Dear Xin, Please follow the instructions at https://surfer.nmr.mgh.harvard.edu/fswiki/HippocampalSubfieldsAndNucleiOfAmy... The new command is: segmentHA_T1_long.sh <baseID> [SUBJECTS_DIR] Kind regards, Eugenio
Juan Eugenio Iglesias Senior research fellow CMIC (UCL), MGH (HMS) and CSAIL (MIT) http://www.jeiglesias.com
From: freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Xin Qi xinqi2000@gmail.com Reply-To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Date: Sunday, February 7, 2021 at 10:07 To: "freesurfer@nmr.mgh.harvard.edu" freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] Can't find longHippoSubfieldsT1.sh
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Dear Freesurfer Community,
I ran the Freesurfer longitudinal pipeline for my subjects (1.5T, T1_data, 6 timepoints each). Now I want to continue with the longitudinal segmentation of hippocampal
subfields:
MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://surfer.nmr.mgh.harvard.edu/fswiki/LongitudinalHippocampalSubfieldshttps://secure-web.cisco.com/1GVcN-oB6m3ReFE6G1f2L7PU8wxxvY2rraj4XNNSxZB5HgzPYSjgmfbyHU-l1H12lk8FG78mu4XNXLiISdnBMJdEBrTEzU3q4M6Z6pwHUnPwD6T8eYdfoZke4KWGvZLrYXkeCMrTZaNVkdryEDr9mn_arU6ftST3jpkRba7QtXyhdHXLVPF1SP8ZmOPKUJncEsVMBXxg4BGESpVC0WghPc_DYiLSuqwdKI7N7xfZDjcRhNYDlf4TRzpngndwBA47K5pnFDou19n1rSYQYXLFj7g/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FLongitudinalHippocampalSubfields
However, when I want to run the command:
longHippoSubfieldsT1.sh <baseID>
I get the error message "bash: longHippoSubfieldsT1.sh: command not found"
First thing I did, was checking the Freesurfer folder for the longHippo..sh file.
I am using FS 7.0 but the file is not available.
So my questions: where can I get the file longHippoSubfieldsT1.sh or what else can I do to proceed with the HC subfield segmentation?
Thanks a lot for your support and looking forward to your reply.
Best
Xin