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March 26, 2021 04:10PM
Hi AFNI users,

I hope that this message finds you doing well! I have what I hope is a simple question. I am trying to run 3dttest++ including covariates. However, I am getting a fatal error when the script hits the -covariates flag. I've attached my 3dttest++ code, covariates table, and the associated error to this post. If you have any advice on what I may be doing wrong, I would very much appreciate your thoughts!

Thank you so much!

-Katie

3dttest++ code:
3dttest++  -setA setlistA                                    \
             s02 $dirA/NAV_002/NAV_002.results/NAV_002.results.incl-instruc.final/stats.NAV_002_REML+tlrc'[1]' \
             s05 $dirA/NAV_005/NAV_005.results/NAV_005.results.incl-instruc.final/stats.NAV_005_REML+tlrc'[1]' \
             s07 $dirA/NAV_007/NAV_007.results/NAV_007.results.incl-instruc.final/stats.NAV_007_REML+tlrc'[1]' \
             s08 $dirA/NAV_008/NAV_008.results/NAV_008.results.incl-instruc.final/stats.NAV_008_REML+tlrc'[1]' \
             s09 $dirA/NAV_009/NAV_009.results/NAV_009.results.incl-instruc.final/stats.NAV_009_REML+tlrc'[1]' \
             s10 $dirA/NAV_010/NAV_010.results/NAV_010.results.incl-instruc.final/stats.NAV_010_REML+tlrc'[1]' \
             s13 $dirA/NAV_013/NAV_013.results/NAV_013.results.incl-instruc.final/stats.NAV_013_REML+tlrc'[1]' \
             s17 $dirA/NAV_017/NAV_017.results/NAV_017.results.incl-instruc.final/stats.NAV_017_REML+tlrc'[1]' \
             s18 $dirA/NAV_018/NAV_018.results/NAV_018.results.incl-instruc.final/stats.NAV_018_REML+tlrc'[1]' \
             s24 $dirA/NAV_024/NAV_024.results/NAV_024.results.incl-instruc.final/stats.NAV_024_REML+tlrc'[1]' \
             s28 $dirA/NAV_028/NAV_028.results/NAV_028.results.incl-instruc.final/stats.NAV_028_REML+tlrc'[1]' \
             s38 $dirA/NAV_038/NAV_038.results/NAV_038.results.incl-instruc.final/stats.NAV_038_REML+tlrc'[1]' \
             s39 $dirA/NAV_039/NAV_039.results/NAV_039.results.incl-instruc.final/stats.NAV_039_REML+tlrc'[1]' \
             s40 $dirA/NAV_040/NAV_040.results/NAV_040.results.incl-instruc.final/stats.NAV_040_REML+tlrc'[1]' \
             s53 $dirA/NAV_053/NAV_053.results/NAV_053.results.incl-instruc.final/stats.NAV_053_REML+tlrc'[1]' \
             s55 $dirA/NAV_055/NAV_055.results/NAV_055.results.incl-instruc.final/stats.NAV_055_REML+tlrc'[1]' \
             s56 $dirA/NAV_056/NAV_056.results/NAV_056.results.incl-instruc.final/stats.NAV_056_REML+tlrc'[1]' \
             s58 $dirA/NAV_058/NAV_058.results/NAV_058.results.incl-instruc.final/stats.NAV_058_REML+tlrc'[1]' \
             s64 $dirA/NAV_064/NAV_064.results/NAV_064.results.incl-instruc.final/stats.NAV_064_REML+tlrc'[1]' \
             s65 $dirA/NAV_065/NAV_065.results/NAV_065.results.incl-instruc.final/stats.NAV_065_REML+tlrc'[1]' \
             s69 $dirA/NAV_069/NAV_069.results/NAV_069.results.incl-instruc.final/stats.NAV_069_REML+tlrc'[1]' \
             s74 $dirA/NAV_074/NAV_074.results/NAV_074.results.incl-instruc.final/stats.NAV_074_REML+tlrc'[1]' \
          -mask $mask_dset                                  \
	   -covariates COVAR_FILE2.txt -center NONE  \
          -ETAC 16                                          \
          -ETAC_blur 0 3                                  \
          -ETAC_opt NN=2:sid=2:hpow=2:pthr=0.01:name=etac3

Covariates table:
subj age_ixt sex vo2max_raw
s02 63.00 -1 33.45
s05 73.00 -1 24.47
s07 62.00 -1 39.52
s08 60.00 -1 21.18
s09 67.00 1 29.94
s10 71.00 -1 17.68
s13 65.00 -1 30.97
s17 70.00 -1 20.21
s18 60.00 -1 24.49
s24 69.00 -1 33.47
s28 65.00 1 36.87
s38 73.00 1 40.99
s39 66.00 -1 35.84
s40 60.00 -1 35.21
s53 70.00 -1 27.00
s55 63.00 -1 30.59
s56 76.00 -1 35.91
s58 73.00 -1 23.44
s64 71.00 -1 29.72
s65 80.00 1 30.93
s69 62.00 1 40.52
s74 70.00 1 33.92

And associated error:
++ 3dttest++: AFNI version=AFNI_19.1.00 (Apr  5 2019) [64-bit]
++ Authored by: Zhark++
++ option -setA :: processing as LONG form (label label dset label dset ...)
++ have 22 volumes corresponding to option '-setA'
++ 568795 voxels in -mask dataset
[7m** ERROR:[0m Table: can't open file
[7m** ERROR:[0m Can't read table from -covariates file 'COVAR_FILE2.txt'
[7m** ERROR:[0m Try re-running this program with the extra option -DAFNI_DEBUG_TABLE=YES
[7m** FATAL ERROR:[0m Can't continue after the above error!
Subject Author Posted

3dttest++ fatal error - covariate table

klkern March 26, 2021 04:10PM



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