External Email - Use Caution Hello,
I just wanted to briefly follow up on this issue. Do you have any advice or suggestions for finding out why I am only receiving unrelated changes to volumes after re-running recon-all? Thanks > On Oct 1, 2021, at 11:02 AM, Douglas N. Greve <dgr...@mgh.harvard.edu> wrote: > > The first thing to do is to re-run you data using different subject > names so that you have an unedited version. You can then use mri_diff, eg, > mri_diff unedited/mri/wm.mgz edited/mri/wm.mgz > to determine if there is a differenece that you are just not seeing > > >> On 9/27/2021 7:16 PM, Kevin Miller wrote: >> External Email - Use Caution >> >> Hi, >> >> I am new to recon-all and Freesurfer and I am having some difficulty >> tracking down the resulting outputs from when I re-run recon-all or they are >> not taking hold. So far I have edited two subjects after the initial run by >> lowering the ws height for the skullstrip in one and by adding white matter >> voxels by in the other. I followed all the tutorial instructions for both, >> starting with the edits and including the appropriate recon-all commands, >> which supposedly finished without error. However, after viewing the new >> volumes that were overwritten the day they were run, neither seem to have >> changed. For the wm.mgz, even, the wm voxel edits still exist as though >> recon-all did not run. If anyone has any tips for finding the proper outputs >> or what I might be doing incorrectly, I would greatly appreciate any advice. >> >> Thanks >> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> https://secure-web.cisco.com/1urFbL4sg5fX80M7wSmBjt09HahoUDQOLmpe8YKlPhHXFFACkUyuJGuOHfhcwRUy5XhvhvNy9ScWYK9sHzGXsHs6zl0POKkYCp397OAOsVTg_hU_8wU8wamSl9XlxTvcH4OmG_LcaohS8HPdoHWxRyGYIOOjM5UtzV4fbJhQeMBvP2aiYDEPPgyhaimAtZPRl-MA2l8xA9xHVbYCB3BkS9rraxXymZUPNSb5gR3ysj-lk9uuOb2y6pq3rP0PMY2g2kvZR127c0IeB78ecUhJu7Q/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://secure-web.cisco.com/1urFbL4sg5fX80M7wSmBjt09HahoUDQOLmpe8YKlPhHXFFACkUyuJGuOHfhcwRUy5XhvhvNy9ScWYK9sHzGXsHs6zl0POKkYCp397OAOsVTg_hU_8wU8wamSl9XlxTvcH4OmG_LcaohS8HPdoHWxRyGYIOOjM5UtzV4fbJhQeMBvP2aiYDEPPgyhaimAtZPRl-MA2l8xA9xHVbYCB3BkS9rraxXymZUPNSb5gR3ysj-lk9uuOb2y6pq3rP0PMY2g2kvZR127c0IeB78ecUhJu7Q/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer > The information in this e-mail is intended only for the person to whom it is > addressed. If you believe this e-mail was sent to you in error and the e-mail > contains patient information, please contact the Mass General Brigham > Compliance HelpLine at > http://secure-web.cisco.com/1Lr1vZaXmLsjwnD23-1Md9jhF46n-a0g7XX_szs-XcQGJcxoj4xxNsiGwZFioUroynvNeQZfh6jfd9mFiGrnA2Nb8GyariYGVx5ENL51ORzzsWi_q3WHtnawRImTxNN0u-QLAJHsZVXOzckyaI40AEds0_ysN0w6k-3VGH9JTpnoz6UCEA8g3BpOgX2qHmPx62wcLgjph_Yw-66UqnZEzNTtd_qMMHtbZXqqxcOoh-L8ip-20FmF8Q08dFrplTnAv73V7YUZzwROfEqWzQ8K7Yw/http%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline > . If the e-mail was sent to you in error but does not contain patient > information, please contact the sender and properly dispose of the e-mail. > Please note that this e-mail is not secure (encrypted). If you do not wish > to continue communication over unencrypted e-mail, please notify the sender > of this message immediately. Continuing to send or respond to e-mail after > receiving this message means you understand and accept this risk and wish to > continue to communicate over unencrypted e-mail. > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
