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Author: Tim Flink (---.vpn.wisc.edu)
Date: 12-07-07 22:00
We recently had some software upgrades in our lab but for various reasons, I am still using an older version of AFNI (2006_12_22_0933). Since these upgrades, I have been seeing an error in my 3dDeconvolve output that I am having a very hard time figuring out.
** WARNING: '-stim_times ##' file '<filename>' has no good entries
Where ## and <filename> are real numbers and filenames. This error shows up 4 times for every subject and its always the same 4 'stim_time's that have errors (each subject has its own set of .1D files, though). The version of AFNI hasn't changed. The 1D files haven't changed, either. The only thing that has changed that I am aware of is a program that we use before 3dDeconvolve in our processing stream and according to the author (someone in the same building. its not part of AFNI), the output from that program should not have changed. All 4 .1D files are are different types of the same thing. I have verified that line endings (unix vs windows) are correct and there are no permission issues. I am also using absolute paths, so that isn't a problem, either.
The strange thing is what I can do to make the errors go away. All of the times in the .1D files that are causing problems are in the 400s. If I change the most significant 4 to a 2 (so 453 -> 253) for any of the times, the error goes away. If I put a '.' in front of the first time, the error goes away. However, if I change the file back to its original state, the error comes back.
Does anyone have ideas as far as what is causing these warnings and what I can do to fix them? I have attached a bash script containing the 3dDeconvolve command that I have been running and one of the .1D files that is causing the Warning message. I have included the 3dDeconvolve command I am running, a sample .1D file that is causing the warning messages and the output log from 3dDeconvolve at the end of this post.
Thanks,
Tim Flink
University of Wisconsin-Madison
/-------------- Start Error Log -------------- /
++ Program 3dDeconvolve: AFNI version=AFNI_2006_12_22_0933 [32-bit]
++ Authored by: B. Douglas Ward, et al.
++ Auto-catenated datasets start at: 0 370 745 1120
++ -stim_times 1 using local times
++ -stim_times 2 using local times
++ -stim_times 3 using local times
++ -stim_times 4 using local times
++ -stim_times 5 using local times
++ -stim_times 6 using local times
++ -stim_times 7 using local times
++ -stim_times 8 using local times
++ -stim_times 9 using local times
++ -stim_times 10 using local times
++ -stim_times 11 using local times
++ -stim_times 12 using local times
++ -stim_times 13 using local times
++ -stim_times 14 using local times
++ -stim_times 15 using local times
++ -stim_times 16 using local times
++ -stim_times 17 using local times
++ -stim_times 18 using local times
++ -stim_times 19 using local times
++ -stim_times 20 using local times
++ -stim_times 21 using local times
++ -stim_times 22 using local times
++ -stim_times 23 using local times
++ -stim_times 24 using local times
++ -stim_times 25 using local times
++ -stim_times 26 using local times
++ -stim_times 27 using local times
++ -stim_times 28 using local times
++ -stim_times 29 using local times
++ -stim_times 30 using local times
++ -stim_times 31 using local times
++ -stim_times 32 using local times
++ -stim_times 33 using local times
++ -stim_times 34 using local times
++ -stim_times 35 using local times
++ -stim_times 36 using local times
++ -stim_times 37 using local times
++ -stim_times 38 using local times
++ -stim_times 39 using local times
++ -stim_times 40 using local times
