Could be. Can you run dcmunpack instead of unpacksdcmdir? You should be able to use the same command line. Let me know how it goes.
doug
On 10/13/16 5:25 PM, Marco Loggia wrote:
Hello Doug and Freesurfers,
We are having trouble unpacking DTI data collected in Bay7.
Data are here: cd /autofs/eris/marco/tmp/seun
The error I get is this one, which prevents the nii file from being created:
ERROR: mri_convert child killed: segmentation violation
It looks like the problem doesn’t occur for other data (E.g., BOLD, MPRAGE), so could it be only DTI-specific?
More details are below, and the infodump.dat file is attached. Thanks! Marco
################## olaf:marco[195] cd /autofs/eris/marco/tmp/seun olaf:marco[196] unpacksdcmdir -src DTI_sevoEEG_006/ -targ . -generic -run 10 dti nii dti.nii -unpackerr
$Id: unpacksdcmdir,v 1.23 2008/12/15 21:42:16 greve Exp $
/autofs/eris/marco/tmp/seun -src DTI_sevoEEG_006/ -targ . -generic -run 10 dti nii dti.nii -unpackerr
Thu Oct 13 17:13:49 EDT 2016
mri_convert -all-info ProgramName: mri_convert ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/10/13-21:13:49-GMT BuildTimeStamp: May 14 2013 15:52:47 CVS: $Id: mri_convert.c,v 1.179.2.7 2012/09/05 21:55:16 mreuter Exp $ User: marco Machine: olaf Platform: Linux PlatformVersion: 2.6.32-642.3.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
olaf Linux olaf 2.6.32-642.3.1.el6.x86_64 #1 SMP Tue Jul 12 18:30:56 UTC 2016 x86_64 x86_64 x86_64 GNU/Linux
Thu Oct 13 17:13:49 EDT 2016 Log File is ./unpack.log INFO: Logfile is ./unpack.log SkipMoCo 0 Scanning source directory ... INFO: summary file is ./dicomdir.sumfile INFO: status file is ./parse.status Scanning directory Thu Oct 13 17:13:49 EDT 2016 mri_parse_sdcmdir --sortbyrun --d DTI_sevoEEG_006/ --o ./dicomdir.sumfile --status ./parse.status 0 2 4 6 8 10 12 15 17 19 21 23 26 28 30 32 34 36 38 41 43 45 47 49 52 54 56 58 60 63 65 67 69 71 73 75 78 80 82 84 86 89 91 93 95 97 100 Done scanning Thu Oct 13 17:14:01 EDT 2016
10 ep2d_diff_mgh_30dir_b1000_2000_10b0_tensor err 128 128 64 70 MR.1.3.12.2.1107.5.2.38.51006.2015051409122443188606899 unpacking config ------------------ {10 dti nii dti.nii}
Run 10 ----------------------------------------- Thu Oct 13 17:14:01 EDT 2016 10 dti nii dti.nii INFO: this run has an error, but trying anyway mri_convert DTI_sevoEEG_006//MR.1.3.12.2.1107.5.2.38.51006.2015051409122443188606899 ./dti/dti.nii --sdcmlist ./dti/flf -ot nii --nspmzeropad 3 --in_type siemens_dicom ERROR: mri_convert child killed: segmentation violation
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