Hi,
I am experimenting with Xgrid and simple bash based ways of
parallelization using fsl_sub. However, I run into a problem with the
feeds suite on 4.1.7:
Starting FEAT at Fri Mar 4 18:15:19 PST 2011
checking error on filtered functional data:
% error = 0.13
checking error on raw Z stat images:
% error = 0.3
% error = 0.21
% error = 0.27
checking error on thresholded Z stat images:
% error = 0.39
% error = 0.34
% error = 0.37
checking error on registration images:
% error = 0.0
No output image created
Warning - test failed!
checking error on position of largest cluster of Talairached zfstat1:
couldn't open
"/................./feeds/results/fmri.feat/cluster_zfstat1_std.txt": no
such file or directory
while executing
"open ${FEEDSDIR}/results/fmri.feat/cluster_zfstat1_std.txt r "
invoked from within
"if { $feeds(feat) } {
puts "\nStarting FEAT at [ exec date ]"
# fix FEAT setup file to use FEEDSDIR and FSLDIR
fsl:exec "cp ${FEEDSDIR}/data/fmri.fe..."
(file "./RUN" line 285)
Here is my log feat4_post:
"mkdir -p tsplot ; /usr/local/fsl/bin/tsplot . -f filtered_func_data -o
tsplot
zstat1: DLH=1.64818 VOLUME=19538 RESELS=2.80696
zstat2: DLH=1.64818 VOLUME=19538 RESELS=2.80696
zfstat1: DLH=1.64818 VOLUME=19538 RESELS=2.80696 (EOF)"
And here result from the fsl weebsite [1]:
"mkdir -p tsplot ;
/usr/people/cowboy/var/jalapeno_linux_64-gcc4.1/sandboxes/fsl/bin/tsplot
. -f filtered_func_data -o tsplot
zstat1: DLH=1.9245 VOLUME=19544 RESELS=2.40393
zstat2: DLH=1.9245 VOLUME=19544 RESELS=2.40393
zfstat1: DLH=1.9245 VOLUME=19544 RESELS=2.40393
/usr/people/cowboy/var/jalapeno_linux_64-gcc4.1/sandboxes/fsl/bin/cluster -i
thresh_zstat1 -c stats/cope1 -t 2.3 -d 1.9245 --volume=19544 -x
reg/example_func2standard.mat --stdvol=reg/standard --mm
--connectivity=26 --olmax=lmax_zstat1_std.txt > cluster_zstat1_std.txt
/usr/people/cowboy/var/jalapeno_linux_64-gcc4.1/sandboxes/fsl/bin/cluster2html
. cluster_zstat1 -std
/usr/people/cowboy/var/jalapeno_linux_64-gcc4.1/sandboxes/fsl/bin/cluster -i
thresh_zstat2 -c stats/cope2 -t 2.3 -d 1.9245 --volume=19544 -x
reg/example_func2standard.mat --stdvol=reg/standard --mm
--connectivity=26 --olmax=lmax_zstat2_std.txt > cluster_zstat2_std.txt
/usr/people/cowboy/var/jalapeno_linux_64-gcc4.1/sandboxes/fsl/bin/cluster2html
. cluster_zstat2 -std
/usr/people/cowboy/var/jalapeno_linux_64-gcc4.1/sandboxes/fsl/bin/cluster -i
thresh_zfstat1 -t 2.3 -d 1.9245 --volume=19544 -x
reg/example_func2standard.mat --stdvol=reg/standard --mm
--connectivity=26 --olmax=lmax_zfstat1_std.txt > cluster_zfstat1_std.txt
/usr/people/cowboy/var/jalapeno_linux_64-gcc4.1/sandboxes/fsl/bin/cluster2html
. cluster_zfstat1 -std"
Consequently, my test fails when trying to open cluster_zstat1_std.txt.
Any idea why this happens? My hunch is that it is related to fsl_sub,
but I don't find any indication in what way.
Thanks!
Andrej
[1] http://www.fmrib.ox.ac.uk/fsl/feeds/data/fmri.feat/logs/feat4_post
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