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Commit 32f39aa3 authored by Matthew Webster's avatar Matthew Webster
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bc update

parent aefc2f2e
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...@@ -733,7 +733,7 @@ proc fdt:apply { w dialog } { ...@@ -733,7 +733,7 @@ proc fdt:apply { w dialog } {
} }
seedmask { seedmask {
if { $probtrack(bcyn) } { if { $probtrack(bcyn) } {
fdt_monitor_short $w "${FSLDIR}/bin/flirt -in $probtrack(bedpost_dir)/nodif_brain_mask -ref $probtrack(bedpost_dir)/nodif_brain_mask -applyisoxfm 5 -out $probtrack(output)/lowresmask" fdt_monitor_short $w "${FSLDIR}/bin/flirt -in $probtrack(bedpost_dir)/nodif_brain_mask -ref $probtrack(bedpost_dir)/nodif_brain_mask -applyisoxfm $probtrack(scale) -out $probtrack(output)/lowresmask"
fdt_monitor_short $w "${FSLDIR}/bin/avwmaths $probtrack(output)/lowresmask -thr 0.5 -bin $probtrack(output)/lowresmask" fdt_monitor_short $w "${FSLDIR}/bin/avwmaths $probtrack(output)/lowresmask -thr 0.5 -bin $probtrack(output)/lowresmask"
set flags "$flags --lrmask=$probtrack(output)/lowresmask --omatrix2" set flags "$flags --lrmask=$probtrack(output)/lowresmask --omatrix2"
} }
......
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