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You need to add the —os2t flag Sent from my iPhone > On 23 Aug 2019, at 13:50, Aldana Lizarraga <[log in to unmask]> wrote: > > Dear Saad, > > Thanks for your answer, I didn't know about that hidden option "--otargetpaths". I tried to implement this flag in two different ways but none of them has worked so far. These are the command lines I´ve used: > > > Try 1: > > probtrackx2 -x seed_1.txt -l --otargetpaths --onewaycondition -c 0.2 -S 2000 --steplength=0.5 -P 5000 --fibthresh=0.01 --distthresh=0.0 --sampvox=0.0 --forcedir --opd -s BEDPOSTX.bedpostX/merged -m BEDPOSTX.bedpostX/nodif_brain_mask --pd --dir=tract_1 --waypoints=380_seeds.txt --waycond=OR > --------------------------------------------- > > Try 2: > > probtrackx2 -x seed_1.txt -l --otargetpaths --onewaycondition -c 0.2 -S 2000 --steplength=0.5 -P 5000 --fibthresh=0.01 --distthresh=0.0 --sampvox=0.0 --forcedir --opd -s /BEDPOSTX.bedpostX/merged -m /BEDPOSTX.bedpostX/nodif_brain_mask --pd --dir=tracto_1 --targetmasks=380_seeds.txt > --------------------------------------------- > > In both cases I got just one "fdt_paths.nii.gz" file. Do you know what I'm doing wrong? > > Cheers, > > Aldana > > ######################################################################## > > To unsubscribe from the FSL list, click the following link: > https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1 ######################################################################## To unsubscribe from the FSL list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1