Good morning everyone!
I'm using FSL 5.0.0 on a Mac OS X Version 10.7.4.
I'm trying to do melodicICA on my data. I have, for all my subjects, a "oT13D_brain.nii.gz" (structural image, betted) and a "RS.nii.gz" (Resting State functional image).
I've run melodicICA but, finally, I CAN'T SEE THE OUTPUT!
I mean, if I look the "Higher-Level MELODIC Report" and I click on "MELODIC output" I can not see anything.
This is what I see on "Log" page.
IN FEAT MAIN SCRIPT:
/bin/cp /tmp/feat_kgxaVB.fsf design.fsf
mkdir .files;cp /usr/local/fsl/doc/fsl.css .files;ln -s /usr/local/fsl/doc/images .files/images
/usr/local/fsl/bin/fsl_sub -T 10 -l logs -N feat1a_init /usr/local/fsl/bin/feat /Users/letiziacasiraghi/Desktop/melodic_ICA/AD01/RS.ica/design.fsf -D /Users/letiziacasiraghi/Desktop/melodic_ICA/AD01/RS.ica -I 1 -init
67940
/usr/local/fsl/bin/fsl_sub -T 250 -l logs -N feat3_reg -j 67940 /usr/local/fsl/bin/feat /Users/letiziacasiraghi/Desktop/melodic_ICA/AD01/RS.ica/design.fsf -D /Users/letiziacasiraghi/Desktop/melodic_ICA/AD01/RS.ica -I 1 -reg
68012
/usr/local/fsl/bin/fsl_sub -T 10 -l logs -N feat2_pre -j 68012 /usr/local/fsl/bin/feat /Users/letiziacasiraghi/Desktop/melodic_ICA/AD01/RS.ica/design.fsf -D /Users/letiziacasiraghi/Desktop/melodic_ICA/AD01/RS.ica -I 1 -prestats
69273
/usr/local/fsl/bin/fsl_sub -T 1 -l logs -N feat5_stop -j 69273 /usr/local/fsl/bin/feat /Users/letiziacasiraghi/Desktop/melodic_ICA/AD01/RS.ica/design.fsf -D /Users/letiziacasiraghi/Desktop/melodic_ICA/AD01/RS.ica -stop
69627
/usr/local/fsl/bin/fsl_sub -T 10 -l logs -N feat1a_init /usr/local/fsl/bin/feat /Users/letiziacasiraghi/Desktop/melodic_ICA/AD03/RS.ica/design.fsf -D /Users/letiziacasiraghi/Desktop/melodic_ICA/AD03/RS.ica -I 2 -init
69847
etc etc ... (for all subjects)
/usr/local/fsl/bin/fsl_sub -T 10 -l logs -N feat1a_init /usr/local/fsl/bin/feat /Users/letiziacasiraghi/Desktop/melodic_ICA/AD43/RS.ica/design.fsf -D /Users/letiziacasiraghi/Desktop/melodic_ICA/AD43/RS.ica -I 10 -init
85101
/usr/local/fsl/bin/fsl_sub -T 250 -l logs -N feat3_reg -j 85101 /usr/local/fsl/bin/feat /Users/letiziacasiraghi/Desktop/melodic_ICA/AD43/RS.ica/design.fsf -D /Users/letiziacasiraghi/Desktop/melodic_ICA/AD43/RS.ica -I 10 -reg
85170
/usr/local/fsl/bin/fsl_sub -T 10 -l logs -N feat2_pre -j 85170 /usr/local/fsl/bin/feat /Users/letiziacasiraghi/Desktop/melodic_ICA/AD43/RS.ica/design.fsf -D /Users/letiziacasiraghi/Desktop/melodic_ICA/AD43/RS.ica -I 10 -prestats
couldn't open "prefiltered_func_data_mcf_abs_mean.rms": no such file or directory
while executing
"if { [ catch {
for { set argindex 1 } { $argindex < $argc } { incr argindex 1 } {
switch -- [ lindex $argv $argindex ] {
-I {
incr argin..."