++ -stim_times 41 using local times
++ -stim_times 42 using local times
++ -stim_times 43 using local times
++ -stim_times 44 using local times
++ -stim_times 45 using local times
++ -stim_times 46 using local times
++ -stim_times 47 using local times
++ -stim_times 48 using local times
++ -stim_times 49 using local times
++ -stim_times 50 using local times
++ -stim_times 51 using local times
++ -stim_times 52 using local times
++ -stim_times 53 using local times
++ -stim_times 54 using local times
++ -stim_times 55 using local times
++ -stim_times 56 using local times
++ -stim_times 57 using local times
** WARNING: '-stim_times 57' file '/study/snkphob/DATA/MS_Data/fMRI/processed/timepoints/MS18/MS18_Anx_D_rate_vid_fix_type1.1D' has no good entries
++ -stim_times 58 using local times
++ -stim_times 59 using local times
++ -stim_times 60 using local times
++ -stim_times 61 using local times
++ -stim_times 62 using local times
++ -stim_times 63 using local times
** WARNING: '-stim_times 63' file '/study/snkphob/DATA/MS_Data/fMRI/processed/timepoints/MS18/MS18_Anx_D_rate_vid_fix_type2.1D' has no good entries
++ -stim_times 64 using local times
++ -stim_times 65 using local times
++ -stim_times 66 using local times
++ -stim_times 67 using local times
++ -stim_times 68 using local times
++ -stim_times 69 using local times
** WARNING: '-stim_times 69' file '/study/snkphob/DATA/MS_Data/fMRI/processed/timepoints/MS18/MS18_Anx_D_rate_vid_fix_type3.1D' has no good entries
++ -stim_times 70 using local times
++ -stim_times 71 using local times
++ -stim_times 72 using local times
++ -stim_times 73 using local times
++ -stim_times 74 using local times
++ -stim_times 75 using local times
** WARNING: '-stim_times 75' file '/study/snkphob/DATA/MS_Data/fMRI/processed/timepoints/MS18/MS18_Anx_D_rate_vid_fix_type4.1D' has no good entries
++ -stim_times 76 using local times
++ -stim_times 77 using local times
++ -stim_times 78 using local times
GLT matrix from 'SYM: +D_c_vid_rate_incorr_type1 +D_nc_vid_rate_incorr_type1 +D_nc_vid_rate_corr_type1 -F_c_vid_rate_incorr_type1 -F_nc_vid_rate_incorr_type1 -F_nc_vid_rate_corr_type1':
0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 -1 1 0 0 0 0 0 0 0 0 0 0 -1 1 0 -1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
GLT matrix from 'SYM: +S_c_vid_rate_incorr_type1 +S_nc_vid_rate_incorr_type1 +S_nc_vid_rate_corr_type1 -F_c_vid_rate_incorr_type1 -F_nc_vid_rate_incorr_type1 -F_nc_vid_rate_corr_type1':
0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 -1 0 0 0 0 0 0 0 0 0 0 1 -1 0 1 -1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
GLT matrix from 'SYM: +D_c_vid_rate_incorr_type1 +D_nc_vid_rate_incorr_type1 +D_nc_vid_rate_corr_type1 -S_c_vid_rate_incorr_type1 -S_nc_vid_rate_incorr_type1 -S_nc_vid_rate_corr_type1':
0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 -1 0 1 0 0 0 0 0 0 0 0 0 -1 0 1 -1 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
GLT matrix from 'SYM: +D_c_vid_rate_incorr_type2 +D_nc_vid_rate_incorr_type2 +D_nc_vid_rate_corr_type2 -F_c_vid_rate_incorr_type2 -F_nc_vid_rate_incorr_type2 -F_nc_vid_rate_corr_type2':
0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 -1 1 0 0 0 0 0 0 0 0 0 0 -1 1 0 -1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
GLT matrix from 'SYM: +S_c_vid_rate_incorr_type2 +S_nc_vid_rate_incorr_type2 +S_nc_vid_rate_corr_type2 -F_c_vid_rate_incorr_type2 -F_nc_vid_rate_incorr_type2 -F_nc_vid_rate_corr_type2':
0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 -1 0 0 0 0 0 0 0 0 0 0 1 -1 0 1 -1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
