I've run into an error running 3dMVM and would very much appreciate some tips on how to troubleshoot.
Here's my input:
3dMVM -prefix N40_roi_analyses \
-mask All_ACC_PFC_Amygdala_ROIs_bin.nii.gz \
-jobs 3 \
-bsVars group \
-wsVars emotion \
-num_glt 3 \
-gltLabel 1 grp_fear_v_neu -gltCode 1 "group : 1*CTL -1*MDD emotion : 1*fear -1*neutral" \
-gltLabel 2 grp_sad_v_neu -gltCode 2 "group : 1*CTL -1*MDD emotion : 1*sad -1*neutral" \
-gltLabel 3 grp_neg_v_neu -gltCode 3 "group : 1*CTL -1*MDD emotion : 1*sad 1*fear -2*neutral" \
-dataTable @table_n40_2.txt
All of the image files I'm loading are in the cwd, and the table.txt file is as follows:
Subj group emotion InputFile
00077-GNG MDD neutral 00077-GNG_ignore_neutral.nii.gz
00077-GNG MDD fear 00077-GNG_ignore_fearful.nii.gz
00077-GNG MDD sad 00077-GNG_ignore_sad.nii.gz
00078-GNG CTL neutral 00078-GNG_ignore_neutral.nii.gz
00078-GNG CTL fear 00078-GNG_ignore_fearful.nii.gz
00078-GNG CTL sad 00078-GNG_ignore_sad.nii.gz
00080-GNG MDD neutral 00080-GNG_ignore_neutral.nii.gz
00080-GNG MDD fear 00080-GNG_ignore_fearful.nii.gz
00080-GNG MDD sad 00080-GNG_ignore_sad.nii.gz
00081-GNG CTL neutral 00081-GNG_ignore_neutral.nii.gz
00081-GNG CTL fear 00081-GNG_ignore_fearful.nii.gz
00081-GNG CTL sad 00081-GNG_ignore_sad.nii.gz
00082-GNG CTL neutral 00082-GNG_ignore_neutral.nii.gz
00082-GNG CTL fear 00082-GNG_ignore_fearful.nii.gz
00082-GNG CTL sad 00082-GNG_ignore_sad.nii.gz
00083-GNG MDD neutral 00083-GNG_ignore_neutral.nii.gz
00083-GNG MDD fear 00083-GNG_ignore_fearful.nii.gz
00083-GNG MDD sad 00083-GNG_ignore_sad.nii.gz
00084-GNG MDD neutral 00084-GNG_ignore_neutral.nii.gz
00084-GNG MDD fear 00084-GNG_ignore_fearful.nii.gz
00084-GNG MDD sad 00084-GNG_ignore_sad.nii.gz
00086-GNG MDD neutral 00086-GNG_ignore_neutral.nii.gz
00086-GNG MDD fear 00086-GNG_ignore_fearful.nii.gz
00086-GNG MDD sad 00086-GNG_ignore_sad.nii.gz
00087-GNG MDD neutral 00087-GNG_ignore_neutral.nii.gz
00087-GNG MDD fear 00087-GNG_ignore_fearful.nii.gz
00087-GNG MDD sad 00087-GNG_ignore_sad.nii.gz
00089-GNG CTL neutral 00089-GNG_ignore_neutral.nii.gz
00089-GNG CTL fear 00089-GNG_ignore_fearful.nii.gz
00089-GNG CTL sad 00089-GNG_ignore_sad.nii.gz
00090-GNG CTL neutral 00090-GNG_ignore_neutral.nii.gz
00090-GNG CTL fear 00090-GNG_ignore_fearful.nii.gz
00090-GNG CTL sad 00090-GNG_ignore_sad.nii.gz
00091-GNG CTL neutral 00091-GNG_ignore_neutral.nii.gz
00091-GNG CTL fear 00091-GNG_ignore_fearful.nii.gz
00091-GNG CTL sad 00091-GNG_ignore_sad.nii.gz
00093-GNG CTL neutral 00093-GNG_ignore_neutral.nii.gz
00093-GNG CTL fear 00093-GNG_ignore_fearful.nii.gz
00093-GNG CTL sad 00093-GNG_ignore_sad.nii.gz
00096-GNG MDD neutral 00096-GNG_ignore_neutral.nii.gz
00096-GNG MDD fear 00096-GNG_ignore_fearful.nii.gz
00096-GNG MDD sad 00096-GNG_ignore_sad.nii.gz
00097-GNG CTL neutral 00097-GNG_ignore_neutral.nii.gz
