Hi,
As it says: "Error - registration has not been run"
So, have you run the registration?
All the best,
Mark
On 3 Aug 2011, at 18:30, Rosalia Dacosta Aguayo wrote:
>
> Hi,
>
> I have Linux UBUNTU installed in my PC and I have downloaded FSL for that version. First, I couldn't call FSL from the terminal, but now, with the appropiate command, I can. But it is the same. I Only get the first analysis (.ica) but melodic.gica not found and I have a lot of errors and I don't know how to resolve them. Anyone could help me? I only need to covariate, demeaning the age of my two groups but it seems impossible for me to extract the Principal IC.
>
> This is what I get:
>
> Higher-level MELODIC
> /usr/share/fsl/4.1/bin/featregapply /home/rosi/Desktop/ROSALIA/ap_.ica
> Error - registration has not been run for /home/rosi/Desktop/ROSALIA/ap_.ica
>
> /usr/share/fsl/4.1/bin/featregapply /home/rosi/Desktop/ROSALIA/ppp_.ica
> Error - registration has not been run for /home/rosi/Desktop/ROSALIA/ppp_.ica
>
> /usr/share/fsl/4.1/bin/featregapply /home/rosi/Desktop/ROSALIA/joo_.ica
> Error - registration has not been run for /home/rosi/Desktop/ROSALIA/joo_.ica
>
> /usr/share/fsl/4.1/bin/featregapply /home/rosi/Desktop/ROSALIA/rnb_.ica
> Error - registration has not been run for /home/rosi/Desktop/ROSALIA/rnb_.ica
>
> /usr/share/fsl/4.1/bin/featregapply /home/rosi/Desktop/ROSALIA/efp_.ica
> Error - registration has not been run for /home/rosi/Desktop/ROSALIA/efp_.ica
>
> /usr/share/fsl/4.1/bin/featregapply /home/rosi/Desktop/ROSALIA/gjm_.ica
> Error - registration has not been run for /home/rosi/Desktop/ROSALIA/gjm_.ica
>
> /usr/share/fsl/4.1/bin/featregapply /home/rosi/Desktop/ROSALIA/mr_.ica
> Error - registration has not been run for /home/rosi/Desktop/ROSALIA/mr_.ica
>
> /usr/share/fsl/4.1/bin/featregapply /home/rosi/Desktop/ROSALIA/jsb_.ica
> Error - registration has not been run for /home/rosi/Desktop/ROSALIA/jsb_.ica
>
> /usr/share/fsl/4.1/bin/featregapply /home/rosi/Desktop/ROSALIA/msc_.ica
> Error - registration has not been run for /home/rosi/Desktop/ROSALIA/msc_.ica
>
> /usr/share/fsl/4.1/bin/featregapply /home/rosi/Desktop/ROSALIA/dr_.ica
> Error - registration has not been run for /home/rosi/Desktop/ROSALIA/dr_.ica
>
> /usr/share/fsl/4.1/bin/featregapply /home/rosi/Desktop/ROSALIA/jpm_.ica
> Error - registration has not been run for /home/rosi/Desktop/ROSALIA/jpm_.ica
>
> /usr/share/fsl/4.1/bin/featregapply /home/rosi/Desktop/ROSALIA/flp_.ica
> Error - registration has not been run for /home/rosi/Desktop/ROSALIA/flp_.ica
>
> /usr/share/fsl/4.1/bin/featregapply /home/rosi/Desktop/ROSALIA/tc_.ica
> Error - registration has not been run for /home/rosi/Desktop/ROSALIA/tc_.ica
>
> /usr/share/fsl/4.1/bin/featregapply /home/rosi/Desktop/ROSALIA/jsr_.ica
> Error - registration has not been run for /home/rosi/Desktop/ROSALIA/jsr_.ica
>
> /usr/share/fsl/4.1/bin/fslmerge -t bg_image /home/rosi/Desktop/ROSALIA/ap_.ica/reg_standard/bg_image /home/rosi/Desktop/ROSALIA/ppp_.ica/reg_standard/bg_image /home/rosi/Desktop/ROSALIA/joo_.ica/reg_standard/bg_image /home/rosi/Desktop/ROSALIA/rnb_.ica/reg_standard/bg_image /home/rosi/Desktop/ROSALIA/efp_.ica/reg_standard/bg_image /home/rosi/Desktop/ROSALIA/gjm_.ica/reg_standard/bg_image /home/rosi/Desktop/ROSALIA/mr_.ica/reg_standard/bg_image /home/rosi/Desktop/ROSALIA/jsb_.ica/reg_standard/bg_image /home/rosi/Desktop/ROSALIA/msc_.ica/reg_standard/bg_image /home/rosi/Desktop/ROSALIA/dr_.ica/reg_standard/bg_image /home/rosi/Desktop/ROSALIA/jpm_.ica/reg_standard/bg_image /home/rosi/Desktop/ROSALIA/flp_.ica/reg_standard/bg_image /home/rosi/Desktop/ROSALIA/tc_.ica/reg_standard/bg_image /home/rosi/Desktop/ROSALIA/jsr_.ica/reg_standard/bg_image
> ** ERROR (nifti_image_read): failed to find header file for '/home/rosi/Desktop/ROSALIA/ap_.ica/reg_standard/bg_image'
> ** ERROR: nifti_image_open(/home/rosi/Desktop/ROSALIA/ap_.ica/reg_standard/bg_image): bad header info
> Error: failed to open file /home/rosi/Desktop/ROSALIA/ap_.ica/reg_standard/bg_image
> Cannot open volume /home/rosi/Desktop/ROSALIA/ap_.ica/reg_standard/bg_image for reading!
