Hi Alex. Take a look at the wiki page: http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/LongitudinalTutorial
you need to create a .Qdecrc file in the qdec directory to tell qdec about the filenames with the .long in it: Also QDEC will not know about our new files (e.g. lh.long.thickness-spc...). We can tell it to look for them by creating a qdec/.Qdecrc file in the qdec directory that contains the following lines: MEASURE1 = long.thickness-avg MEASURE2 = long.thickness-rate MEASURE3 = long.thickness-pc1 MEASURE4 = long.thickness-spcYou can then run qdec and do all kinds of analysis on any of those files and other variables from the qdec table: qdec --table ./qdec/cross.qdec.table.datBest, Martin----- Original Message ----- From: "Alex Hanganu" <al.hang...@yahoo.ca> To: "Martin Reuter" <mreu...@nmr.mgh.harvard.edu> Cc: "FS Mailing List" <Freesurfer@nmr.mgh.harvard.edu> Sent: Friday, November 09, 2012 9:47 PM Subject: Re: [Freesurfer] Qdec - longitudinal. File missing > Hello Martin, thanks for your answer, > > I used the --qcache. The cmd was: > > long_mris_slopes --qdec qdecfile --meas thickness --hemi > lh --do-avg --do-rate --do-pc1 --do-spc --do-stack --do-label --time > months --fwhm 10 --qcache fsaverage --sd SUBJECTS_DIR > > All the bases subjects have the specific files after this cmd: > lh.long.thickness-avg[pc1/rate/spc].fwhm0[5, 10, 15, 20, 25].fsaverage.mgh > > but the file that qdec asks for - is missing in all the bases subjects. > Qdec asks for: lh.thickness ... but long_mris_slopes created: > lh.long.thickness... > > it seems to be a qdec error ? maybe. > > btw, i changed the qdec.bin and qdeclibs.tgz with the last versions, from > the release notes link. Also i used the last version of long_mris_slopes, > from 2012/05/30. We work on mac leopard, but the recon-all -all / -base > and -long was performed on linux (cluster). > > Sincerely, > Alex. > > > > Le 09/11/2012 9:14 PM, Martin Reuter a écrit : >> Hi Alex, >> >> check the bases of other subjects. Are there any fwhm????fsaverage >> files? >> >> Did you run with the --qcache flag? Then these should have been created. >> Maybe you passed a specific fwhm value different from 10? >> >> Best, Martin >> >> On Fri, 2012-11-09 at 17:13 -0500, Alex Hanganu wrote: >>> Dear FreeSurfer Experts, >>> >>> we performed the long_mris_slopes cmd and finished without error. >>> According to the "Longitudinal Processing Tutorial", we created after >>> that the cross sectional form of the qdec table, and then the >>> qdec/.Qdecrc file. >>> >>> When running the qdec analyses, we receive an error: >>> >>> Couldn't open ...subjects-base/surf/lh.thickness.fwhm.10.fsaverage.mgz >>> or mgh file. >>> >>> The file is missing, it wasn't created. >>> >>> What did we miss ? >>> >>> Thanks, >>> >>> Sincerely, >>> Alex. >>> >>> _______________________________________________ >>> Freesurfer mailing list >>> Freesurfer@nmr.mgh.harvard.edu >>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>> >>> >> >> >> >> 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 Partners Compliance >> HelpLine at >> http://www.partners.org/complianceline . 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. > > > > > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
