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Dear Freesurfer Experts,

I am having trouble with recon-all (Freesurfer 6.0). After running a shell script on my subjects I get the following error:

Iteration 1 Fri Apr 20 13:22:37 CEST 2018 nu_correct -clobber ./tmp.mri_nu_correct.mni.14731/nu0.mnc ./tmp.mri_nu_correct.mni.14731/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.14731/0/ -iterations 1000 -distance 50 Cannot read input file: ./tmp.mri_nu_correct.mni.14731/nu0.mnc [XXX.XXX@XXX-pc26:/xxxx/projects/xxxx/main/user/xxxx/subject_c0_200/mri/] [2018-04-20 13:22:37] running: /ropt/freesurfer_6.0.0/mni/bin/nu_estimate_np_and_em -parzen -log -sharpen 0.15 0.01 -iterations 1000 -stop 0.001 -shrink 4 -auto_mask -nonotify -b_spline 1.0e-7 -distance 50 -quiet -execute -clobber -nokeeptmp -tmpdir ./tmp.mri_nu_correct.mni.14731/0/ ./tmp.mri_nu_correct.mni.14731/nu0.mnc ./tmp.mri_nu_correct.mni.14731/nu1.imp

nu_correct: crashed while running nu_estimate_np_and_em (termination status=512) ERROR: nu_correct Linux xxx-pc26 4.9.0-4-amd64 #1 SMP Debian 4.9.65-3 (2017-12-03) x86_64 GNU/Linux

recon-all -s subject_c0_200 exited with ERRORS at Fri Apr 20 13:22:37 CEST 2018

Any suggestions what I can do are welcome!

Best regards

Dusan