Hi,
I sent an inquiry yesterday but for some reason it did not go through.
Anyway, I am trying it again:
I recently donwloaded FSL both to my Mac with OSX and RedHat 7.3 machines. I
ran the example data set on both computers and they run without any
problems. However, when I run an old data of mine on both machines, the one
on Mac runs smoothly but the same data fails during FEAT analysis on the
RedHat 7.3 machine. The 3D images are converted from a set of images ran
under SPM. They are converted to 4D using avwmerge and merging was checked
with slicer/display. I also checked the headers with avwhd.
I checked all the header infromation, they seem fine on both machines. I
used slicer/display to make sure that they display correctly on both
machines. It actually does motion correction on both machines, so there
should not be a problem with reading the images. I cannot figure out why it
fails during the stats.
It should not be an installation/configuration problem either, since it runs
example fmri data in feeds.
My redhat machine is much faster, has bigger memory and a huge hard drive.
It takes 25-30 minutes on the Mac, so I am certainly inclined to use it on
the linux box.
So, any inputs to this matter will be greatly appreciated.
Thanks,
Tugan Muftuler
Below, I have included the report.log for any clues you might catch.
Actually, every time I run it, I get the following, which seems unusual:
/home/tugan/fsl/bin/contrast_mgr stats design.con
AvwOpen: Error while opening header!: No such file or directory
*********************************
The whole report.log:
Started FEAT at Wed Apr 23 18:39:36 PDT 2003
/bin/mkdir /ric_data1/users/tugan/motor/GG+++.feat
/bin/cp /tmp/feat_TEeG4S.fsf design.fsf
/home/tugan/fsl/bin/feat_model design
Started FEAT at Wed Apr 23 18:39:36 PDT 2003 on amd2.ric.uci.edu
Total original volumes = 88
/home/tugan/fsl/bin/avwroi /ric_data1/users/tugan/motor/GG example_func 44 1
/home/tugan/fsl/bin/betfunc /ric_data1/users/tugan/motor/GG
prefiltered_func_data_bet
/home/tugan/fsl/bin/ip prefiltered_func_data_bet filtered_func_data 10 -s
2.12314225053 -m mask -I 10000 -t 16.6666666667 -1 | grep THRESHOLD | awk '{
print $2 }' -
1000.000000
rm -rf prefiltered_func_data*
/home/tugan/fsl/bin/film_gls -rn stats -sa -ms 5 -sp
/home/tugan/fsl/bin/susan_smooth filtered_func_data design.mat 1000.000000
Log directory is: stats
Loading image...
/home/tugan/fsl/bin/contrast_mgr stats design.con
AvwOpen: Error while opening header!: No such file or directory
Rendering using zmin=2.3 zmax=8
/home/tugan/fsl/bin/tsplot . -f filtered_func_data
Cannot open volume ./stats/pe1.hdr for reading!
mkdir grot; mv *tsplot* grot; mv grot tsplot
mv: cannot stat `*tsplot*': No such file or directory
/bin/mkdir reg
/bin/rm -f example_func.hdr example_func.img
ln -s ../example_func.hdr example_func.hdr
ln -s ../example_func.img example_func.img
/bin/rm -f standard.hdr standard.img
ln -s /home/tugan/fsl/etc/standard/avg152T1_brain.hdr standard.hdr
ln -s /home/tugan/fsl/etc/standard/avg152T1_brain.img standard.img
/home/tugan/fsl/bin/flirt -ref standard -in example_func -out
example_func2standard -omedx example_func2standard.xfm -omat
example_func2standard.mat -cost corratio -dof 6 -schedule
/home/tugan/fsl/etc/flirtsch/xyztrans.sch -searchrx -90 90 -searchry -90 90
-searchrz -90 90 -interp trilinear
/home/tugan/fsl/bin/convert_xfm -matonly -inverse -omat
standard2example_func.mat example_func2standard.mat
/home/tugan/fsl/bin/slicer example_func2standard standard -s 1 -x 0.35 sla
-x 0.45 slb -x 0.55 slc -x 0.65 sld -y 0.35 sle -y 0.45 slf -y 0.55 slg -y
0.65 slh -z 0.35 sli -z 0.45 slj -z 0.55 slk -z 0.65 sll ;
/home/tugan/fsl/bin/convert -colors 100 +append sla slb slc sld sle slf slg
slh sli slj slk sll example_func2standard.gif ; /bin/rm -f sla slb slc sld
sle slf slg slh sli slj slk sll
/bin/rm -f example_func2standard.hdr example_func2standard.img
Finished registration at Wed Apr 23 18:46:07 PDT 2003
Finished FEAT at Wed Apr 23 18:46:07 PDT 2003
To view the FEAT report point your web browser at
/ric_data1/users/tugan/motor/GG+++.feat/report.html
