External Email - Use Caution I have uploaded to you the data using the Martinos Center FileDrop Hope is a good option for you
Thank you Angela > Il giorno 15 mag 2020, alle ore 16:40, Angela Favaro <angela.fav...@unipd.it> > ha scritto: > > External Email - Use Caution > > > Hi Doug, > I have some problem in uploading my subj.tar.gz using ftp. I am using a MacOs > Catalina and, although I am able to connect to the FTP site and open the > incoming window (also in binary mode), commands are not working... > > I am trying to overcome the problem. > Is there any other method to transfer the data set? > Thank you > > Angela > >> Il giorno 15 mag 2020, alle ore 00:15, Douglas N. Greve >> <dgr...@mgh.harvard.edu <mailto:dgr...@mgh.harvard.edu>> ha scritto: >> >> 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 <http://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 >>>> <dgr...@mgh.harvard.edu <mailto:dgr...@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 >>>> <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_FSformat.m >>>>> >>>>> <https://gate.nmr.mgh.harvard.edu/safelinks/greve/find_corresponding_center_FSformat.m> >>>>> 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 >>>>>>> <dgr...@mgh.harvard.edu <mailto:dgr...@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 >>>>>>>>> <dgr...@mgh.harvard.edu <mailto:dgr...@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 >>>>>>>>>>> <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 >>>>>>>>>> <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 >>>>>>>>> <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 >>>>>>>> <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 >>>>>>> <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 >>>> <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 > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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