AFNI Message Board

Dear AFNI users-

We are very pleased to announce that the new AFNI Message Board framework is up! Please join us at:

https://discuss.afni.nimh.nih.gov

Existing user accounts have been migrated, so returning users can login by requesting a password reset. New users can create accounts, as well, through a standard account creation process. Please note that these setup emails might initially go to spam folders (esp. for NIH users!), so please check those locations in the beginning.

The current Message Board discussion threads have been migrated to the new framework. The current Message Board will remain visible, but read-only, for a little while.

Sincerely, AFNI HQ

History of AFNI updates  

|
January 16, 2023 10:50AM
Dear AFNI experts,

I try to run 3dICC on 'very preliminary data' (so very small sample size).
I would like to quantify networks similarity across 3 subjects.

3dICC -prefix myICC -jobs 4                                   \
          -mask mask.nii.gz      \
          -model  '1+Network+(1|Subj)'                        \
          -dataTable      \
Subj 	Network 	InputFile \
s1 	N1 	thresh_zstat13.nii.gz \
s1 	N2	thresh_zstat8.nii.gz \
s2 	N1 	thresh_zstat17.nii.gz \
s2 	N2 	thresh_zstat13.nii.gz \
s3 	N1 	thresh_zstat9.nii.gz \
s3 	N2 	thresh_zstat10.nii.gz



When I ran 3dICC, it failed:

++++++++++++++++++++++++++++++++++++++++++++++++++++
***** Summary information of data structure *****
3 subjects : s1 s2 s3
6 response values
2 levels for factor Network : N1 N2

Contingency tables of subject distributions among the categorical variables:

***** End of data structure information *****
++++++++++++++++++++++++++++++++++++++++++++++++++++

Reading input files now...

[...]

Range of input data: [-6.717, 14.814]

If the program hangs here for more than, for example, half an hour,
kill the process because the model specification or something else
is likely inappropriate.

[1] "Great, test run passed at voxel (21, 43, 23)!"
Error in asMethod(object) : not a positive definite matrix
Calls: nrow ... asMethod -> as -> .class1 -> as -> asMethod -> as -> asMethod
Exécution arrêtée





Do you have any idea about why it failed?

Many thanks in advance.

Carole
Subject Author Posted

3dICC error

carolege January 16, 2023 10:50AM

Re: 3dICC error

ptaylor January 16, 2023 11:20AM

Re: 3dICC error

carolege January 17, 2023 04:34AM

Re: 3dICC error

gang January 17, 2023 10:46AM