GLT matrix from 'SYM: +D_c_vid_rate_incorr_type2 +D_nc_vid_rate_incorr_type2 +D_nc_vid_rate_corr_type2 -S_c_vid_rate_incorr_type2 -S_nc_vid_rate_incorr_type2 -S_nc_vid_rate_corr_type2':
0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 -1 0 1 0 0 0 0 0 0 0 0 0 -1 0 1 -1 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
++ Wrote matrix image to file /study/snkphob/DATA/MS_Data/fMRI/processed/subject18/er/MS18_GAM_vr_fm/MS18_GAM_vr_fm_design.jpg
** WARNING: Problems with the X matrix columns:
* Column 76 is all zeros: SVD on => will be kept
* Column 82 is all zeros: SVD on => will be kept
* Column 88 is all zeros: SVD on => will be kept
* Column 94 is all zeros: SVD on => will be kept
** WARNING: Largest singular value=5.83523; 4 are less than cutoff=5.83523e-08
Implies strong collinearity in the input regressors
++ Matrix singular values: -2.19188e-16 -9.01772e-17 1.45229e-16 3.19758e-16 0.0114653 0.0156238 0.0176183 0.0319985 0.0430653 0.0571516 0.0623472 0.0945573 0.12556 0.150853 0.259408 0.274661 0.303576 0.343073 0.347146 0.358608 0.389691 0.412148 0.481028 0.485721 0.507944 0.541275 0.553124 0.569825 0.576825 0.582692 0.583463 0.590293 0.596197 0.627199 0.657425 0.672469 0.682276 0.730859 0.763136 0.773481 0.789194 0.790358 0.805479 0.85646 0.86397 0.869616 0.872119 0.881617 0.887863 0.891444 0.895148 0.906488 0.916656 0.920068 0.924481 0.942821 0.947182 0.948811 0.955515 0.960662 0.969396 0.978192 0.982147 0.992672 0.998543 1.00218 1.0049 1.0059 1.00801 1.01322 1.017 1.02316 1.02797 1.04663 1.05913 1.06549 1.07208 1.0865 1.10913 1.11754 1.13111 1.15002 1.15349 1.18262 1.19249 1.22701 1.25001 1.27357 1.30775 1.34853 1.37279 1.38743 1.43366 1.45912 1.48513 1.50185 1.5329 1.55172 1.62621 1.66589 1.68738 1.73049 1.82949 1.83715 1.95116 2.11966 2.29883 2.60886 4.18892 5.83523
++ (1493x110) Matrix condition [X]: 22.5599
++ Matrix inverse average error = 0.000330579
++ Wrote matrix image to file /study/snkphob/DATA/MS_Data/fMRI/processed/subject18/er/MS18_GAM_vr_fm/MS18_GAM_vr_fm_design_psinv.jpg
++ Matrix setup time = 205.40 s
++ Calculations starting; elapsed time=230.038
++ voxel loop:0123456789.0123456789.0123456789.0123456789.0123456789.
++ Calculations finished; elapsed time=16614.623
++ Wrote 3D+time dataset into /study/snkphob/DATA/MS_Data/fMRI/processed/subject18/er/MS18_GAM_vr_fm/fit_MS18_GAM_CUE_vr_fm+orig.BRIK
++ Wrote 3D+time dataset into /study/snkphob/DATA/MS_Data/fMRI/processed/subject18/er/MS18_GAM_vr_fm/err_MS18_GAM_CUE_vr_fm+orig.BRIK
++ #Flops=7.11611e+12 Average Dot Product=195.532
++ Wrote bucket dataset into /study/snkphob/DATA/MS_Data/fMRI/processed/subject18/er/MS18_GAM_vr_fm/MS18_GAM_vr_fm_bucket+orig.BRIK
/-------------- End Error Log -------------- /
/-------------- Start .1D Sample -------------- /
432.132200 *
* *
406.106000 *
* *
/-------------- End .1D Sample -------------- /
/-------------- Start .3dDeconvolve Script -------------- /
#declare the flag variables
logFileName= subj= prefix=
while getopts :hs:n:p: opt
do
case $opt in
h) echo "Test Deconvolve Script"
echo "This script runs the deconvolve command for the snkphob study."
echo "Default subject is 18. Logs are stored in ./logs."
echo "prefix is the directory from which you are starting. This is required"
echo "Parts of this script use up LOTS of CPU and memory. Consider \"nicing\" it"
echo "to disrupt other users less (add \"nice -n 15\" without quotes before sh)."
echo ""
echo "Usage: sh $0 [-s subject#] [-n logFileName] -p prefix"
echo ""
exit 0
;;
n) logFileName=$OPTARG
;;
s) subj=$OPTARG
;;
p) prefix=$OPTARG
;;
'?') echo "$0: invalid option -$OPTARG" >&2
exit 1
;;
esac
done
shift $((OPTIND - 1))
#check to make sure that a prefix was entered
if ! [ $prefix ]
then
echo "You must enter a prefix. exiting...."
