Dear AFNI Experts,
I am currently trying to run a paired t-test using the 3dttest, I have my script written as below and I have made sure there's no space issues. However, the error of "not recognizing set A" keeps occurring. I'd greatly appreciated if you could provide some guidance on this. Many thanks, Sarah
3dttest++ -prefix 3dttest_prepost_covar.nii.gz \
-mask mask_1.5mm.nii \
-paired \
-AminusB \
-center '37.93243243,1.441123377' \
-covariates Covar_prepost.txt \
-SetA pre \
pa0080 /home/sf674/MM_AFNI/AD_pre/smwc1pa0080_sinha_stack3d_S002_reorient.nii \
pa0086 /home/sf674/MM_AFNI/AD_pre/smwc1pa0086_sinha_stack3d_S002.nii \
pa0128 /home/sf674/MM_AFNI/AD_pre/smwc1pa0128_sinha_stack3d_S002.nii \
pb3235 /home/sf674/MM_AFNI/AD_pre/smwc1pb3235_sinha_stack3d_S002.nii \
pa0274 /home/sf674/MM_AFNI/AD_pre/smwc1pa0274_sinha_stack3d_S002.nii \
pa0349 /home/sf674/MM_AFNI/AD_pre/smwc1pa0349_sinha_stack3d_S002.nii \
pa0347 /home/sf674/MM_AFNI/AD_pre/smwc1pa0347_sinha_stack3d_S002.nii \
pa0390 /home/sf674/MM_AFNI/AD_pre/smwc1pa0390_sinha_stack3d_S002.nii \
pa0419 /home/sf674/MM_AFNI/AD_pre/smwc1pa0419_sinha_stack3d_S002.nii \
pa0479 /home/sf674/MM_AFNI/AD_pre/smwc1pa0479_sinha_stack3d_S002.nii \
pa0507 /home/sf674/MM_AFNI/AD_pre/smwc1pa0507_sinha_stack3d_S002.nii \
pa0522 /home/sf674/MM_AFNI/AD_pre/smwc1pa0522_sinha_stack3d_S003.nii \
pa0660 /home/sf674/MM_AFNI/AD_pre/smwc1pa0660_sinha_stack3d_S002.nii \
pa0671 /home/sf674/MM_AFNI/AD_pre/smwc1pa0671_sinha_stack3d_S002.nii \
pa0836 /home/sf674/MM_AFNI/AD_pre/smwc1pa0836_sinha_stack3d_S002.nii \
pa0853 /home/sf674/MM_AFNI/AD_pre/smwc1pa0853_sinha_stack3d_S002.nii \
pa0867 /home/sf674/MM_AFNI/AD_pre/smwc1pa0867_sinha_stack3d_S002.nii \
pb8201 /home/sf674/MM_AFNI/AD_pre/smwc1pb8201_sinha_stack3d_S002.nii \
pa1174 /home/sf674/MM_AFNI/AD_pre/smwc1pa1174_sinha_stack3d_S002.nii \
pa1279 /home/sf674/MM_AFNI/AD_pre/smwc1pa1279_sinha_stack3d_S002.nii \
pa1335 /home/sf674/MM_AFNI/AD_pre/smwc1pa1335_sinha_stack3d_S002.nii \
pb8654 /home/sf674/MM_AFNI/AD_pre/smwc1pb8654_sinha_stack3d_S002.nii \
pa1426 /home/sf674/MM_AFNI/AD_pre/smwc1pa1426_sinha_stack3d_S002.nii \
pa1657 /home/sf674/MM_AFNI/AD_pre/smwc1pa1657_sinha_stack3d_S002.nii \
