As the error message says, you can only have two levels. With 3 levels, you must use the "command line" stream, ie, mris_preproc, mri_surf2surf, mri_glmfit, and mri_glmfit-sim. There are tutorials on the wiki.
On 01/20/2016 08:53 AM, BAUTISTA-PERPINYA Maximilià wrote: > Thank you for the reply Douglas, > > Factor 1 (diagnosis) has 3 levels (BPD, CCP, NPC). I created using the vi > editor, one line for each level. Same as factor 2. > > Max > > > > On dijous 14 gener 2016 22:20 CET, Douglas N Greve > <[email protected]> wrote: > >> how many levels does factor 1 have? How did you make the factor file?> >> On 01/14/2016 05:30 AM, BAUTISTA-PERPINYA Maximilià wrote: >>> Hi there experts, >>> >>> I'm runing qdec to analyze my subject data. I am able to import the >>> qdec.table.dat, but the problem comes in the Design step. I select >>> 'Volume-based' measure, 'Diagnosis' as my discrete independent variable and >>> 'LeftAmygdala' as the continuous variable. I don't select any nuisance >>> factor. I then set my Design Name: 'LAmyDiagnosis' and click Analyze, but >>> gives me the following error: >>> >>> --------------------------------------------------------------------------------------------------------------- >>> >>> ERROR: QdecGlmDesign::GenerateContrasts: factor 1 must have 2 levels >>> ninputs = 137 >>> Checking inputs >>> nframestot = 137 >>> Allocing output >>> Done allocing >>> nframes = 137 >>> Writing to >>> /home/freesurfer/Desktop/test005/subjects/qdec/LAmyDiagnosis/y.mgh >>> gdfReadHeader: reading >>> /home/freesurfer/Desktop/test005/subjects/qdec/LAmyDiagnosis/qdec.fsgd >>> INFO: DeMeanFlag keyword not found, DeMeaning will NOT be done. >>> Continuous Variable Means (all subjects) >>> 0 LeftAmygdala 1502.65 189.974 >>> Class Means of each Continuous Variable >>> 1 diagnosisBPD 1497.7548 >>> 2 diagnosisCCP 1540.8923 >>> 3 diagnosisNPC 1488.5490 >>> INFO: gd2mtx_method is dods >>> Reading source surface >>> /home/freesurfer/Desktop/test005/subjects/fsaverage/surf/lh.white >>> ERROR: no contrasts specified. >>> Error in Analyze: command failed: mri_glmfit --y >>> /home/freesurfer/Desktop/test005/subjects/qdec/LAmyDiagnosis/y.mgh --fsgd >>> /home/freesurfer/Desktop/test005/subjects/qdec/LAmyDiagnosis/qdec.fsgd dods >>> --glmdir /home/freesurfer/Desktop/test005/subjects/qdec/LAmyDiagnosis >>> --surf fsaverage lh >>> >>> --------------------------------------------------------------------------------------------------------------- >>> >>> Any recommendations? Any help is much appreciated :) >>> >>> >>> Best, >>> >>> Max >>> >>> _______________________________________________> > Freesurfer mailing list >>> [email protected] >>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>> >>> >> -- Douglas N. Greve, Ph.D. >> MGH-NMR Center >> [email protected] >> Phone Number: 617-724-2358 >> Fax: 617-726-7422 >> >> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting >> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 >> www.nmr.mgh.harvard.edu/facility/filedrop/index.html >> Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ >> >> _______________________________________________> Freesurfer mailing list >> [email protected] >> 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. > -- Douglas N. Greve, Ph.D. MGH-NMR Center [email protected] Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ Freesurfer mailing list [email protected] https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