exit 0
fi
#check for subject number and logfile name. use defaults if needed
if ! [ $subj ]
then
subj=18
fi
if ! [ $logFileName ]
then
logFileName="MS${subj}_deconvolveTest.log"
fi
# figures out if the subject was fieldmap corrected and adjusts the input files as
# needed
if [ -e ${prefix}/er/run_1/run_1_vr_fm_psc+orig.HEAD ]
then
fmPostfix="fm_psc"
echo "Using FM Files"
else
fmPostfix="psc"
echo "Not using FM Files"
fi
echo ""
echo "Starting deconvolution for Subject ${subj}"
echo "Processing started at: "`date`
echo ""
3dDeconvolve \
-input \
${prefix}/er/run_1/run_1_vr_${fmPostfix}+orig.HEAD \
${prefix}/er/run_2/run_2_vr_${fmPostfix}+orig.HEAD \
${prefix}/er/run_3/run_3_vr_${fmPostfix}+orig.HEAD \
${prefix}/er/run_4/run_4_vr_${fmPostfix}+orig.HEAD \
-polort 4 \
-basis_normall 1 \
-num_stimts 84 \
-stim_label 1 S_c_vid_rate_incorr_type1 \
-stim_times 1 ${prefix}/timepoints/MS${subj}_S_c_vid_rate_incorr_type1.1D 'GAM' \
-stim_label 2 F_c_vid_rate_incorr_type1 \
-stim_times 2 ${prefix}/timepoints/MS${subj}_F_c_vid_rate_incorr_type1.1D 'GAM' \
-stim_label 3 D_c_vid_rate_incorr_type1 \
-stim_times 3 ${prefix}/timepoints/MS${subj}_D_c_vid_rate_incorr_type1.1D 'GAM' \
-stim_label 4 S_c_fix_fix_corr_type1 \
-stim_times 4 ${prefix}/timepoints/MS${subj}_S_c_fix_fix_corr_type1.1D 'GAM' \
-stim_label 5 F_c_fix_fix_corr_type1 \
-stim_times 5 ${prefix}/timepoints/MS${subj}_F_c_fix_fix_corr_type1.1D 'GAM' \
-stim_label 6 D_c_fix_fix_corr_type1 \
-stim_times 6 ${prefix}/timepoints/MS${subj}_D_c_fix_fix_corr_type1.1D 'GAM' \
-stim_label 7 S_nc_fix_fix_incorr_type1 \
-stim_times 7 ${prefix}/timepoints/MS${subj}_S_nc_fix_fix_incorr_type1.1D 'GAM' \
-stim_label 8 F_nc_fix_fix_incorr_type1 \
-stim_times 8 ${prefix}/timepoints/MS${subj}_F_nc_fix_fix_incorr_type1.1D 'GAM' \
-stim_label 9 D_nc_fix_fix_incorr_type1 \
-stim_times 9 ${prefix}/timepoints/MS${subj}_D_nc_fix_fix_incorr_type1.1D 'GAM' \
-stim_label 10 S_nc_fix_fix_corr_type1 \
-stim_times 10 ${prefix}/timepoints/MS${subj}_S_nc_fix_fix_corr_type1.1D 'GAM' \
-stim_label 11 F_nc_fix_fix_corr_type1 \
-stim_times 11 ${prefix}/timepoints/MS${subj}_F_nc_fix_fix_corr_type1.1D 'GAM' \
-stim_label 12 D_nc_fix_fix_corr_type1 \
-stim_times 12 ${prefix}/timepoints/MS${subj}_D_nc_fix_fix_corr_type1.1D 'GAM' \
-stim_label 13 S_nc_vid_rate_incorr_type1 \
-stim_times 13 ${prefix}/timepoints/MS${subj}_S_nc_vid_rate_incorr_type1.1D 'GAM' \
-stim_label 14 F_nc_vid_rate_incorr_type1 \
-stim_times 14 ${prefix}/timepoints/MS${subj}_F_nc_vid_rate_incorr_type1.1D 'GAM' \
-stim_label 15 D_nc_vid_rate_incorr_type1 \