>
> /usr/share/fsl/4.1/bin/fslmaths bg_image -inm 1000 -Tmean bg_image -odt float
> ** ERROR (nifti_image_read): failed to find header file for 'bg_image'
> ** ERROR: nifti_image_open(bg_image): bad header info
> Error: failed to open file bg_image
> Cannot open volume bg_image for reading!
>
> /usr/share/fsl/4.1/bin/fslmerge -t mask /home/rosi/Desktop/ROSALIA/ap_.ica/reg_standard/mask /home/rosi/Desktop/ROSALIA/ppp_.ica/reg_standard/mask /home/rosi/Desktop/ROSALIA/joo_.ica/reg_standard/mask /home/rosi/Desktop/ROSALIA/rnb_.ica/reg_standard/mask /home/rosi/Desktop/ROSALIA/efp_.ica/reg_standard/mask /home/rosi/Desktop/ROSALIA/gjm_.ica/reg_standard/mask /home/rosi/Desktop/ROSALIA/mr_.ica/reg_standard/mask /home/rosi/Desktop/ROSALIA/jsb_.ica/reg_standard/mask /home/rosi/Desktop/ROSALIA/msc_.ica/reg_standard/mask /home/rosi/Desktop/ROSALIA/dr_.ica/reg_standard/mask /home/rosi/Desktop/ROSALIA/jpm_.ica/reg_standard/mask /home/rosi/Desktop/ROSALIA/flp_.ica/reg_standard/mask /home/rosi/Desktop/ROSALIA/tc_.ica/reg_standard/mask /home/rosi/Desktop/ROSALIA/jsr_.ica/reg_standard/mask
> ** ERROR (nifti_image_read): failed to find header file for '/home/rosi/Desktop/ROSALIA/ap_.ica/reg_standard/mask'
> ** ERROR: nifti_image_open(/home/rosi/Desktop/ROSALIA/ap_.ica/reg_standard/mask): bad header info
> Error: failed to open file /home/rosi/Desktop/ROSALIA/ap_.ica/reg_standard/mask
> Cannot open volume /home/rosi/Desktop/ROSALIA/ap_.ica/reg_standard/mask for reading!
>
> mkdir -p inputreg
>
> /usr/share/fsl/4.1/bin/fslmaths ../mask -mul 14 -Tmean masksum -odt short
> ** ERROR (nifti_image_read): failed to find header file for '../mask'
> ** ERROR: nifti_image_open(../mask): bad header info
> Error: failed to open file ../mask
> Cannot open volume ../mask for reading!
>
> /usr/share/fsl/4.1/bin/fslmaths masksum -thr 14 -add masksum masksum
> ** ERROR (nifti_image_read): failed to find header file for 'masksum'
> ** ERROR: nifti_image_open(masksum): bad header info
> Error: failed to open file masksum
> Cannot open volume masksum for reading!
