External Email - Use Caution
Hello,
We have 3369 freesurfer 5.3 extractions stored on backup. It amounts to about 1.5TB of data. We would like to run the amygdala / hippocampal subField extraction on that data. I am hesitant to run the extraction on our backup copy so I was going to restore the data onto our servers and run from there. However 1.5TB is a lot to restore. Is there a file or directory list from the initial freesurfer extraction the subField calculation requires that could be restored in lieu of each subject's entire directory?
Thank you, Keith
Dear Keith, Off the top of my head: nu.mgz, norm.mgz, aseg.mgz, and wmparc.mgz, all under ‘mri’. You will also need the other directories (‘tmp’, ‘stats’…) to exist, but they can be empty. In any case, I would try with one subject first 😉 Cheers, /E
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 Keith Harenski kharenski@mrn.org Reply-To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Date: Tuesday, November 24, 2020 at 11:25 To: "freesurfer@nmr.mgh.harvard.edu" freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] Files or directories required for subField calculation {Disarmed}
External Email - Use Caution Hello,
We have 3369 freesurfer 5.3 extractions stored on backup. It amounts to about 1.5TB of data. We would like to run the amygdala / hippocampal subField extraction on that data. I am hesitant to run the extraction on our backup copy so I was going to restore the data onto our servers and run from there. However 1.5TB is a lot to restore. Is there a file or directory list from the initial freesurfer extraction the subField calculation requires that could be restored in lieu of each subject's entire directory?
Thank you, Keith
-- Keith Harenski Mobile MRI Manager Mobile MRI Core and Clinical Cognitive Neuroscience Laboratory
The Mind Research Network 1101 Yale Blvd NE Albuquerque, NM 87106-4188 Office (Cell): 505.504.1338 | Fax: 505.272.8002 kharenski@mrn.orgmailto:kharenski@mrn.org | MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be www.mrn.orghttp://secure-web.cisco.com/1gWpd7SLX7SCx_SqHWpaZjPyzfQUb2S7o0MHqR3XnN7i4gGARMrNCK3MqJQBYfeDoU2Ag8v_HJeStu3d71yUvVFPSMaBffCTQBh17HmFhTFtgm1vKDejQLqEaKNdDAlc9A0KUVklsZMz6Nt_6wU4xJLVqYNsGr0z6JrspyDedMpV1osF-vrT7raTxwPjpUFsA4iYr3-skazz25RQ-W9Gf6wJfE8MnvtPrvdf27dlcY_-3FP7i6U47RiZRs4z5MI25MucwQvHNkNf4-8dNiL-I-Q/http%3A%2F%2Fwww.mrn.org | MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be www.lrri.orghttp://secure-web.cisco.com/1iYBgiu2d5mXVxDO2FVhHcsbuSoThRu0-wDpbW4j4Ai7dTgGUCK0-k-1tvvqVwNdNiMMo8cEePJ7iFmsW-5LNCruuVDDNiX1vYHbtc7TTctwWQsqATBX1XjdW5vGHZfCQ_JVa3yy5RmgrvYdIK6sNKnXToBlt1Sj0CW5ELzJHp78Ql8MxmBh8zYDGw36enZoecAE_2qDgJyqAugFpEecq4luX_E2K_7JSECXx6-W-6zGeuBMiDkpZX4uDxgKVIvEJZXFbU58uy_e3XMVycrUVvw/http%3A%2F%2Fwww.lrri.org
freesurfer@nmr.mgh.harvard.edu
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Iglesias Gonzalez, Juan E. -
Keith Harenski