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<h2>Progress Report / Log</h2>
Started at Tue Aug 21 10:42:05 CEST 2012<p>
Main script<br><pre>
/bin/cp /tmp/feat_7n9rF0.fsf design.fsf
mkdir .files;cp /usr/share/fsl/4.1/doc/fsl.css .files;ln -s /usr/share/fsl/4.1/doc/images .files/images
/usr/share/fsl/4.1/bin/fsl_sub -T 28 -l logs -N feat2_pre /usr/share/fsl/4.1/bin/feat /data1/pilots/dstoffers/test.ica/design.fsf -D /data1/pilots/dstoffers/test.ica -I 1 -prestats
76910
</pre><hr>Prestats<br><pre>
/usr/share/fsl/4.1/bin/fslmaths /data1/projects/pfbuur/data/7T/amyg/s01/s01_amyg_7T_run1 prefiltered_func_data -odt float
Total original volumes = 280
/usr/share/fsl/4.1/bin/fslroi prefiltered_func_data example_func 140 1
/usr/share/fsl/4.1/bin/mcflirt -in prefiltered_func_data -out prefiltered_func_data_mcf -mats -plots -refvol 140 -rmsrel -rmsabs
refnum = 140
Original_refvol = 140
/bin/mkdir -p mc ; /bin/mv -f prefiltered_func_data_mcf.mat prefiltered_func_data_mcf.par prefiltered_func_data_mcf_abs.rms prefiltered_func_data_mcf_abs_mean.rms prefiltered_func_data_mcf_rel.rms prefiltered_func_data_mcf_rel_mean.rms mc
/usr/share/fsl/4.1/bin/fsl_tsplot -i prefiltered_func_data_mcf.par -t 'MCFLIRT estimated rotations (radians)' -u 1 --start=1 --finish=3 -a x,y,z -w 640 -h 144 -o rot.png
/usr/share/fsl/4.1/bin/fsl_tsplot -i prefiltered_func_data_mcf.par -t 'MCFLIRT estimated translations (mm)' -u 1 --start=4 --finish=6 -a x,y,z -w 640 -h 144 -o trans.png
/usr/share/fsl/4.1/bin/fsl_tsplot -i prefiltered_func_data_mcf_abs.rms,prefiltered_func_data_mcf_rel.rms -t 'MCFLIRT estimated mean displacement (mm)' -u 1 -w 640 -h 144 -a absolute,relative -o disp.png
/usr/share/fsl/4.1/bin/fslstats prefiltered_func_data_mcf -p 2 -p 98
0.000000 5484927.500000
/usr/share/fsl/4.1/bin/fslmaths prefiltered_func_data_mcf -thr 548492.75 -Tmin -bin mask -odt char
/usr/share/fsl/4.1/bin/fslstats prefiltered_func_data_mcf -k mask -p 50
2764102.750000
/usr/share/fsl/4.1/bin/fslmaths mask -dilF mask
/usr/share/fsl/4.1/bin/fslmaths prefiltered_func_data_mcf -mas mask prefiltered_func_data_thresh
/usr/share/fsl/4.1/bin/fslmaths prefiltered_func_data_thresh -Tmean mean_func
/usr/share/fsl/4.1/bin/susan prefiltered_func_data_thresh 2073077.0625 2.12314225053 3 1 1 mean_func 2073077.0625 prefiltered_func_data_smooth
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