>
> /usr/share/fsl/4.1/bin/overlay 0 0 -c ../bg_image -a masksum 0.9 28 masksum_overlay
> ** ERROR (nifti_image_read): failed to find header file for '../bg_image'
> ** ERROR: nifti_image_open(../bg_image): bad header info
> Error: failed to open file ../bg_image
> ERROR: Could not open image ../bg_image
> Image Exception : #22 :: Failed to read volume ../bg_image
> terminate called after throwing an instance of 'RBD_COMMON::BaseException'
> Aborted
>
> /usr/share/fsl/4.1/bin/slicer masksum_overlay -S 2 750 masksum_overlay.png
> ** ERROR (nifti_image_read): failed to find header file for 'masksum_overlay'
> ** ERROR: nifti_image_open(masksum_overlay): bad header info
> Error: failed to open file masksum_overlay
> ERROR: Could not open image masksum_overlay
> Image Exception : #22 :: Failed to read volume masksum_overlay
> terminate called after throwing an instance of 'RBD_COMMON::BaseException'
> Aborted
>
> /usr/share/fsl/4.1/bin/fslmaths masksum -mul 0 maskunique
> ** ERROR (nifti_image_read): failed to find header file for 'masksum'
> ** ERROR: nifti_image_open(masksum): bad header info
> Error: failed to open file masksum
> Cannot open volume masksum for reading!
>
> /usr/share/fsl/4.1/bin/fslmaths 0 -mul -1 -add 1 -mul 1 -add maskunique maskunique
> ** ERROR (nifti_image_read): failed to find header file for '0'
> ** ERROR: nifti_image_open(0): bad header info
> Error: failed to open file 0
> Cannot open volume 0 for reading!
>
> /usr/share/fsl/4.1/bin/fslmaths 0 -mul -1 -add 1 -mul 2 -add maskunique maskunique
> ** ERROR (nifti_image_read): failed to find header file for '0'
> ** ERROR: nifti_image_open(0): bad header info
> Error: failed to open file 0
> Cannot open volume 0 for reading!
>
> /usr/share/fsl/4.1/bin/fslmaths 0 -mul -1 -add 1 -mul 3 -add maskunique maskunique
> ** ERROR (nifti_image_read): failed to find header file for '0'
> ** ERROR: nifti_image_open(0): bad header info
> Error: failed to open file 0
> Cannot open volume 0 for reading!
>
> /usr/share/fsl/4.1/bin/fslmaths 0 -mul -1 -add 1 -mul 4 -add maskunique maskunique
> ** ERROR (nifti_image_read): failed to find header file for '0'
> ** ERROR: nifti_image_open(0): bad header info
> Error: failed to open file 0
> Cannot open volume 0 for reading!
>
> /usr/share/fsl/4.1/bin/fslmaths 0 -mul -1 -add 1 -mul 5 -add maskunique maskunique
> ** ERROR (nifti_image_read): failed to find header file for '0'
> ** ERROR: nifti_image_open(0): bad header info
> Error: failed to open file 0
> Cannot open volume 0 for reading!
>
> /usr/share/fsl/4.1/bin/fslmaths 0 -mul -1 -add 1 -mul 6 -add maskunique maskunique
> ** ERROR (nifti_image_read): failed to find header file for '0'
> ** ERROR: nifti_image_open(0): bad header info
> Error: failed to open file 0
> Cannot open volume 0 for reading!
>
> /usr/share/fsl/4.1/bin/fslmaths 0 -mul -1 -add 1 -mul 7 -add maskunique maskunique
> ** ERROR (nifti_image_read): failed to find header file for '0'
> ** ERROR: nifti_image_open(0): bad header info
> Error: failed to open file 0
> Cannot open volume 0 for reading!
>
> /usr/share/fsl/4.1/bin/fslmaths 0 -mul -1 -add 1 -mul 8 -add maskunique maskunique
> ** ERROR (nifti_image_read): failed to find header file for '0'
> ** ERROR: nifti_image_open(0): bad header info
> Error: failed to open file 0
> Cannot open volume 0 for reading!
>
> /usr/share/fsl/4.1/bin/fslmaths 0 -mul -1 -add 1 -mul 9 -add maskunique maskunique
> ** ERROR (nifti_image_read): failed to find header file for '0'
> ** ERROR: nifti_image_open(0): bad header info
> Error: failed to open file 0
> Cannot open volume 0 for reading!
>
> /usr/share/fsl/4.1/bin/fslmaths 0 -mul -1 -add 1 -mul 10 -add maskunique maskunique
> ** ERROR (nifti_image_read): failed to find header file for '0'
> ** ERROR: nifti_image_open(0): bad header info
> Error: failed to open file 0
> Cannot open volume 0 for reading!
>
> /usr/share/fsl/4.1/bin/fslmaths 0 -mul -1 -add 1 -mul 11 -add maskunique maskunique
> ** ERROR (nifti_image_read): failed to find header file for '0'
> ** ERROR: nifti_image_open(0): bad header info
> Error: failed to open file 0
> Cannot open volume 0 for reading!
