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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
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Hi Gang,
Thank you so much for the suggestion. It works! I really appreciate your help.
Best,
Shiyu
by
sytang317
-
AFNI Message Board
Hi Gang, the whole script is:
3dMVM -prefix 3dmvm_test \
-jobs 2 \
-mask brainmask.nii \
-bsVars 'group*treat' \
-num_glt 1 \
-gltLabel 1 AvB -gltCode 1 'group : 1*a -1*b' \
-dataTable \
Subj group treat InputFile \
s1 a T1 s1_map_z.nii \
s2 a T1 s2_map_z.nii \
S3 a T2 s3_map_z.nii \
S4 a T2 s4_map_z.nii \
s5 b T1 s5_map_z.nii \
s6 b T1 s6_map_z.nii \
s7 b T2
by
sytang317
-
AFNI Message Board
Hi Gang,
I apologize for bothering you again... But I came across a new error message as below:
Error in outList[[1]][] : subscript out of bounds
Calls: process.MVM.opts -> gl_Constr
Execution halted
I think the issue is with the line below because everything works well without it.
-num_glt 1 \
-gltLabel 1 AvB -gltCode 1 'group : 1*a -1*b' \
My data table looks like
by
sytang317
-
AFNI Message Board
Hi Gang,
I tried to type in the script directly into the terminal and the error did not show up. I think it could be some formatting issue of the text. However, it gave me this error:
** Error:
The number of -gltLabel is not consistent with that
specified by -num_glt 2
No matter how many glt I set, it always gave me the error saying the number is not consistent.
by
sytang317
-
AFNI Message Board
Hi Gang,
I tried to save the script to txt and execute it in terminal. But still got the same error:
** Error:
Illegal parameters on command line:
c("-prefix 3dMVM_test -jobs 1", "-bsVars A*B", "-mask wbrainmask_th05.nii", "-SS_type 3", "-num_glt 2", "-gltLabel 1 a1_b1_vs_b2 -gltCode 1 A : 1*a1 B : 1*b1-1*b2", "
by
sytang317
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AFNI Message Board
And the R version is 3.4.4. Not sure if it is relevant to this problem.
by
sytang317
-
AFNI Message Board
Hi Gang, my script is below:
3dMVM -prefix 3dMVM_test -jobs 1 \
-bsVars 'A*B' \
-mask mask.nii \
-SS_type 3 \
-num_glt 2 \
-gltLabel 1 a1_b1_vs_b2 -gltCode 1 ‘A : 1*a1 B : 1*b1 -1*b2’ \
-gltLabel 2 a2_b1_vs_b2 -gltCode 2 ‘A : 1*a2 B :
by
sytang317
-
AFNI Message Board
Thank you, Gang.
I tried to run 3dMVM but got the following error message:
** Error:
Illegal parameters on command line:
c("-prefix 3dMVM_test -jobs 1 -bsVars ’A*B’ -mask mask.nii -SS_type 3 -num_glt 2 -gltLabel 1 a1_b1_vs_b2 -gltCode 1 ‘A : 1*a1 B : 1*b1 -1*b2’ -gltLabel 2 a2_b1_vs_b2 -gltCode 2 ‘A : 1*a2 B : 1*b1 -1*b2’ -dataTable", "@table.txt")
Try
by
sytang317
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AFNI Message Board
Hello, I need some help about 3dRegAna. I am doing a two-way ANOVA with unbalanced data. Below is a sample of my model (columns are factor a, factor b, and axb respectively).
3dRegAna \
-rows 39 \
-cols 3 \
-xydata 0 0 0 subj1.nii \
-xydata 0 1 0 subj2.nii \
-xydata 1 0 0 subj3.nii \
-xydata 1 1 1 subj4.nii \
...
-model 1 2 3 : 0 \
I observed significant axb interaction at a couple of
by
sytang317
-
AFNI Message Board