00097-GNG CTL fear 00097-GNG_ignore_fearful.nii.gz
00097-GNG CTL sad 00097-GNG_ignore_sad.nii.gz
00099-GNG MDD neutral 00099-GNG_ignore_neutral.nii.gz
00099-GNG MDD fear 00099-GNG_ignore_fearful.nii.gz
00099-GNG MDD sad 00099-GNG_ignore_sad.nii.gz
00100-GNG CTL neutral 00100-GNG_ignore_neutral.nii.gz
00100-GNG CTL fear 00100-GNG_ignore_fearful.nii.gz
00100-GNG CTL sad 00100-GNG_ignore_sad.nii.gz
00101-GNG MDD neutral 00101-GNG_ignore_neutral.nii.gz
00101-GNG MDD fear 00101-GNG_ignore_fearful.nii.gz
00101-GNG MDD sad 00101-GNG_ignore_sad.nii.gz
00103-GNG MDD neutral 00103-GNG_ignore_neutral.nii.gz
00103-GNG MDD fear 00103-GNG_ignore_fearful.nii.gz
00103-GNG MDD sad 00103-GNG_ignore_sad.nii.gz
00104-GNG CTL neutral 00104-GNG_ignore_neutral.nii.gz
00104-GNG CTL fear 00104-GNG_ignore_fearful.nii.gz
00104-GNG CTL sad 00104-GNG_ignore_sad.nii.gz
00105-GNG MDD neutral 00105-GNG_ignore_neutral.nii.gz
00105-GNG MDD fear 00105-GNG_ignore_fearful.nii.gz
00105-GNG MDD sad 00105-GNG_ignore_sad.nii.gz
00106-GNG CTL neutral 00106-GNG_ignore_neutral.nii.gz
00106-GNG CTL fear 00106-GNG_ignore_fearful.nii.gz
00106-GNG CTL sad 00106-GNG_ignore_sad.nii.gz
00108-GNG MDD neutral 00108-GNG_ignore_neutral.nii.gz
00108-GNG MDD fear 00108-GNG_ignore_fearful.nii.gz
00108-GNG MDD sad 00108-GNG_ignore_sad.nii.gz
00109-GNG MDD neutral 00109-GNG_ignore_neutral.nii.gz
00109-GNG MDD fear 00109-GNG_ignore_fearful.nii.gz
00109-GNG MDD sad 00109-GNG_ignore_sad.nii.gz
00110-GNG MDD neutral 00110-GNG_ignore_neutral.nii.gz
00110-GNG MDD fear 00110-GNG_ignore_fearful.nii.gz
00110-GNG MDD sad 00110-GNG_ignore_sad.nii.gz
00112-GNG CTL neutral 00112-GNG_ignore_neutral.nii.gz
00112-GNG CTL fear 00112-GNG_ignore_fearful.nii.gz
00112-GNG CTL sad 00112-GNG_ignore_sad.nii.gz
00113-GNG CTL neutral 00113-GNG_ignore_neutral.nii.gz
00113-GNG CTL fear 00113-GNG_ignore_fearful.nii.gz
00113-GNG CTL sad 00113-GNG_ignore_sad.nii.gz
00115-GNG MDD neutral 00115-GNG_ignore_neutral.nii.gz
00115-GNG MDD fear 00115-GNG_ignore_fearful.nii.gz
00115-GNG MDD sad 00115-GNG_ignore_sad.nii.gz
00116-GNG MDD neutral 00116-GNG_ignore_neutral.nii.gz
00116-GNG MDD fear 00116-GNG_ignore_fearful.nii.gz
00116-GNG MDD sad 00116-GNG_ignore_sad.nii.gz
00121-GNG MDD neutral 00121-GNG_ignore_neutral.nii.gz
00121-GNG MDD fear 00121-GNG_ignore_fearful.nii.gz
00121-GNG MDD sad 00121-GNG_ignore_sad.nii.gz
00123-GNG MDD neutral 00123-GNG_ignore_neutral.nii.gz
00123-GNG MDD fear 00123-GNG_ignore_fearful.nii.gz
00123-GNG MDD sad 00123-GNG_ignore_sad.nii.gz
00124-GNG CTL neutral 00124-GNG_ignore_neutral.nii.gz
00124-GNG CTL fear 00124-GNG_ignore_fearful.nii.gz
00124-GNG CTL sad 00124-GNG_ignore_sad.nii.gz
00125-GNG CTL neutral 00125-GNG_ignore_neutral.nii.gz
00125-GNG CTL fear 00125-GNG_ignore_fearful.nii.gz
00125-GNG CTL sad 00125-GNG_ignore_sad.nii.gz