-stim_times 15 ${prefix}/timepoints/MS${subj}_D_nc_vid_rate_incorr_type1.1D 'GAM' \
-stim_label 16 S_nc_vid_rate_corr_type1 \
-stim_times 16 ${prefix}/timepoints/MS${subj}_S_nc_vid_rate_corr_type1.1D 'GAM' \
-stim_label 17 F_nc_vid_rate_corr_type1 \
-stim_times 17 ${prefix}/timepoints/MS${subj}_F_nc_vid_rate_corr_type1.1D 'GAM' \
-stim_label 18 D_nc_vid_rate_corr_type1 \
-stim_times 18 ${prefix}/timepoints/MS${subj}_D_nc_vid_rate_corr_type1.1D 'GAM' \
-stim_label 19 S_c_vid_rate_incorr_type2 \
-stim_times 19 ${prefix}/timepoints/MS${subj}_S_c_vid_rate_incorr_type2.1D 'GAM' \
-stim_label 20 F_c_vid_rate_incorr_type2 \
-stim_times 20 ${prefix}/timepoints/MS${subj}_F_c_vid_rate_incorr_type2.1D 'GAM' \
-stim_label 21 D_c_vid_rate_incorr_type2 \
-stim_times 21 ${prefix}/timepoints/MS${subj}_D_c_vid_rate_incorr_type2.1D 'GAM' \
-stim_label 22 S_c_fix_fix_corr_type2 \
-stim_times 22 ${prefix}/timepoints/MS${subj}_S_c_fix_fix_corr_type2.1D 'GAM' \
-stim_label 23 F_c_fix_fix_corr_type2 \
-stim_times 23 ${prefix}/timepoints/MS${subj}_F_c_fix_fix_corr_type2.1D 'GAM' \
-stim_label 24 D_c_fix_fix_corr_type2 \
-stim_times 24 ${prefix}/timepoints/MS${subj}_D_c_fix_fix_corr_type2.1D 'GAM' \
-stim_label 25 S_nc_fix_fix_incorr_type2 \
-stim_times 25 ${prefix}/timepoints/MS${subj}_S_nc_fix_fix_incorr_type2.1D 'GAM' \
-stim_label 26 F_nc_fix_fix_incorr_type2 \
-stim_times 26 ${prefix}/timepoints/MS${subj}_F_nc_fix_fix_incorr_type2.1D 'GAM' \
-stim_label 27 D_nc_fix_fix_incorr_type2 \
-stim_times 27 ${prefix}/timepoints/MS${subj}_D_nc_fix_fix_incorr_type2.1D 'GAM' \
-stim_label 28 S_nc_fix_fix_corr_type2 \
-stim_times 28 ${prefix}/timepoints/MS${subj}_S_nc_fix_fix_corr_type2.1D 'GAM' \
-stim_label 29 F_nc_fix_fix_corr_type2 \
-stim_times 29 ${prefix}/timepoints/MS${subj}_F_nc_fix_fix_corr_type2.1D 'GAM' \
-stim_label 30 D_nc_fix_fix_corr_type2 \
-stim_times 30 ${prefix}/timepoints/MS${subj}_D_nc_fix_fix_corr_type2.1D 'GAM' \
-stim_label 31 S_nc_vid_rate_incorr_type2 \
-stim_times 31 ${prefix}/timepoints/MS${subj}_S_nc_vid_rate_incorr_type2.1D 'GAM' \
-stim_label 32 F_nc_vid_rate_incorr_type2 \
-stim_times 32 ${prefix}/timepoints/MS${subj}_F_nc_vid_rate_incorr_type2.1D 'GAM' \
-stim_label 33 D_nc_vid_rate_incorr_type2 \
-stim_times 33 ${prefix}/timepoints/MS${subj}_D_nc_vid_rate_incorr_type2.1D 'GAM' \
-stim_label 34 S_nc_vid_rate_corr_type2 \
-stim_times 34 ${prefix}/timepoints/MS${subj}_S_nc_vid_rate_corr_type2.1D 'GAM' \
-stim_label 35 F_nc_vid_rate_corr_type2 \
-stim_times 35 ${prefix}/timepoints/MS${subj}_F_nc_vid_rate_corr_type2.1D 'GAM' \
-stim_label 36 D_nc_vid_rate_corr_type2 \