pa1875 /home/sf674/MM_AFNI/AD_pre/smwc1pa1875_sinha_stack3d_S002.nii \
pa1955 /home/sf674/MM_AFNI/AD_pre/smwc1pa1955_sinha_stack3d_S002.nii \
pa2049 /home/sf674/MM_AFNI/AD_pre/smwc1pa2049_sinha_stack3d_S002.nii \
pb0135 /home/sf674/MM_AFNI/AD_pre/smwc1pb0135_sinha_stack3d_S002.nii \
pb9894 /home/sf674/MM_AFNI/AD_pre/smwc1pb9894_sinha_stack3d_S002.nii \
pb9983 /home/sf674/MM_AFNI/AD_pre/smwc1pb9983_sinha_stack3d_S002.nii \
pb10174 /home/sf674/MM_AFNI/AD_pre/smwc1pb10174_sinha_stack3d_S002.nii \
pb10296 /home/sf674/MM_AFNI/AD_pre/smwc1pb10296_sinha_stack3d_S002.nii \
pb0842 /home/sf674/MM_AFNI/AD_pre/smwc1pb0842_sinha_stack3d_S002.nii \
pb0897 /home/sf674/MM_AFNI/AD_pre/smwc1pb0897_sinha_stack3d_S002.nii \
pb1906 /home/sf674/MM_AFNI/AD_pre/smwc1pb1906_sinha_stack3d_S002.nii \
pb2321 /home/sf674/MM_AFNI/AD_pre/smwc1pb2321_sinha_stack3d_S002.nii \
pb2624 /home/sf674/MM_AFNI/AD_pre/smwc1pb2624_sinha_stack3d_S002.nii \
pb2916 /home/sf674/MM_AFNI/AD_pre/smwc1pb2916_sinha_stack3d_S002.nii \
pb3023 /home/sf674/MM_AFNI/AD_pre/smwc1pb3023_sinha_stack3d_S002.nii \
pb2969 /home/sf674/MM_AFNI/AD_pre/smwc1pb2969_sinha_stack3d_S002.nii \
pb3892 /home/sf674/MM_AFNI/AD_pre/smwc1pb3892_sinha_stack3d_S002.nii \
pb3994 /home/sf674/MM_AFNI/AD_pre/smwc1pb3994_sinha_stack3d_S002.nii \
pb4448 /home/sf674/MM_AFNI/AD_pre/smwc1pb4448_sinha_stack3d_S002.nii \
pb7013 /home/sf674/MM_AFNI/AD_pre/smwc1pb7013_sinha_stack3d_S002.nii \
pa0913 /home/sf674/MM_AFNI/AD_pre/smwc1pa0913_sinha_stack3d_S002.nii \
pb7700 /home/sf674/MM_AFNI/AD_pre/smwc1pb7700_sinha_stack3d_S002.nii \
pb7874 /home/sf674/MM_AFNI/AD_pre/smwc1pb7874_sinha_stack3d_S002.nii \
pb8234 /home/sf674/MM_AFNI/AD_pre/smwc1pb8234_sinha_stack3d_S002.nii \
pb8468 /home/sf674/MM_AFNI/AD_pre/smwc1pb8468_sinha_stack3d_S002.nii \
pb9010 /home/sf674/MM_AFNI/AD_pre/smwc1pb9010_sinha_stack3d_S002.nii \
pb9111 /home/sf674/MM_AFNI/AD_pre/smwc1pb9111_sinha_stack3d_S002.nii \
pb9505 /home/sf674/MM_AFNI/AD_pre/smwc1pb9505_sinha_stack3d_S002.nii \
pb9464 /home/sf674/MM_AFNI/AD_pre/smwc1pb9464_sinha_stack3d_S002.nii \
tb1520 /home/sf674/MM_AFNI/AD_pre/smwc1tb1520_sinha_stack3d_S002.nii \
tb1757 /home/sf674/MM_AFNI/AD_pre/smwc1tb1757_sinha_stack3d_S002.nii \
