Works beautifully - Thanks so much Eugenio. Have a great weekend.
On Fri, Jan 29, 2016 at 10:33 AM, Eugenio Iglesias
wrote:
> Got it! All you need to do is to replace Smoke_e024 by T1, which is the ID
> of the analysis:
>
> quantifyHippocampalSubfields.sh T1 Nicotine_HSF.txt
>
> Let me know if i
Got it! All you need to do is to replace Smoke_e024 by T1, which is the ID of
the analysis:
quantifyHippocampalSubfields.sh T1 Nicotine_HSF.txt
Let me know if it doesn't work!
Cheers,
/Eugenio
Juan Eugenio Iglesias
Postdoctoral researcher BCBL
www.jeiglesias.com
www.bcbl.eu
Legal
Hi Eugenio:
Here is the list of files in the 'mri' directory of a given subject:
afrancis-mac:HSF afrancis$ cd Smoke_d004/
afrancis-mac:Smoke_d004 afrancis$ cd mri
afrancis-mac:mri afrancis$ ls -la
total 93464
drwxrwxr-x 47 afrancis staff 1598 Dec 23 01:05 .
drwxr-xr-x 13 afrancis staff
Hi Alan,
can you please list the files in the mri directory of any of the subjects and
send me the output?
Cheers,
Eugenio
Juan Eugenio Iglesias
Postdoctoral researcher BCBL
www.jeiglesias.com
www.bcbl.eu
Legal disclaimer/Aviso legal/Lege-oharra: www.bcbl.eu/legal-disclaimer
From: "Al
Hi Eugenio:
As you advised, I ran the following command:
afrancis-mac:HSF afrancis$ quantifyHippocampalSubfields.sh Smoke_e024
Nicotine_HSF.txt
Gathering results from subjects in:
/Users/afrancis/Desktop/Connectome/HSF/
Using the suffix name:
Smoke_e024
And writing them to:
Nicotine_HSF.
: Eugenio Iglesias
To: Alan Francis
Cc: Freesurfer support list
Sent: Fri, 11 Dec 2015 12:51:24 -0500 (EST)
Subject: Re: [Freesurfer] HSF in 5.3
Hi Alan,
the subfield module is not present in 5.3; you'll need to download the
development version (or wait until 6.0 is released, which shou
Thanks for the very quick reply Eugenio. Will download the 6.0 beta.
Alan
On Fri, Dec 11, 2015 at 12:51 PM, Eugenio Iglesias
wrote:
> Hi Alan,
> the subfield module is not present in 5.3; you'll need to download the
> development version (or wait until 6.0 is released, which should be pretty
>
Hi Alan,
the subfield module is not present in 5.3; you'll need to download the
development version (or wait until 6.0 is released, which should be pretty
soon=.
Cheers,
Eugenio
Juan Eugenio Iglesias
Postdoctoral researcher BCBL
www.jeiglesias.com
www.bcbl.eu
Legal disclaimer/Aviso leg
Hi Eugenio:
I am trying to run the HSF method on 42 subjects. The FS version on our
cluster is 5.3. However when I use the following command I get an error
message.
[alanf@micc alanf]$ recon-all -s Smoke_d004 -hippocampal-subfields
ERROR: Flag -hippocampal-subfields unrecognized.
-s Smoke_d004