-stim_times 36 ${prefix}/timepoints/MS${subj}_D_nc_vid_rate_corr_type2.1D 'GAM' \
-stim_label 37 S_c_vid_rate_incorr_type3 \
-stim_times 37 ${prefix}/timepoints/MS${subj}_S_c_vid_rate_incorr_type3.1D 'GAM' \
-stim_label 38 F_c_vid_rate_incorr_type3 \
-stim_times 38 ${prefix}/timepoints/MS${subj}_F_c_vid_rate_incorr_type3.1D 'GAM' \
-stim_label 39 D_c_vid_rate_incorr_type3 \
-stim_times 39 ${prefix}/timepoints/MS${subj}_D_c_vid_rate_incorr_type3.1D 'GAM' \
-stim_label 40 S_c_fix_fix_corr_type3 \
-stim_times 40 ${prefix}/timepoints/MS${subj}_S_c_fix_fix_corr_type3.1D 'GAM' \
-stim_label 41 F_c_fix_fix_corr_type3 \
-stim_times 41 ${prefix}/timepoints/MS${subj}_F_c_fix_fix_corr_type3.1D 'GAM' \
-stim_label 42 D_c_fix_fix_corr_type3 \
-stim_times 42 ${prefix}/timepoints/MS${subj}_D_c_fix_fix_corr_type3.1D 'GAM' \
-stim_label 43 S_nc_fix_fix_incorr_type3 \
-stim_times 43 ${prefix}/timepoints/MS${subj}_S_nc_fix_fix_incorr_type3.1D 'GAM' \
-stim_label 44 F_nc_fix_fix_incorr_type3 \
-stim_times 44 ${prefix}/timepoints/MS${subj}_F_nc_fix_fix_incorr_type3.1D 'GAM' \
-stim_label 45 D_nc_fix_fix_incorr_type3 \
-stim_times 45 ${prefix}/timepoints/MS${subj}_D_nc_fix_fix_incorr_type3.1D 'GAM' \
-stim_label 46 S_nc_fix_fix_corr_type3 \
-stim_times 46 ${prefix}/timepoints/MS${subj}_S_nc_fix_fix_corr_type3.1D 'GAM' \
-stim_label 47 F_nc_fix_fix_corr_type3 \
-stim_times 47 ${prefix}/timepoints/MS${subj}_F_nc_fix_fix_corr_type3.1D 'GAM' \
-stim_label 48 D_nc_fix_fix_corr_type3 \
-stim_times 48 ${prefix}/timepoints/MS${subj}_D_nc_fix_fix_corr_type3.1D 'GAM' \
-stim_label 49 S_nc_vid_rate_incorr_type3 \
-stim_times 49 ${prefix}/timepoints/MS${subj}_S_nc_vid_rate_incorr_type3.1D 'GAM' \
-stim_label 50 F_nc_vid_rate_incorr_type3 \
-stim_times 50 ${prefix}/timepoints/MS${subj}_F_nc_vid_rate_incorr_type3.1D 'GAM' \
-stim_label 51 D_nc_vid_rate_incorr_type3 \
-stim_times 51 ${prefix}/timepoints/MS${subj}_D_nc_vid_rate_incorr_type3.1D 'GAM' \
-stim_label 52 S_nc_vid_rate_corr_type3 \
-stim_times 52 ${prefix}/timepoints/MS${subj}_S_nc_vid_rate_corr_type3.1D 'GAM' \
-stim_label 53 F_nc_vid_rate_corr_type3 \
-stim_times 53 ${prefix}/timepoints/MS${subj}_F_nc_vid_rate_corr_type3.1D 'GAM' \
-stim_label 54 D_nc_vid_rate_corr_type3 \
-stim_times 54 ${prefix}/timepoints/MS${subj}_D_nc_vid_rate_corr_type3.1D 'GAM' \
-stim_label 55 S_anx_rate_vid_fix_type1 \
-stim_times 55 ${prefix}/timepoints/MS${subj}_Anx_S_rate_vid_fix_type1.1D 'GAM' \
-stim_label 56 D_anx_rate_vid_fix_type1 \
-stim_times 56 ${prefix}/timepoints/MS${subj}_Anx_F_rate_vid_fix_type1.1D 'GAM' \
-stim_label 57 F_anx_rate_vid_fix_type1 \
