Progress Report / Log

Started at Mon May 18 12:28:44 EDT 2009


ln -s ../.files .files

Higher-level stats

cat ../design.lcon | awk '{ print  }' > design.lcon
/usr/pubsw/packages/fsl/4.1.2/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=2.000000 

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=2
ngs=1
nvoxels=317978
Running:
nmaskvoxels=317978
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Saving results

Log directory was: stats

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

/usr/pubsw/packages/fsl/4.1.2/bin/smoothest -d 1 -m mask -r stats/res4d > stats/smoothness

Post-stats

/usr/pubsw/packages/fsl/4.1.2/bin/fslmaths stats/zstat1 -mas mask thresh_zstat1

echo 317978 > thresh_zstat1.vol
zstat1: DLH=0.144024 VOLUME=317978 RESELS=35.2604

/usr/pubsw/packages/fsl/4.1.2/bin/cluster -i thresh_zstat1 -c stats/cope1 -t 2.3 -p 0.05 -d 0.144024 --volume=317978 --othresh=thresh_zstat1 -o cluster_mask_zstat1 --connectivity=26 --mm --olmax=lmax_zstat1_std.txt > cluster_zstat1_std.txt

/usr/pubsw/packages/fsl/4.1.2/bin/cluster2html . cluster_zstat1 -std

/usr/pubsw/packages/fsl/4.1.2/bin/fslstats thresh_zstat1 -l 0.0001 -R 2>/dev/null
2.300240 15.260534 
Rendering using zmin=2.300240 zmax=15.260534

/usr/pubsw/packages/fsl/4.1.2/bin/overlay 1 0 example_func -a thresh_zstat1 2.300240 15.260534 rendered_thresh_zstat1

/usr/pubsw/packages/fsl/4.1.2/bin/slicer rendered_thresh_zstat1 -S 2 750 rendered_thresh_zstat1.png

/bin/cp /usr/pubsw/packages/fsl/4.1.2/etc/luts/ramp.gif .ramp.gif

mkdir -p tsplot ; /usr/pubsw/packages/fsl/4.1.2/bin/tsplot . -f filtered_func_data -o tsplot