Thank you, Bruce
I tried to upload the subject (tar.gz, 183 Mb) to the ftp, followed instructions
ftp surfer.nmr.mgh.harvard.edu anonymous my email cd transfer/incoming put /usr/local/fs5.3/freesurfer/subjects/rightgyrusfailure.tar.gz
and I get this:
local: /usr/local/fs5.3/freesurfer/subjects/rightgyrusfailure.tar.gz remote: /usr/local/fs5.3/freesurfer/subjects/rightgyrusfailure.tar.gz 200 PORT command successful. Consider using PASV. 553 Could not create file.
Please advise,
Octavian
On Sun, Nov 9, 2014 at 9:44 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
Hi Octavian If you upload the subject we will take a look Cheers Bruce
On Nov 9, 2014, at 10:40 PM, Octavian Lie octavian.lie@gmail.com
wrote:
Dear all,
- in the attached there is a gyrus that does not incorporated into
surfaces, whatever I do (wm edits/topological defects-cloning voxels from brainmask.mgz or T1.mgz into wm.mgz, save volume then run recon-all autorecon2-wm autorecon 3), or control points addition to wm in brainmask.mgz, then run the -cp flag. Is there any other solution left to clone the white matter (and pial voxels) left out? is brain.finalsurfs.manedit.mgz a solution?
- Unrelated, after manual pial edits and reruning the recon-all
autorecon-pial command, the pial surface generated is mostly OK, however where there have been heavy dura editing the surface looks granular. Is there a workaround (along with better hands), such as smoothing the final pia a bit more (preferably in the recon-all pipeline as to be convergent with other segmentation results).
I appreciate your help,
Octavian <rightgyrusfailure.png> <rightgyrusfailurewm.png> _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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