-stim_times 57 ${prefix}/timepoints/MS${subj}_Anx_D_rate_vid_fix_type1.1D 'GAM' \
-stim_label 58 S_anx_rate_fix_fix_type1 \
-stim_times 58 ${prefix}/timepoints/MS${subj}_Anx_S_rate_fix_fix_type1.1D 'GAM' \
-stim_label 59 D_anx_rate_fix_fix_type1 \
-stim_times 59 ${prefix}/timepoints/MS${subj}_Anx_F_rate_fix_fix_type1.1D 'GAM' \
-stim_label 60 F_anx_rate_fix_fix_type1 \
-stim_times 60 ${prefix}/timepoints/MS${subj}_Anx_D_rate_fix_fix_type1.1D 'GAM' \
-stim_label 61 S_anx_rate_vid_fix_type2 \
-stim_times 61 ${prefix}/timepoints/MS${subj}_Anx_S_rate_vid_fix_type2.1D 'GAM' \
-stim_label 62 D_anx_rate_vid_fix_type2 \
-stim_times 62 ${prefix}/timepoints/MS${subj}_Anx_F_rate_vid_fix_type2.1D 'GAM' \
-stim_label 63 F_anx_rate_vid_fix_type2 \
-stim_times 63 ${prefix}/timepoints/MS${subj}_Anx_D_rate_vid_fix_type2.1D 'GAM' \
-stim_label 64 S_anx_rate_fix_fix_type2 \
-stim_times 64 ${prefix}/timepoints/MS${subj}_Anx_S_rate_fix_fix_type2.1D 'GAM' \
-stim_label 65 D_anx_rate_fix_fix_type2 \
-stim_times 65 ${prefix}/timepoints/MS${subj}_Anx_F_rate_fix_fix_type2.1D 'GAM' \
-stim_label 66 F_anx_rate_fix_fix_type2 \
-stim_times 66 ${prefix}/timepoints/MS${subj}_Anx_D_rate_fix_fix_type2.1D 'GAM' \
-stim_label 67 S_anx_rate_vid_fix_type3 \
-stim_times 67 ${prefix}/timepoints/MS${subj}_Anx_S_rate_vid_fix_type3.1D 'GAM' \
-stim_label 68 D_anx_rate_vid_fix_type3 \
-stim_times 68 ${prefix}/timepoints/MS${subj}_Anx_F_rate_vid_fix_type3.1D 'GAM' \
-stim_label 69 F_anx_rate_vid_fix_type3 \
-stim_times 69 ${prefix}/timepoints/MS${subj}_Anx_D_rate_vid_fix_type3.1D 'GAM' \
-stim_label 70 S_anx_rate_fix_fix_type3 \
-stim_times 70 ${prefix}/timepoints/MS${subj}_Anx_S_rate_fix_fix_type3.1D 'GAM' \
-stim_label 71 D_anx_rate_fix_fix_type3 \
-stim_times 71 ${prefix}/timepoints/MS${subj}_Anx_F_rate_fix_fix_type3.1D 'GAM' \
-stim_label 72 F_anx_rate_fix_fix_type3 \
-stim_times 72 ${prefix}/timepoints/MS${subj}_Anx_D_rate_fix_fix_type3.1D 'GAM' \
-stim_label 73 S_anx_rate_vid_fix_type4 \
-stim_times 73 ${prefix}/timepoints/MS${subj}_Anx_S_rate_vid_fix_type4.1D 'GAM' \
-stim_label 74 D_anx_rate_vid_fix_type4 \
-stim_times 74 ${prefix}/timepoints/MS${subj}_Anx_F_rate_vid_fix_type4.1D 'GAM' \
-stim_label 75 F_anx_rate_vid_fix_type4 \
-stim_times 75 ${prefix}/timepoints/MS${subj}_Anx_D_rate_vid_fix_type4.1D 'GAM' \
-stim_label 76 S_anx_rate_fix_fix_type4 \
-stim_times 76 ${prefix}/timepoints/MS${subj}_Anx_S_rate_fix_fix_type4.1D 'GAM' \
-stim_label 77 D_anx_rate_fix_fix_type4 \
-stim_times 77 ${prefix}/timepoints/MS${subj}_Anx_F_rate_fix_fix_type4.1D 'GAM' \
-stim_label 78 F_anx_rate_fix_fix_type4 \
