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

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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