tb1958 /home/sf674/MM_AFNI/AD_pre/smwc1tb1958_sinha_stack3d_S002.nii \
tb2177 /home/sf674/MM_AFNI/AD_pre/smwc1tb2177_sinha_stack3d_S002.nii \
tb2368 /home/sf674/MM_AFNI/AD_pre/smwc1tb2368_sinha_stack3d_S002.nii \
tb3028 /home/sf674/MM_AFNI/AD_pre/smwc1tb3028_sinha_stack3d_S002.nii \
tb3080 /home/sf674/MM_AFNI/AD_pre/smwc1tb3080_sinha_stack3d_S002.nii \
tb3597 /home/sf674/MM_AFNI/AD_pre/smwc1tb3597_sinha_stack3d_S002.nii \
tb3789 /home/sf674/MM_AFNI/AD_pre/smwc1tb3789_sinha_stack3d_S002.nii \
tb3815 /home/sf674/MM_AFNI/AD_pre/smwc1tb3815_sinha_stack3d_S002.nii \
tb4051 /home/sf674/MM_AFNI/AD_pre/smwc1tb4051_sinha_stack3d_S002.nii \
tb4207 /home/sf674/MM_AFNI/AD_pre/smwc1tb4207_sinha_stack3d_S002.nii \
tb4541 /home/sf674/MM_AFNI/AD_pre/smwc1tb4541_sinha_stack3d_S002.nii \
tb4718 /home/sf674/MM_AFNI/AD_pre/smwc1tb4718_sinha_stack3d_S002.nii \
tb4674 /home/sf674/MM_AFNI/AD_pre/smwc1tb4674_sinha_stack3d_S002.nii \
tb4646 /home/sf674/MM_AFNI/AD_pre/smwc1tb4646_sinha_stack3d_S002.nii \
tb4759 /home/sf674/MM_AFNI/AD_pre/smwc1tb4759_sinha_stack3d_S003.nii \
tb5071 /home/sf674/MM_AFNI/AD_pre/smwc1tb5071_sinha_stack3d_S002.nii \
tb5112 /home/sf674/MM_AFNI/AD_pre/smwc1tb5112_sinha_stack3d_S002.nii \
tb5185 /home/sf674/MM_AFNI/AD_pre/smwc1tb5185_sinha_stack3d_S002.nii \
tb5220 /home/sf674/MM_AFNI/AD_pre/smwc1tb5220_sinha_stack3d_S002.nii \
-SetB \
pa0230 /home/sf674/MM_AFNI/AD_post/smwc1pa0230_sinha_stack3d_S002.nii \
pa0242 /home/sf674/MM_AFNI/AD_post/smwc1pa0242_sinha_stack3d_S002.nii \
pa0266 /home/sf674/MM_AFNI/AD_post/smwc1pa0266_sinha_stack3d_S002.nii \
pa0351 /home/sf674/MM_AFNI/AD_post/smwc1pa0351_sinha_stack3d_S002.nii \
pa0363 /home/sf674/MM_AFNI/AD_post/smwc1pa0363_sinha_stack3d_S002.nii \
pa0396 /home/sf674/MM_AFNI/AD_post/smwc1pa0396_sinha_stack3d_S002.nii \
pa0404 /home/sf674/MM_AFNI/AD_post/smwc1pa0404_sinha_stack3d_S002.nii \
pa0500 /home/sf674/MM_AFNI/AD_post/smwc1pa0500_sinha_stack3d_S002.nii \
pa0531 /home/sf674/MM_AFNI/AD_post/smwc1pa0531_sinha_stack3d_S002.nii \
pa0595 /home/sf674/MM_AFNI/AD_post/smwc1pa0595_sinha_stack3d_S002.nii \
pa0631 /home/sf674/MM_AFNI/AD_post/smwc1pa0631_sinha_stack3d_S002.nii \
pa0651 /home/sf674/MM_AFNI/AD_post/smwc1pa0651_sinha_stack3d_S002.nii \