>
> /usr/share/fsl/4.1/bin/fslmaths 0 -mul -1 -add 1 -mul 12 -add maskunique maskunique
> ** ERROR (nifti_image_read): failed to find header file for '0'
> ** ERROR: nifti_image_open(0): bad header info
> Error: failed to open file 0
> Cannot open volume 0 for reading!
>
> /usr/share/fsl/4.1/bin/fslmaths 0 -mul -1 -add 1 -mul 13 -add maskunique maskunique
> ** ERROR (nifti_image_read): failed to find header file for '0'
> ** ERROR: nifti_image_open(0): bad header info
> Error: failed to open file 0
> Cannot open volume 0 for reading!
>
> /usr/share/fsl/4.1/bin/fslmaths 0 -mul -1 -add 1 -mul 14 -add maskunique maskunique
> ** ERROR (nifti_image_read): failed to find header file for '0'
> ** ERROR: nifti_image_open(0): bad header info
> Error: failed to open file 0
> Cannot open volume 0 for reading!
>
> /usr/share/fsl/4.1/bin/fslmaths masksum -thr 13 -uthr 13 -bin -mul maskunique maskunique
> ** ERROR (nifti_image_read): failed to find header file for 'masksum'
> ** ERROR: nifti_image_open(masksum): bad header info
> Error: failed to open file masksum
> Cannot open volume masksum for reading!
>
> /usr/share/fsl/4.1/bin/overlay 0 0 ../bg_image -a maskunique 0.9 14 maskunique_overlay
> ** ERROR (nifti_image_read): failed to find header file for '../bg_image'
> ** ERROR: nifti_image_open(../bg_image): bad header info
> Error: failed to open file ../bg_image
> ERROR: Could not open image ../bg_image
> Image Exception : #22 :: Failed to read volume ../bg_image
> terminate called after throwing an instance of 'RBD_COMMON::BaseException'
> Aborted
>
> /usr/share/fsl/4.1/bin/slicer maskunique_overlay -S 2 750 maskunique_overlay.png
> ** ERROR (nifti_image_read): failed to find header file for 'maskunique_overlay'
> ** ERROR: nifti_image_open(maskunique_overlay): bad header info
> Error: failed to open file maskunique_overlay
> ERROR: Could not open image maskunique_overlay
> Image Exception : #22 :: Failed to read volume maskunique_overlay
> terminate called after throwing an instance of 'RBD_COMMON::BaseException'
> Aborted
>
> /bin/cp /usr/share/fsl/4.1/etc/luts/ramp.gif .ramp.gif
>
> /usr/share/fsl/4.1/bin/fslmaths mask -Tmin -bin mask -odt char
> ** ERROR (nifti_image_read): failed to find header file for 'mask'
> ** ERROR: nifti_image_open(mask): bad header info
> Error: failed to open file mask
> Cannot open volume mask for reading!
>
> /usr/share/fsl/4.1/bin/melodic -i .filelist -o groupmelodic.ica -v --nobet --bgthreshold=3 --tr=2.0 --report --guireport=../../report.html --bgimage=bg_image -d 0 --mmthresh=0.5 -a concat
>
> Melodic Version 3.10
>
> Melodic results will be in groupmelodic.ica
>
> ** ERROR (nifti_image_read): failed to find header file for '/home/rosi/Desktop/ROSALIA/ap_.ica/reg_standard/filtered_func_data'
> ** ERROR: nifti_image_open(/home/rosi/Desktop/ROSALIA/ap_.ica/reg_standard/filtered_func_data): bad header info
> Error: failed to open file /home/rosi/Desktop/ROSALIA/ap_.ica/reg_standard/filtered_func_data
> ERROR: Could not open image /home/rosi/Desktop/ROSALIA/ap_.ica/reg_standard/filtered_func_data
> Image Exception : #22 :: Failed to read volume /home/rosi/Desktop/ROSALIA/ap_.ica/reg_standard/filtered_func_data
>
>
>
> An exception has been thrown
> Failed to read volume /home/rosi/Desktop/ROSALIA/ap_.ica/reg_standard/filtered_func_dataTrace: read_volumeROI.
>
>
> Any advice before giving up my work? I am working again and again all the days, learning about Linux and I don't find the solution.
>
>
>
>
> I think is too much for me, learning FSL, learning Linux, installing UBUNTU, get the command for making executable properly FSL, and so on, too much things in few days
>
>
>
> I only needed covariation and now I can't do it. I feel desperate.
>
> Many thanks,
>
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