Hi Saad and other FSL users,

So, I am trying to run probtrackx2 with --savepaths option like:
probtrackx2 --savepaths -x ${source_dir}/FSL_Labels/label_1.hdr -l -c 0.2 -S 2000 --steplength=0.5 -P 5000 --forcedir --opd -s ${source_dir}/Raw.bedpostX/merged -m ${source_dir}/Raw.bedpostX/nodif_brain_mask --dir=${source_dir}/Test_probtrackx2 --targetmasks=${source_dir}/FSL_Labels/target_list_1_test.txt --os2t --s2tastext

My seed mask has 2598 voxels and target list has just 1 volume file with 2649 voxels. The system is a 64 bit CentOS with 8GB RAM. If I run without the --savepaths, the output files are created in around 10 minutes but now it has been more than 12 hours but it is still working with no errors. Is this normal?

Thank you for your help.

Sincerely,

Virendra

________________________________________
From: FSL - FMRIB's Software Library [[log in to unmask]] on behalf of Saad Jbabdi [[log in to unmask]]
Sent: Friday, December 28, 2012 3:26 PM
To: [log in to unmask]
Subject: Re: [FSL] Line Propagation technique for probtrackx

Hi - With probtrackx2, you can use the (hidden) option: "--savepaths" which will save sample streamlines into a (potentially big) text file.

Cheers
Saad

On 28 Dec 2012, at 20:26, Virendra R Mishra wrote:

> Hello FSL developers and users,
>
> I know the answer to my questions but I still want to confirm. I know probtrackx gives us the probability of a tract, started from a seedpoint, in a voxel through which the tract passes. But is there a way of looking at the streamline of these tracts? Secondly, is there anybody else who has probably done this?
>
> I know the answer is No for both the questions but still want to confirm.
>
> Happy New Year.
>
> Thank you for the wonderful software.
>
> Sincerely,
>
> Virendra
>

--
Saad Jbabdi
University of Oxford, FMRIB Centre

JR Hospital, Headington, OX3 9DU, UK
(+44)1865-222466 (fax 717)
www.fmrib.ox.ac.uk/~saad