(file "/usr/local/fsl/bin/feat" line 119)
/usr/local/fsl/bin/fsl_sub -T 1 -l logs -N feat5_stop /usr/local/fsl/bin/feat /Users/letiziacasiraghi/Desktop/melodic_ICA/AD43/RS.ica/design.fsf -D /Users/letiziacasiraghi/Desktop/melodic_ICA/AD43/RS.ica -stop
86553
etc etc ... (for all subjects)
IN HIGHER-LEVEL MELODIC:
/usr/local/fsl/bin/featregapply /Users/letiziacasiraghi/Desktop/melodic_ICA/AD01/RS.ica
/usr/local/fsl/bin/flirt -ref reg/standard -in reg/standard -out reg_standard/standard -applyisoxfm 4
/usr/local/fsl/bin/applywarp --ref=reg_standard/standard --in=reg/highres --out=frgrot_da3sb6 --warp=reg/highres2standard_warp --interp=spline
/usr/local/fsl/bin/applywarp --ref=reg_standard/standard --in=filtered_func_data --out=frgrot_iMHET5 --warp=reg/highres2standard_warp --premat=reg/example_func2highres.mat --interp=trilinear
/usr/local/fsl/bin/fslmaths reg_standard/filtered_func_data -Tstd -bin reg_standard/mask -odt char
etc. etc. ... for all the subjects
/usr/local/fsl/bin/fslmerge -t bg_image /Users/letiziacasiraghi/Desktop/melodic_ICA/AD01/RS.ica/reg_standard/bg_image /Users/letiziacasiraghi/Desktop/melodic_ICA/AD03/RS.ica/reg_standard/bg_image
... for all subjects ...
/Users/letiziacasiraghi/Desktop/melodic_ICA/NC33/RS.ica/reg_standard/bg_image
Image Exception : #22 :: ERROR: Could not open image /Users/letiziacasiraghi/Desktop/melodic_ICA/AD43/RS.ica/reg_standard/bg_image
terminate called throwing an exception
/usr/local/fsl/bin/fslmaths bg_image -inm 1000 -Tmean bg_image -odt float
Cannot open volume bg_image for reading!
/usr/local/fsl/bin/fslmerge -t mask /Users/letiziacasiraghi/Desktop/melodic_ICA/AD01/RS.ica/reg_standard/mask /Users/letiziacasiraghi/Desktop/melodic_ICA/AD03/RS.ica/reg_standard/mask
... for all subjects ...
/Users/letiziacasiraghi/Desktop/melodic_ICA/NC33/RS.ica/reg_standard/mask
Image Exception : #22 :: ERROR: Could not open image /Users/letiziacasiraghi/Desktop/melodic_ICA/AD43/RS.ica/reg_standard/mask
terminate called throwing an exception
mkdir -p inputreg
/usr/local/fsl/bin/fslmaths ../mask -mul 51 -Tmean masksum -odt short
Cannot open volume ../mask for reading!
/usr/local/fsl/bin/fslmaths masksum -thr 51 -add masksum masksum
Cannot open volume masksum for reading!
/usr/local/fsl/bin/overlay 0 0 -c ../bg_image -a masksum 0.9 102 masksum_overlay
Image Exception : #22 :: ERROR: Could not open image ../bg_image
terminate called throwing an exception
/usr/local/fsl/bin/slicer masksum_overlay -S 2 750 masksum_overlay.png
Image Exception : #22 :: ERROR: Could not open image masksum_overlay
terminate called throwing an exception
/usr/local/fsl/bin/fslmaths masksum -mul 0 maskunique
Cannot open volume masksum for reading!
/usr/local/fsl/bin/fslmaths /Users/letiziacasiraghi/Desktop/melodic_ICA/AD01/RS.ica/reg_standard/mask -mul -1 -add 1 -mul 1 -add maskunique maskunique
Image Exception : #22 :: ERROR: Could not open image maskunique
terminate called throwing an exception
... THE SAME ERROR FOR ALL SUBJECTS ...
/usr/local/fsl/bin/fslmaths 0 -mul -1 -add 1 -mul 10 -add maskunique maskunique
Cannot open volume 0 for reading!
...
/usr/local/fsl/bin/overlay 0 0 ../bg_image -a maskunique 0.9 51 maskunique_overlay
Image Exception : #22 :: ERROR: Could not open image ../bg_image
terminate called throwing an exception
/usr/local/fsl/bin/slicer maskunique_overlay -S 2 750 maskunique_overlay.png
Image Exception : #22 :: ERROR: Could not open image maskunique_overlay
terminate called throwing an exception
/bin/cp /usr/local/fsl/etc/luts/ramp.gif .ramp.gif
/usr/local/fsl/bin/fslmaths mask -Tmin -bin mask -odt char
Cannot open volume mask for reading!
/usr/local/fsl/bin/melodic -i .filelist -o groupmelodic.ica -v --nobet --bgthreshold=10 --tr=3.0000000000 --report --guireport=../../report.html --bgimage=bg_image -d 0 --mmthresh=0.99 --Ostats -a concat
Melodic Version 3.10
Melodic results will be in groupmelodic.ica
Create mask ... done
Image Exception : #22 :: ERROR: Could not open image bg_image
An exception has been thrown
ERROR: Could not open image bg_imageTrace: read_volumeROI.
I don't understand what is wrong.
Can anyone help me?
All the best!
Letizia
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