Hmmm, I don't know. Can you upload the data set? Follow these instructions
From the linux command line, Create the file you want to upload, eg, cd $SUBJECTS_DIR tar cvfz subject.tar.gz ./subject Now log into our anonymous FTP site: ftp surfer.nmr.mgh.harvard.edu It will ask you for a user name: use "anonymous" (no quotes) It will ask you for a password: use "anonymous" (no quotes) cd transfer/incoming binary put subject.tar.gz Send an email that the file has been and the name of the file.
On 5/14/2020 5:03 PM, Angela Favaro wrote:
External Email - Use Caution
Thank you Doug! It works! Great!
I have another problem: I am reprocessing all my database with freesurfer 7.1.0, but in one subject segmentation failed. I had no problem with this subjects using freesurfer 6 What can be the problem?
I attach the log
Thank you for any help!
Angela
Il giorno 14 mag 2020, alle ore 17:06, Douglas N. Greve <dgreve@mgh.harvard.edu mailto:dgreve@mgh.harvard.edu> ha scritto:
Someone just pointed out that I posted the wrong file. Here is the correct one. Copy it to the same folder
https://gate.nmr.mgh.harvard.edu/safelinks/greve/freesurfer_read_surf.m
On 5/13/2020 11:01 PM, Douglas N. Greve wrote:
Download this file https://gate.nmr.mgh.harvard.edu/safelinks/greve/find_corresponding_center_F... and copy it into $FREESURFER_HOME/matlab and rerun. Let me know if that fixes it.
On 5/13/2020 5:57 PM, Angela Favaro wrote:
External Email - Use Caution
Please find attached the log Thank you Angela
Il giorno 13 mag 2020, alle ore 23:35, Douglas N. Greve <dgreve@mgh.harvard.edu mailto:dgreve@mgh.harvard.edu> ha scritto:
Are you running this from recon-all? If so send the recon-all.log. If from the command line, send the command-line and all terminal output
On 5/13/2020 5:28 PM, Angela Favaro wrote:
External Email - Use Caution
Hi Doug! yes, it run under version 6! Please let me know if it is something that can be solved Thank you Angela
> Il giorno 13 mag 2020, alle ore 23:06, Douglas N. Greve > <dgreve@mgh.harvard.edu mailto:dgreve@mgh.harvard.edu> ha scritto: > > Does it run under version 6? We are not really supporting lGI > anymore, but maybe we can get it to work > > On 5/13/2020 4:24 PM, Angela Favaro wrote: >> >> External Email - Use Caution >> >> >> Hi all, >> I am using the new version of Freesurfer 7.1.0 >> And I am finding problems in running gyrification analysis. >> I have Matlab 2016a (and 2019b) with the toolbox image processing >> >> The error is after the command find_corresponding_center_FSformat >> >> Matlab seems to start, but then the following message appears: >> >> >> Warning: Input argument must be a string. >> > In ver (line 41) >> In freesurfer_read_surf (line 70) >> In find_corresponding_center_FSformat (line 26) >> Error using fprintf >> Function is not defined for 'struct' inputs. >> >> Error in freesurfer_read_surf (line 70) >> fprintf('FREESURFER_READ_SURF [v %s]\n',ver(11:15)); >> >> Error in find_corresponding_center_FSformat (line 26) >> [mesh_pial.vertices, mesh_pial.faces] = freesurfer_read_surf(pial); >> >> >> >> ERROR: find_corresponding_center_FSformat did not complete >> successfully! >> >> I tried with both the Matlab version, but the error is the same >> Any help is appreciated. Thank you so much >> >> Angela >> >> >>> _______________________________________________ >>> Freesurfer mailing list >>> Freesurfer@nmr.mgh.harvard.edu >>> mailto:Freesurfer@nmr.mgh.harvard.edu >>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu mailto:Freesurfer@nmr.mgh.harvard.edu >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > mailto:Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu mailto:Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu mailto:Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu mailto:Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer