diff --git a/lesions_0.1 b/lesions_0.1
index 71ca63e636c441c8f65bbcad99fd8351e49637c6..92db43f418c6948530f4500c9df2e2dbce458bfb 100755
--- a/lesions_0.1
+++ b/lesions_0.1
@@ -80,7 +80,7 @@ ${FSLDIR}/bin/slicer $1_lesions_render                -A 400 $1_lesions_render
 ${FSLDIR}/bin/slicer $1_brain_seg strucseg_2_$1_brain -A 400 $1_brain_seg
 ${FSLDIR}/bin/slicer $1                               -A 400 $1
 ${FSLDIR}/bin/slicer $1_lesions+ucsf -i 0 1           -A 400 $1_lesions+ucsf
-${FSLDIR}/bin/convert -colors 200 +append $2 $2_brain_seg $1_lesions_render $1_brain_seg $1 $1_lesions+ucsf $1_lesions.gif
+${FSLCONVERT} -colors 200 +append $2 $2_brain_seg $1_lesions_render $1_brain_seg $1 $1_lesions+ucsf $1_lesions.gif
 
 
 
diff --git a/lesions_0.2 b/lesions_0.2
index a97e8d3cbcd2d6f7d88742399788cf83718030f6..0f104ab5d60f9f9c8cf5580459c0942cb821020e 100755
--- a/lesions_0.2
+++ b/lesions_0.2
@@ -92,7 +92,7 @@ echo "$A	`cat ${A}_lesions.txt`"
 ${FSLDIR}/bin/flirt -in $B             -ref $A -out ${B}_grot -applyxfm -init ${B}_to_${A}.mat ;  ${FSLDIR}/bin/slicer ${B}_grot                            -A 400 $B 
 ${FSLDIR}/bin/flirt -in ${B}_brain_seg -ref $A -out ${B}_grot -applyxfm -init ${B}_to_${A}.mat ;  ${FSLDIR}/bin/slicer ${B}_grot -i 0 $nclasses             -A 400 ${B}_brain_seg
 ${FSLDIR}/bin/overlay 0 1 $A -a ${A}_lesions $lesion_thr 1 ${A}_lesions_render ;                  ${FSLDIR}/bin/slicer ${A}_lesions_render                  -A 400 ${A}_lesions_render
-${FSLDIR}/bin/convert -colors 200 +append $A ${A}_brain_seg $B ${B}_brain_seg ${A}_lesions_render ${A}_lesions.gif
+${FSLCONVERT} -colors 200 +append $A ${A}_brain_seg $B ${B}_brain_seg ${A}_lesions_render ${A}_lesions.gif
 
 
 
diff --git a/lesions_0.3 b/lesions_0.3
index c415decfe3617d186ce178d15295de88f97a6aaf..4de092ef2f90c24de2010a8157c2055ef2326628 100644
--- a/lesions_0.3
+++ b/lesions_0.3
@@ -92,7 +92,7 @@ echo "$A	`cat ${A}_lesions.txt`"
 ${FSLDIR}/bin/flirt -in $B             -ref $A -out ${B}_grot -applyxfm -init ${B}_to_${A}.mat ;  ${FSLDIR}/bin/slicer ${B}_grot                            -A 400 $B 
 ${FSLDIR}/bin/flirt -in ${B}_brain_seg -ref $A -out ${B}_grot -applyxfm -init ${B}_to_${A}.mat ;  ${FSLDIR}/bin/slicer ${B}_grot -i 0 $nclasses             -A 400 ${B}_brain_seg
 ${FSLDIR}/bin/overlay 0 1 $A -a ${A}_lesions $lesion_thr 1 ${A}_lesions_render ;                  ${FSLDIR}/bin/slicer ${A}_lesions_render                  -A 400 ${A}_lesions_render
-${FSLDIR}/bin/convert -colors 200 +append $A ${A}_brain_seg $B ${B}_brain_seg ${A}_lesions_render ${A}_lesions.gif
+${FSLCONVERT} -colors 200 +append $A ${A}_brain_seg $B ${B}_brain_seg ${A}_lesions_render ${A}_lesions.gif
 
 
 
diff --git a/siena_flirt b/siena_flirt
index 929f61b5219a71899632ab5af3bc4964f81f5f33..a4aa6502c3a53e0c046c4d2f8e4eff8dc05afdff 100755
--- a/siena_flirt
+++ b/siena_flirt
@@ -48,6 +48,6 @@ ${FSLDIR}/bin/extracttxt Backward ${A2}_to_${A1}.mat_avscale 4 1 > ${A1}_halfway
 ${FSLDIR}/bin/flirt -out ${A1}_halfwayto_${A2} -applyxfm -init ${A1}_halfwayto_${A2}.mat -ref ${A1} -in ${A1}_brain
 ${FSLDIR}/bin/flirt -out ${A2}_halfwayto_${A1} -applyxfm -init ${A2}_halfwayto_${A1}.mat -ref ${A1} -in ${A2}_brain
 ${FSLDIR}/bin/slicer ${A2}_halfwayto_${A1} ${A1}_halfwayto_${A2} -s 1 -x 0.4 gr${A1}${A2}a -x 0.5 gr${A1}${A2}b -x 0.6 gr${A1}${A2}c -y 0.4 gr${A1}${A2}d -y 0.5 gr${A1}${A2}e -y 0.6 gr${A1}${A2}f -z 0.4 gr${A1}${A2}g -z 0.5 gr${A1}${A2}h -z 0.6 gr${A1}${A2}i
-${FSLDIR}/bin/convert -colors 100 +append gr${A1}${A2}a gr${A1}${A2}b gr${A1}${A2}c gr${A1}${A2}d gr${A1}${A2}e gr${A1}${A2}f gr${A1}${A2}g gr${A1}${A2}h gr${A1}${A2}i ${A2}_regto_${A1}.gif
+${FSLCONVERT} -colors 100 +append gr${A1}${A2}a gr${A1}${A2}b gr${A1}${A2}c gr${A1}${A2}d gr${A1}${A2}e gr${A1}${A2}f gr${A1}${A2}g gr${A1}${A2}h gr${A1}${A2}i ${A2}_regto_${A1}.gif
 /bin/rm gr${A1}${A2}a gr${A1}${A2}b gr${A1}${A2}c gr${A1}${A2}d gr${A1}${A2}e gr${A1}${A2}f gr${A1}${A2}g gr${A1}${A2}h gr${A1}${A2}i `$FSLDIR/bin/imglob ${A2}_halfwayto_${A1}.* ${A1}_halfwayto_${A2}.*`