From: freesurfer-boun...@nmr.mgh.harvard.edu
on behalf of Huang, Yujing
Sent: 16 January 2024 13:41
To: Freesurfer support list
Subject: Re: [Freesurfer] Freesurfer recon-all qcache partial failure
The command should look like this ‘recon-all -s subjid -qcache -all -i
input-file
The command should look like this 'recon-all -s subjid -qcache -all -i
input-file'
From: freesurfer-boun...@nmr.mgh.harvard.edu
On Behalf Of Asuka Toyofuku
Sent: Monday, January 15, 2024 9:45 AM
To: Freesurfer support list
Subject: Re: [Freesurfer] Freesurfer recon-all qcache parti
nmr.mgh.harvard.edu
On Behalf Of Asuka Toyofuku
Sent: Friday, January 12, 2024 4:31 AM
To: freesurfer@nmr.mgh.harvard.edu
Subject: [Freesurfer] Freesurfer recon-all qcache partial failure
External Email - Use Caution
Dear Freesurfer researchers,
I have an issue with recon-all-qcashe
External Email - Use Caution
Dear Freesurfer researchers,
I have an issue with recon-all-qcashe results. (please find the recon-all.log
attached.)
The command created fsaverage mgh files (e.g., lh.thickness.fsaverage.mgh), but
it did not create fsaverage files with different s
ing to be done for `all'.
> clare@clare-OptiPlex-990:~/subjects$
>
> Let me know if you need anything else. Thank you.
>
> Best wishes,
> Clare
>
> From: Bruce Fischl [fis...@nmr.mgh.harvard.edu]
> Sent: 25 July 2012 14:44
ery much.
>
> Best wishes,
> Clare
>
>
> From: Gibbard, Clare
> Sent: 25 July 2012 16:45
> To: Bruce Fischl
> Cc: freesurfer@nmr.mgh.harvard.edu
> Subject: RE: [Freesurfer] Recon-all -qcache curvature error& recon-all make
: RE: [Freesurfer] Recon-all -qcache curvature error & recon-all make
-all
Hi Bruce,
Thanks, I've attached the end of the recon-all.log file for one of the subjects
(the whole thing was too large). This is what I get when I run recon-all
-version:
$Id: recon-all,v 1.379.2.17 2011/05/20
Hi Clare
can you send us the screen output and also what version you are running?
thanks
Bruce
On
Wed, 25 Jul 2012, Gibbard, Clare wrote:
Hello,
I have run several scans using recon-all -all -subjid subject_no -expert
expert.opts where my expert.opts file changes the parameters for the
mri_
Hello,
I have run several scans using recon-all -all -subjid subject_no -expert
expert.opts where my expert.opts file changes the parameters for the
mri_normalize step (this works well in my scans). I then had to edit a few of
the scans by adding in more white matter and a few control points.
no, it will take far less (30 minutes or so I think)
On Mon, 30 Nov 2009,
Guang Zeng wrote:
>
> Hi, there,
>
> I have 60 subjects which have been FS analyzed without the flag -qcache.
> Now, I wan to do group analysis using QDEC.
>
> I need run recon-all -s subjectid -qcache for each of my subjec
Hi Guang,
It is much faster as it does not go through the whole autorecon1, 2, 3
process.
For us, it take about 45 minutes per subject.
Regards
Mehul
On Mon, Nov 30, 2009 at 8:04 PM, Guang Zeng wrote:
> Hi, there,
>
> I have 60 subjects which have been FS analyzed without the flag -qcache.
>
Hi, there,
I have 60 subjects which have been FS analyzed without the flag -qcache.
Now, I wan to do group analysis using QDEC.
I need run recon-all -s subjectid -qcache for each of my subjects.
Just want to know how it will take to finish the recon-all -s subjectid -qcache
command for
one s
Use mris_preproc with the --cache-in option. This will generate the "y"
file used by mri_glmfit.
doug
Victoria Williams wrote:
Hello,
I was hoping to get some more information about the qcache option.
Would running all my subjects with qcache save me any time if I plan
on using mri_glmfit
Hello,
I was hoping to get some more information about the qcache option. Would
running all my subjects with qcache save me any time if I plan on using
mri_glmfit instead of qdec? The GLMs I am running have to be sent through
mris_preproc and mri_surf2surf each time since some inputs are #'d
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