pa0775 /home/sf674/MM_AFNI/AD_post/smwc1pa0775_sinha_stack3d_S002.nii \
pa0790 /home/sf674/MM_AFNI/AD_post/smwc1pa0790_sinha_stack3d_S002.nii \
pa0942 /home/sf674/MM_AFNI/AD_post/smwc1pa0942_sinha_stack3d_S002.nii \
pa0959 /home/sf674/MM_AFNI/AD_post/smwc1pa0959_sinha_stack3d_S002.nii \
pa0975 /home/sf674/MM_AFNI/AD_post/smwc1pa0975_sinha_stack3d_S002.nii \
pa1272 /home/sf674/MM_AFNI/AD_post/smwc1pa1272_sinha_stack3d_S002.nii \
pa1311 /home/sf674/MM_AFNI/AD_post/smwc1pa1311_sinha_stack3d_S002.nii \
pa1448 /home/sf674/MM_AFNI/AD_post/smwc1pa1448_sinha_stack3d_S002.nii \
pa1492 /home/sf674/MM_AFNI/AD_post/smwc1pa1492_sinha_stack3d_S002.nii \
pa1532 /home/sf674/MM_AFNI/AD_post/smwc1pa1532_sinha_stack3d_S002.nii \
pa1581 /home/sf674/MM_AFNI/AD_post/smwc1pa1581_sinha_stack3d_S002.nii \
pa1800 /home/sf674/MM_AFNI/AD_post/smwc1pa1800_sinha_stack3d_S002.nii \
pa2003 /home/sf674/MM_AFNI/AD_post/smwc1pa2003_sinha_stack3d_S002.nii \
pa2090 /home/sf674/MM_AFNI/AD_post/smwc1pa2090_sinha_stack3d_S002.nii \
pa2187 /home/sf674/MM_AFNI/AD_post/smwc1pa2187_sinha_stack3d_S002.nii \
pb0428 /home/sf674/MM_AFNI/AD_post/smwc1pb0428_sinha_stack3d_S002.nii \
pb1011 /home/sf674/MM_AFNI/AD_post/smwc1pb10113_sinha_stack3d_S002.nii \
pb1035 /home/sf674/MM_AFNI/AD_post/smwc1pb10358_sinha_stack3d_S002.nii \
pb1038 /home/sf674/MM_AFNI/AD_post/smwc1pb10382_sinha_stack3d_S002.nii \
pb1055 /home/sf674/MM_AFNI/AD_post/smwc1pb10558_sinha_stack3d_S002.nii \
pb1125 /home/sf674/MM_AFNI/AD_post/smwc1pb1125_sinha_stack3d_S002.nii \
pb1173 /home/sf674/MM_AFNI/AD_post/smwc1pb1173_sinha_stack3d_S002.nii \
pb2194 /home/sf674/MM_AFNI/AD_post/smwc1pb2194_sinha_stack3d_S002.nii \
pb2675 /home/sf674/MM_AFNI/AD_post/smwc1pb2675_sinha_stack3d_S002.nii \
pb2861 /home/sf674/MM_AFNI/AD_post/smwc1pb2861_sinha_stack3d_S002.nii \
pb3336 /home/sf674/MM_AFNI/AD_post/smwc1pb3336_sinha_stack3d_S002.nii \
pb3418 /home/sf674/MM_AFNI/AD_post/smwc1pb3418_sinha_stack3d_S002.nii \
pb3434 /home/sf674/MM_AFNI/AD_post/smwc1pb3434_sinha_stack3d_S002.nii \
pb4281 /home/sf674/MM_AFNI/AD_post/smwc1pb4281_sinha_stack3d_S002.nii \
pb4390 /home/sf674/MM_AFNI/AD_post/smwc1pb4390_sinha_stack3d_S002.nii \
pb6827 /home/sf674/MM_AFNI/AD_post/smwc1pb6827_sinha_stack3d_S002.nii \