00126-GNG CTL neutral 00126-GNG_ignore_neutral.nii.gz
00126-GNG CTL fear 00126-GNG_ignore_fearful.nii.gz
00126-GNG CTL sad 00126-GNG_ignore_sad.nii.gz
00129-GNG CTL neutral 00129-GNG_ignore_neutral.nii.gz
00129-GNG CTL fear 00129-GNG_ignore_fearful.nii.gz
00129-GNG CTL sad 00129-GNG_ignore_sad.nii.gz
00130-GNG MDD neutral 00130-GNG_ignore_neutral.nii.gz
00130-GNG MDD fear 00130-GNG_ignore_fearful.nii.gz
00130-GNG MDD sad 00130-GNG_ignore_sad.nii.gz
00131-GNG CTL neutral 00131-GNG_ignore_neutral.nii.gz
00131-GNG CTL fear 00131-GNG_ignore_fearful.nii.gz
00131-GNG CTL sad 00131-GNG_ignore_sad.nii.gz
00132-GNG CTL neutral 00132-GNG_ignore_neutral.nii.gz
00132-GNG CTL fear 00132-GNG_ignore_fearful.nii.gz
00132-GNG CTL sad 00132-GNG_ignore_sad.nii.gz
00133-GNG CTL neutral 00133-GNG_ignore_neutral.nii.gz
00133-GNG CTL fear 00133-GNG_ignore_fearful.nii.gz
00133-GNG CTL sad 00133-GNG_ignore_sad.nii.gz
00134-GNG CTL neutral 00134-GNG_ignore_neutral.nii.gz
00134-GNG CTL fear 00134-GNG_ignore_fearful.nii.gz
00134-GNG CTL sad 00134-GNG_ignore_sad.nii.gz
The error message I'm getting is:
***** End of data structure information *****
++++++++++++++++++++++++++++++++++++++++++++++++++++
Reading input files now...
Reading input files: Done!
If the program hangs here for more than, for example, half an hour,
kill the process because the model specification or the GLT coding
is likely inappropriate.
~~~~~~~~~~~~~~~~~~~ Model test failed! ~~~~~~~~~~~~~~~~~~~
Possible reasons:
0) Make sure that R packages afex and phia have been installed. See the 3dMVM
help documentation for more details.
1) Inappropriate model specification with options -bsVars, -wsVars, or -qVars.
Note that within-subject or repeated-measures variables have to be declared
with -wsVars.
2) Incorrect specifications in general linear test coding with -gltCode.
3) Mistakes in data table. Check the data structure shown above, and verify
whether there are any inconsistencies.
4) Inconsistent variable names which are case sensitive. For example, factor
named Group in model specification and then listed as group in the table hader
would cause grief for 3dMVM.
5) Not enough number of subjects. This may happen when there are two or more
withi-subject factors. For example, a model with two within-subject factors with
m and n levels respectively requires more than (m-1)*(n-1) subjects to be able to
model the two-way interaction with the multivariate approach.
** Error:
Quitting due to model test failure...
There were 50 or more warnings (use warnings() to see the first 50)
It seems that others on this message board have had the same error but I can't find a solution for mine (I've tried eliminating the mask, working with spaces, etc.). I have also updated both afni and my R packages.
Thanks in advance for your help,
Natalie
