Dear AFNI users,
I have run into errors for running 3dMVM,
./3dMVM_runscript.sh
Loading required package: afex
Loading required package: lme4
Loading required package: Matrix
Loading required package: emmeans
Welcome to afex. For support visit: http://afex.singmann.science/
- Functions for ANOVAs: aov_car(), aov_ez(), and aov_4()
- Methods for calculating p-values with mixed(): ‘KR’, ‘S’, ‘LRT’, and ‘PB’
- ‘afex_aov’ and ‘mixed’ objects can be passed to emmeans() for follow-up tests
- Get and set global package options with: afex_options()
- Set orthogonal sum-to-zero contrasts globally: set_sum_contrasts()
- For example analyses see: browseVignettes(“afex”)
Attaching package: ‘afex’
The following object is masked from ‘package:lme4’:
lmer
Loading required package: phia
Loading required package: car
Error in $<-.data.frame(*tmp*, Subj, value = integer(0)) :
replacement has 0 rows, data has 532
Calls: $<- → $<-.data.frame
Execution halted
The command lines i used are
3dMVM -prefix TBI_PVSinteraction
-bsVars ‘TBIPVS+Gender+Age’
-qVars ‘Age’
-num_glt 7
-gltLabel 1 TBI_PVSpresent -gltCode 1 'TBI : 1TBI PVS : 1PVS_present’
-gltLabel 2 TBI_PVSabsent -gltCode 2 'TBI : 1TBI PVS : 1PVS_absent’
-gltLabel 3 nonTBI_PVSpresent -gltCode 3 'TBI : 1nonTBI PVS : 1PVS_present’
-gltLabel 4 nonTBI_PVSabsent -gltCode 4 'TBI : 1nonTBI PVS : 1PVS_absent’
-gltLabel 5 TBI_by_PVS -gltCode 5 'TBI : 1TBI -1nonTBI PVS : 1PVS_present -1PVS_absent’
-gltLabel 6 Gender_TBI_interaction -gltCode 6 'TBI : 1TBI -1nonTBI Gender : 1M -1F’
-gltLabel 7 Gender_PVS_interaction -gltCode 7 'PVS : 1PVS_present -1PVS_absent Gender : 1M -1*F’
-dataTable
ID TBI PVS Gender Age InputFile
NCNC0062 TBI PVS_present F 44 /data/NEURO2/ping/SWI/QSM/NCNC0062/nonlinear_t2map_inQSM_MNI_sgima2.1233226_5mm_smooth.nii.gz .
.
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NCNC9074 TBI PVS_present M 42 /data/NEURO2/ping/SWI/QSM/NCNC9074/nonlinear_t2map_inQSM_MNI_sgima2.1233226_5mm_smooth.nii.gz \