pb7382 /home/sf674/MM_AFNI/AD_post/smwc1pb7382_sinha_stack3d_S002.nii \
pb7655 /home/sf674/MM_AFNI/AD_post/smwc1pb7655_sinha_stack3d_S002.nii \
pb7954 /home/sf674/MM_AFNI/AD_post/smwc1pb7954_sinha_stack3d_S002.nii \
pb8069 /home/sf674/MM_AFNI/AD_post/smwc1pb8069_sinha_stack3d_S002.nii \
pb8548 /home/sf674/MM_AFNI/AD_post/smwc1pb8548_sinha_stack3d_S002.nii \
pb8726 /home/sf674/MM_AFNI/AD_post/smwc1pb8726_sinha_stack3d_S002.nii \
pb9282 /home/sf674/MM_AFNI/AD_post/smwc1pb9282_sinha_stack3d_S002.nii \
pb9366 /home/sf674/MM_AFNI/AD_post/smwc1pb9366_sinha_stack3d_S002.nii \
pb9716 /home/sf674/MM_AFNI/AD_post/smwc1pb9716_sinha_stack3d_S002.nii \
pb9800 /home/sf674/MM_AFNI/AD_post/smwc1pb9800_sinha_stack3d_S002.nii \
tb1851 /home/sf674/MM_AFNI/AD_post/smwc1tb1851_sinha_stack3d_S002.nii \
tb2146 /home/sf674/MM_AFNI/AD_post/smwc1tb2146_sinha_stack3d_S002.nii \
tb2222 /home/sf674/MM_AFNI/AD_post/smwc1tb2222_sinha_stack3d_S002.nii \
tb2408 /home/sf674/MM_AFNI/AD_post/smwc1tb2408_sinha_stack3d_S002.nii \
tb3246 /home/sf674/MM_AFNI/AD_post/smwc1tb3246_sinha_stack3d_S002.nii \
tb3357 /home/sf674/MM_AFNI/AD_post/smwc1tb3357_sinha_stack3d_S002.nii \
tb3516 /home/sf674/MM_AFNI/AD_post/smwc1tb3516_sinha_stack3d_S002.nii \
tb3891 /home/sf674/MM_AFNI/AD_post/smwc1tb3891_sinha_stack3d_S003.nii \
tb3971 /home/sf674/MM_AFNI/AD_post/smwc1tb3971_sinha_stack3d_S002.nii \
tb4080 /home/sf674/MM_AFNI/AD_post/smwc1tb4080_sinha_stack3d_S002.nii \
tb4278 /home/sf674/MM_AFNI/AD_post/smwc1tb4278_sinha_stack3d_S002.nii \
tb4370 /home/sf674/MM_AFNI/AD_post/smwc1tb4370_sinha_stack3d_S002.nii \
tb4806 /home/sf674/MM_AFNI/AD_post/smwc1tb4806_sinha_stack3d_S002.nii \
tb4922 /home/sf674/MM_AFNI/AD_post/smwc1tb4922_sinha_stack3d_S002.nii \
tb4955 /home/sf674/MM_AFNI/AD_post/smwc1tb4955_sinha_stack3d_S002.nii \
tb4966 /home/sf674/MM_AFNI/AD_post/smwc1tb4966_sinha_stack3d_S002.nii \
tb5043 /home/sf674/MM_AFNI/AD_post/smwc1tb5043_sinha_stack3d_S002.nii \
tb5266 /home/sf674/MM_AFNI/AD_post/smwc1tb5266_sinha_stack3d_S002.nii \
tb5298 /home/sf674/MM_AFNI/AD_post/smwc1tb5298_sinha_stack3d_S002.nii \
tb5323 /home/sf674/MM_AFNI/AD_post/smwc1tb5323_sinha_stack3d_S002.nii \
tb5388 /home/sf674/MM_AFNI/AD_post/smwc1tb5388_sinha_stack3d_S002.nii \