-stim_times 78 ${prefix}/timepoints/MS${subj}_Anx_D_rate_fix_fix_type4.1D 'GAM' \
-stim_label 79 roll -stim_file 79 ${prefix}/er/run_4/mot_run_all[1] -stim_base 79 -stim_maxlag 79 1 \
-stim_label 80 pitch -stim_file 80 ${prefix}/er/run_4/mot_run_all[2] -stim_base 80 -stim_maxlag 80 1 \
-stim_label 81 yaw -stim_file 81 ${prefix}/er/run_4/mot_run_all[3] -stim_base 81 -stim_maxlag 81 1 \
-stim_label 82 Zmot -stim_file 82 ${prefix}/er/run_4/mot_run_all[4] -stim_base 82 -stim_maxlag 82 1 \
-stim_label 83 Xmot -stim_file 83 ${prefix}/er/run_4/mot_run_all[5] -stim_base 83 -stim_maxlag 83 1 \
-stim_label 84 Ymot -stim_file 84 ${prefix}/er/run_4/mot_run_all[6] -stim_base 84 -stim_maxlag 84 1 \
-num_glt 6 \
-glt_label 1 cue_disgust_minus_fish \
-gltsym 'SYM: +D_c_vid_rate_incorr_type1 +D_nc_vid_rate_incorr_type1 +D_nc_vid_rate_corr_type1 -F_c_vid_rate_incorr_type1 -F_nc_vid_rate_incorr_type1 -F_nc_vid_rate_corr_type1' \
-glt_label 2 cue_snake_minus_fish \
-gltsym 'SYM: +S_c_vid_rate_incorr_type1 +S_nc_vid_rate_incorr_type1 +S_nc_vid_rate_corr_type1 -F_c_vid_rate_incorr_type1 -F_nc_vid_rate_incorr_type1 -F_nc_vid_rate_corr_type1' \
-glt_label 3 cue_disgust_minus_snake \
-gltsym 'SYM: +D_c_vid_rate_incorr_type1 +D_nc_vid_rate_incorr_type1 +D_nc_vid_rate_corr_type1 -S_c_vid_rate_incorr_type1 -S_nc_vid_rate_incorr_type1 -S_nc_vid_rate_corr_type1' \
-glt_label 4 vid_disgust_minus_fish \
-gltsym 'SYM: +D_c_vid_rate_incorr_type2 +D_nc_vid_rate_incorr_type2 +D_nc_vid_rate_corr_type2 -F_c_vid_rate_incorr_type2 -F_nc_vid_rate_incorr_type2 -F_nc_vid_rate_corr_type2' \
-glt_label 5 vid_snake_minus_fish \
-gltsym 'SYM: +S_c_vid_rate_incorr_type2 +S_nc_vid_rate_incorr_type2 +S_nc_vid_rate_corr_type2 -F_c_vid_rate_incorr_type2 -F_nc_vid_rate_incorr_type2 -F_nc_vid_rate_corr_type2' \
-glt_label 6 vid_disgust_All_snake \
-gltsym 'SYM: +D_c_vid_rate_incorr_type2 +D_nc_vid_rate_incorr_type2 +D_nc_vid_rate_corr_type2 -S_c_vid_rate_incorr_type2 -S_nc_vid_rate_incorr_type2 -S_nc_vid_rate_corr_type2' \
&> ${prefix}/logs/${logFileName}
#-fitts ${prefix}/er/MS${subj}_GAM_${fmPostfix}/fit_MS${subj}_GAM_CUE_${fmPostfix} \
#-errts ${prefix}/er/MS${subj}_GAM_${fmPostfix}/err_MS${subj}_GAM_CUE_${fmPostfix} \
#-fout \
#-tout \
#-bucket ${prefix}/er/MS${subj}_GAM_${fmPostfix}/MS${subj}_GAM_${fmPostfix}_bucket \
#-xjpeg ${prefix}/er/MS${subj}_GAM_${fmPostfix}/MS${subj}_GAM_${fmPostfix}_design.jpg
/-------------- End 3dDeconvolve Script -------------- /
|
|
  |
3dDeconvolve Warning new |
|
Tim Flink |
12-07-07 22:00 |
|
rick reynolds |
12-07-07 23:31 |
|
Tim Flink |
12-08-07 00:49 |
|
rick reynolds |
12-08-07 10:58 |
|
bob cox |
12-10-07 10:36 |
