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 <greve@nmr.mgh.harvard.edu> 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

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