to apply, then there
is a high risk of missing steps
On 4/14/2021 2:23 PM, Abdollahi, Shervin (
between freesurfer and fmriprep people on this matter?
Thanks
Shervin
From: "Douglas N. Greve"
Reply-To: Freesurfer support list
Date: Friday, April 16, 2021 at 11:08 AM
To: "freesurfer@nmr.mgh.harvard.edu"
Subject: Re: [Freesurfer] Autorecon1 failure
If you run it from s
, here is the copy of recon-all.log
*From: *"Douglas N. Greve"
*Reply-To: *Freesurfer support list
*Date: *Wednesday, April 14, 2021 at 10:32 AM
*To: *"freesurfer@nmr.mgh.harvard.edu"
*Subject: *Re: [Freesurfer] Autorecon1 failure
Sorry, can you resend the recon-all.log file?
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Hi Douglas, Sure, here is the copy of recon-all.log
From: "Douglas N. Greve"
Reply-To: Freesurfer support list
Date: Wednesday, April 14, 2021 at 10:32 AM
To: "freesurfer@nmr.mgh.harvard.edu"
Subject: Re: [Freesurfer] Autorecon1
Sorry, can you resend the recon-all.log file?
On 4/7/2021 8:45 AM, Abdollahi, Shervin (NIH/NINDS) [C] wrote:
External Email - Use Caution
*From: *"Abdollahi, Shervin (NIH/NINDS) [C]"
*Date: *Thursday, March 18, 2021 at 12:42 PM
*To: *"freesurfer@nmr.mgh.harvard.edu"
*Subject: *Autore
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From: "Abdollahi, Shervin (NIH/NINDS) [C]"
Date: Thursday, March 18, 2021 at 12:42 PM
To: "freesurfer@nmr.mgh.harvard.edu"
Subject: Autorecon1 failure
Hello Freesurfer Developers,
am trying to use run freesurfer that is configured inside
smriprep
Yes, skullstrip will create that file
On 3/18/2021 12:42 PM, Abdollahi, Shervin (NIH/NINDS) [C] wrote:
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Hello Freesurfer Developers,
am trying to use run freesurfer that is configured inside
smriprep.workflow.anatomical.py under init_anat_preproc_wf pipeli
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Hello Freesurfer Developers,
am trying to use run freesurfer that is configured inside
smriprep.workflow.anatomical.py under init_anat_preproc_wf pipeline. this
workflow, does the following:
1. T1w reference: realigning and then averaging T1w im
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