Hi Jessica, it looks like you successfully ran this yesterday. Is this still a problem?

doug

On Sat, 15 Sep 2007, Jessica Andrews-Hanna wrote:

Hi -

Does anyone know if there is a problem with mri_convert used within the context of unpacksdcmdir? When I type the following at the command line (which we've used several times successfully in the past in the Buckner lab):

ssh nexlin6 source /space/freesurfer/nmr-std-env cd /space/nexus/20/users/jandrews/FDN/070814_4TT00316/scripts unpacksdcmdir -src `/usr/pubsw/bin/findsession 070814_4TT00316 | grep PATH | awk '{print $3}'` -targ ../ -cfg 070814_4TT00316_unpack_fsl.cfg -unpackerr

I get the following error:

mri_convert /space/archive/133/siemens/ TrioTim-35006-20070814-165946-670000/670000-3-1.dcm ..//anat/ 003/070814_4TT00316_mpr003.nii --sdcmlist ..//anat/003/flf -ot nii -- nspmzeropad 3 --in_type siemens_dicom ERROR: mri_convert child killed: segmentation violation

Here's some useful information using bugr:

FREESURFER_HOME: /usr/local/freesurfer/stable4 Build stamp: freesurfer-Linux-centos4_x86_64-stable-v4.0.0-20070914 RedHat release: CentOS release 4.4 (Final) Kernel info: Linux 2.6.9-42.0.3.ELsmp x86_64 NMR Center info (/space/freesurfer exists): machine: nexlin6 SUBJECTS_DIR: /space/sake/3/users/inverse/subjects PWD: /space/nexus/20/users/jandrews/FDN/070814_4TT00316/scripts

Thanks very much, Jessica_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer