When imported to matlab, the gifti doesn't seem to have any data, other than the field "cdata" which is 32492 by 209. It's possible there are some private fields, but I don't have any experience with private fields in matlab so I'd have to look into this. I could also give you a header printout of the gifti file in the terminal. Is this what you're referring to?
On Tue, Mar 14, 2017 at 7:09 PM, Glasser, Matthew <glass...@wustl.edu> wrote: > Dims of the gifti you read in. > > Peace, > > Matt. > > From: Rita Elena Loiotile <rloiot...@gmail.com> > Date: Tuesday, March 14, 2017 at 6:07 PM > > To: Matt Glasser <glass...@wustl.edu> > Cc: "hcp-users@humanconnectome.org" <hcp-users@humanconnectome.org> > Subject: Re: [HCP-Users] GIFTI read and save in Matlab > > Sorry, I'm not sure what you mean. I have a saved gifti file that I'm > reading into matlab and a matrix that I've made that I want to output as a > gifti. Can you specify the array? > > On Tue, Mar 14, 2017 at 7:04 PM, Glasser, Matthew <glass...@wustl.edu> > wrote: > >> I was referring to the array you read into matlab. >> >> Peace, >> >> Matt. >> >> From: Rita Elena Loiotile <rloiot...@gmail.com> >> Date: Tuesday, March 14, 2017 at 6:01 PM >> >> To: Matt Glasser <glass...@wustl.edu> >> Cc: "hcp-users@humanconnectome.org" <hcp-users@humanconnectome.org> >> Subject: Re: [HCP-Users] GIFTI read and save in Matlab >> >> both the gifti.cdata and the matrix have dimensions 32492 by 209. >> >> On Tue, Mar 14, 2017 at 5:29 PM, Glasser, Matthew <glass...@wustl.edu> >> wrote: >> >>> Is the input file only a single column? >>> >>> Peace, >>> >>> Matt. >>> >>> From: Rita Elena Loiotile <rloiot...@gmail.com> >>> Date: Tuesday, March 14, 2017 at 3:34 PM >>> >>> To: Matt Glasser <glass...@wustl.edu> >>> Cc: "hcp-users@humanconnectome.org" <hcp-users@humanconnectome.org> >>> Subject: Re: [HCP-Users] GIFTI read and save in Matlab >>> >>> Hi Matthew, >>> >>> Thanks for the help. I have 2 versions on my lab computer, both give >>> the same problem. It seems like the newest version of GIFTI (according to >>> artefact) is 1.6. Please let me know if there's a newer one that I'm >>> missing. >>> >>> I've attached screenshots of the info, in case there is really something >>> obvious that I'm doing incorrectly. >>> >>> Thanks again, >>> Rita >>> >>> On Tue, Mar 14, 2017 at 7:43 AM, Glasser, Matthew <glass...@wustl.edu> >>> wrote: >>> >>>> Do you have the latest version of the GIFTI matlab toolbox? >>>> >>>> Peace, >>>> >>>> Matt. >>>> >>>> From: Rita Elena Loiotile <rloiot...@gmail.com> >>>> Date: Tuesday, March 14, 2017 at 1:27 AM >>>> To: Matt Glasser <glass...@wustl.edu> >>>> Cc: "hcp-users@humanconnectome.org" <hcp-users@humanconnectome.org> >>>> Subject: Re: [HCP-Users] GIFTI read and save in Matlab >>>> >>>> Hi Matthew and HCP, >>>> >>>> Thank you for the suggestion, Matthew. I tried this a while back, and >>>> have since forgotten it. I thought it might work (on account of preserving >>>> some internal info). It is also the case that re-saving the original gifti >>>> under a new name produces a file that opens properly in other viewing >>>> software. That suggested that this was the right approach. >>>> >>>> Unfortunately, I can't seem to assign new values to the original >>>> gifti.cdata. >>>> >>>> The command "gnew.cdata=M" yields the following: Error using >>>> gifti/subsasgn (line 95) Syntax not implemented. >>>> >>>> Perhaps this has been updated if it works for you? A very dumb >>>> workaround for this would be to loop through every possible index of the >>>> matrix M and assign each value separately. However, I'd very much like to >>>> avoid this if possible, since it's quite slow. >>>> >>>> Please let me know if this works for you, and/or if I am missing >>>> something obvious. >>>> >>>> Thank you again, >>>> Rita >>>> >>>> On Mon, Mar 13, 2017 at 11:04 PM, Glasser, Matthew <glass...@wustl.edu> >>>> wrote: >>>> >>>>> I find it better to reuse the GIFTI object one read into matlab in the >>>>> first place: >>>>> >>>>> gnew=g; >>>>> gnew.cdata=M; >>>>> save(gnew,’saveName.gii’); >>>>> >>>>> Peace, >>>>> >>>>> Matt. >>>>> >>>>> From: <hcp-users-boun...@humanconnectome.org> on behalf of Rita Elena >>>>> Loiotile <rloiot...@gmail.com> >>>>> Date: Monday, March 13, 2017 at 8:00 PM >>>>> To: "hcp-users@humanconnectome.org" <hcp-users@humanconnectome.org> >>>>> Subject: [HCP-Users] GIFTI read and save in Matlab >>>>> >>>>> Hi, >>>>> >>>>> I’m hoping someone can recommend a fix for a problem I’m having. I >>>>> have been using GIFTI library (http://www.artefact.tk/softwa >>>>> re/matlab/gifti/) to read GIFTIs into Matlab and perform >>>>> computations. I would like to save as a gifti. Using the software, I >>>>> have >>>>> tried the following: >>>>> >>>>> M; % matrix of values [vertices by timepoints] >>>>> g=gifti(M); % converts my matrix to a gifti object with M stored >>>>> under g.cdata; >>>>> save(g, ’saveName.gii’); >>>>> >>>>> This seems to work fine. I can re-load the saved gift into Matlab— >>>>> newGifti=gifti(’saveName.gii’);— and it looks correct. However, when >>>>> I try to open saveName.gii using a non-Matlab visualization software— e.g. >>>>> tksurfer, wb_view, freeview— I either encounter errors or load what looks >>>>> like a gift containing all 0’s. >>>>> >>>>> Has anyone had success using GIFTI library to save or is there an >>>>> alternative technique? >>>>> >>>>> Thank you very much in advance, >>>>> Rita >>>>> >>>>> _______________________________________________ >>>>> HCP-Users mailing list >>>>> HCP-Users@humanconnectome.org >>>>> http://lists.humanconnectome.org/mailman/listinfo/hcp-users >>>>> >>>>> >>>>> ------------------------------ >>>>> >>>>> The materials in this message are private and may contain Protected >>>>> Healthcare Information or other information of a sensitive nature. If you >>>>> are not the intended recipient, be advised that any unauthorized use, >>>>> disclosure, copying or the taking of any action in reliance on the >>>>> contents >>>>> of this information is strictly prohibited. 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