Hello,

I've updated FSL to the new version (5.0.8) and my problem shows up again!

analisi@analisi-hp-linux ~/Ale/TBSS/CIS/prova/Proc/stats $ autoaq -i tbss_tfce_corrp_tstat2.nii.gz -t 0.95 -o report.txt -a "JHU White-Matter Tractography Atlas"
/usr/lib/fsl/5.0/autoaq: riga 143:  4437 Segmentation fault ${FSLDIR}/bin/atlasquery -a "${ATLAS}" -m ${TMPNAME}_${cstr} >> ${NEWOUT}

Thanks for your help!

2014-12-11 16:15 GMT+01:00 Anderson M. Winkler <[log in to unmask]>:

Hi Alessandro,

That line, containing "tmp_${RNDSTR}_${cstr}" has been changed in the version that is now included in FSL, so it looks you were really using the previous version from the website. Nonetheless, a segmentation fault has to be a problem with the atlasquery (i.e. the binary backend), so my recommendation is really to update to 5.0.8 and, if the problem persists, please let us know.

Thanks!

All the best,

Anderson

On 11 December 2014 at 14:51, Alessandro Bellini <[log in to unmask]> wrote:

I try to use directly atlasquery and I have the following message

analisi@analisi-hp-linux ~/Ale/TBSS/CIS/Proc/stats $ atlasquery -a "JHU White-Matter Tractography Atlas" -m tbss_tfce_corrp_tstat2.nii.gz
Anterior thalamic radiation L:1.33074
Anterior thalamic radiation R:0.893303
Corticospinal tract L:0.778339
Corticospinal tract R:0.555696
Cingulum (cingulate gyrus) L:0.315727
Cingulum (cingulate gyrus) R:0.0544736
Cingulum (hippocampus) L:0.153622
Cingulum (hippocampus) R:0.163147
Forceps major:1.01173
Forceps minor:2.53899
Inferior fronto-occipital fasciculus L:1.66984
Inferior fronto-occipital fasciculus R:1.71571
Inferior longitudinal fasciculus L:1.41508
Inferior longitudinal fasciculus R:1.02592
Superior longitudinal fasciculus L:1.45333
Superior longitudinal fasciculus R:0.883632
Uncinate fasciculus L:0.592347
Uncinate fasciculus R:0.311303
Superior longitudinal fasciculus (temporal part) L:0.701945
Superior longitudinal fasciculus (temporal part) R:0.38773
Segmentation fault

2014-12-11 9:58 GMT+01:00 Alessandro Bellini <[log in to unmask]>:

Hi

I'm using FSL version 5.0.7.4 and I'm using the script that comes with it.

Thanks

Alessandro

2014-12-10 18:00 GMT+01:00 Anderson M. Winkler <[log in to unmask]>:

Hi Alessandro,

The autoaq has been integrated into FSL. Please, make sure that you are using the latest FSL (5.0.8) and that you are invoking the script that comes with it, that is, ${FSLDIR}/bin/autoaq. This version supersedes the previous version of autoaq that was available at brainder.org.

All the best,

Anderson

On 10 December 2014 at 16:17, Alessandro Bellini <[log in to unmask]> wrote:

Hi all,

I'm trying to use autoaq for the first time on my TBSS data. I have an error while using autoaq.

autoaq -i tbss_tfce_corrp_tstat2.nii.gz -t 0.95 -o report.txt -a "JHU White-Matter Tractography Atlas"

/usr/lib/fsl/5.0/autoaq: riga 151:  6386 Segmentation fault ${FSLDIR}/bin/atlasquery -a "${ATLAS}" -m tmp_${RNDSTR}_${cstr} >> ${OUT}

I've downloaded the last autoaq script from the web.

Thanks