Progress Report / Log

cp -r ../.files .files

cat ../design.lcon | awk '{ print  }' > design.lcon
/usr/share/fsl/5.0/bin/flameo --cope=filtered_func_data --vc=var_filtered_func_data --dvc=tdof_filtered_func_data --mask=mask --ld=stats --dm=design.mat --cs=design.grp --tc=design.con  --runmode=fe
Log directory is: stats
Setting up:
ntptsing=8.000000 

evs_group=1.000000 

No f contrasts

WARNING: The passed in varcope file, var_filtered_func_data, contains voxels inside the mask with zero (or negative) values. These voxels will be excluded from the analysis.
nevs=1
ntpts=8
ngs=1
nvoxels=93139
Running:
nmaskvoxels=93139
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Saving results

Log directory was: stats

/bin/rm -f stats/zem* stats/zols* stats/mask* ; /bin/mv dof stats

/usr/share/fsl/5.0/bin/smoothest -d 7 -m mask -r stats/res4d > stats/smoothness

/usr/share/fsl/5.0/bin/fslmaths stats/zstat1 -mas mask thresh_zstat1

echo 93139 > thresh_zstat1.vol
zstat1: DLH=0.193579 VOLUME=93139 RESELS=26.047

/usr/share/fsl/5.0/bin/cluster -i thresh_zstat1 -c stats/cope1 -t 3.4 -p 0.05 -d 0.193579 --volume=93139 --othresh=thresh_zstat1 -o cluster_mask_zstat1 --connectivity=26 --mm --olmax=lmax_zstat1_std.txt --scalarname=Z > cluster_zstat1_std.txt

/usr/share/fsl/5.0/bin/cluster2html . cluster_zstat1 -std

/usr/share/fsl/5.0/bin/fslstats thresh_zstat1 -l 0.0001 -R 2>/dev/null
3.417539 4.737302 
Rendering using zmin=3.417539 zmax=4.737302

/usr/share/fsl/5.0/bin/overlay 1 0 example_func -a thresh_zstat1 3.417539 4.737302 rendered_thresh_zstat1

/usr/share/fsl/5.0/bin/slicer rendered_thresh_zstat1 -S 2 750 rendered_thresh_zstat1.png

/bin/cp /usr/share/fsl/5.0/etc/luts/ramp.gif .ramp.gif