Hi Frank,
That’s exactly what we need- thank you so much! As an aside, is there a way to turn that on in the GUI, so we can compare the outputs of that parameter turned on and off in an output that worked?
Cheers,
Hamsi
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Hi Frank!
Thank you so much for your help with all this- it looks like the fix should work, but this command now creates a lot of core.* files with the new singularity- and ultimately results in the following error:
terminate called after throwing an instance of 'std::system_error'
what(): Resource temporarily unavailable
/var/tmp/gridengine/8.1.9-1/default/spool/2115fmn004/job_scripts/141928: line 43: 224406 Aborted $sing dsi_studio --action=atk --source=${fib} --track_id=$trk --thread_count=$NSLOTS --check_ending=0
Turning core file creation using ulimit -c 0 doesn't seem to help this. This error also only occurs when I send batch jobs to an SGE cluster, works just fine locally- and even succeeds on random jobs on the grid. I cannot tell if this is an error in our compute set up or in the singularity, but we didn’t have this issue with the previous singularity image (without the check_ending utility). I was wondering if you had any insight on this? Happy to provide more information if needed!
Thank you so much for all your help again!
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Hey Frank,
Thank you so much for your quick response! I’ve uploaded an example src file using the drop box upload form. I generate the fib files from these using this command:
dsi_studio --action=rec --source=${src} --method=4 --param0=1.25 --record_odf=0 --other_output=qa,nqa,dti_fa,md,ad,rd,gfa,iso,rdi
Thank you so much for your help!
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From: Frank Yeh
Sent: Friday, May 20, 2022 3:12 PM
To: dsi-s...@googlegroups.com
Subject: Re: [dsi-studio] Fiber tracking mismatch between linux(singularity) and windows versions
Hi Hamsi,
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