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HI, E
I was take the wrong directory, Sorry for the mistake.
Cheer, Wei
On Apr 23, 2021, at 1:28 PM, Iglesias Gonzalez, Juan E. JIGLESIASGONZALEZ@mgh.harvard.edu wrote:
Shouldn’t it be segmentHA_T1.sh 01 instead of segmentHA_T1.sh sub-01 ?
Juan Eugenio Iglesias Senior research fellow CMIC (UCL), MGH (HMS) and CSAIL (MIT) http://secure-web.cisco.com/1Nx7i4KGm6MOshYnOV8FIIKnbW9fVxXk8H5ZhGy1mQM7_aYa... http://secure-web.cisco.com/19iAjCpC9PU480UGjXtraLpCYYlGzPse5r5gRi3QNJB8z34CBG6P2-8NEDc9BTmOf9nAsrHutxAiMjIrFRYYoEQ7zd5DUfDNznJqpKfpLOeChJd_R51eU9e--t3niP5Hhka7Lo0pX-fe2Nv2KNybVKmFTDsXhMSMc61QLjeLbGB19VGSQY_-n7WwsHcbxgofEBaih1GYKDl7i1eeeXcxmXiZdg14BdnP2OuUEAUR8y_jxKmQ1jvk-H9L6w4OAWybg/http%3A%2F%2Fwww.jeiglesias.com%2F
From: <freesurfer-bounces@nmr.mgh.harvard.edu mailto:freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Wei Shao <wshao@research.baycrest.org mailto:wshao@research.baycrest.org> Reply-To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu mailto:freesurfer@nmr.mgh.harvard.edu> Date: Friday, April 23, 2021 at 12:04 To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu mailto:freesurfer@nmr.mgh.harvard.edu> Subject: Re: [Freesurfer] Hippocampus segmentHA_T1.sh
External Email - Use CautionHi, E
[weishao@gra-login1 01]$ find . -name "talairach.xfm" ./mri/transforms/talairach.xfm
module load freesurfer/7.1.0
export SUBJECTS_DIR=/home/weishao/scratch/BART
segmentHA_T1.sh sub-01
Best, Wei
On Fri, Apr 23, 2021 at 11:35 AM Iglesias Gonzalez, Juan E. <JIGLESIASGONZALEZ@mgh.harvard.edu mailto:JIGLESIASGONZALEZ@mgh.harvard.edu> wrote:
I’m assuming transforms/talairach.xfm is in there? Also: what was the exact command you ran? Cheers, /E
Juan Eugenio Iglesias Senior research fellow CMIC (UCL), MGH (HMS) and CSAIL (MIT) MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be http://secure-web.cisco.com/1Nx7i4KGm6MOshYnOV8FIIKnbW9fVxXk8H5ZhGy1mQM7_aYa... http://secure-web.cisco.com/1Z77TacJkkAC58QyArzEVJDV_7X8Igro89XsggKNL0YRV39s2J3KnuYhyDYqdablT7K4waWew1NMuAm_1jfuvKuLUFGGcPObl7Lba56vs7bE-yV8BNN5sW4jWmKDYBCaTCHJKMt7IBlZicKoh235BDGiCfWiezwX2kIvAS3UlIuvd4PN_IFqc2iowh312LHnHDCQ53ea1gSk4H3Th6VAJ2NXlBvJM9qaLDKyFd02VgXiETYyw2tNFfN3h2cuLMizK/http%3A%2F%2Fwww.jeiglesias.com
From: <freesurfer-bounces@nmr.mgh.harvard.edu mailto:freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Wei Shao <wshao@research.baycrest.org mailto:wshao@research.baycrest.org> Reply-To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu mailto:freesurfer@nmr.mgh.harvard.edu> Date: Friday, April 23, 2021 at 11:05 To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu mailto:freesurfer@nmr.mgh.harvard.edu> Subject: [Freesurfer] Hippocampus segmentHA_T1.sh
External Email - Use CautionHello, Dear FreeSurfer expert
I tried to use segmentHA_T1.sh for the hippocampus subfields, However, here is the log cannot find the wmparc.mgz or norm.mgz or talairach.xfm for the subject. Has the subject been procesed with recon-all?
But the wmparc.mgz and norm.mgz are there
<image001.png>
Could you tell me how to fix this? Thanks!
Best, Wei
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