Hi Scott - Sending to the list is always good so that others can find it
in the archives when they have similar problems.
Do you specify the .dcm or .mgz file in your dmrirc? Does dwi.nii.gz have
the right dimensions/frames?
a.y
On Mon, 12 Dec 2011, Scott Hayes wrote:
Thanks for the prompt response Anastasia--I ran it over the weekend
and it worked.
I've subsequently encountered a new issue (copied below from the
trac-all.log). The file (dwi.nii.gz) exists in the correct location
(it was written there by tracula). I use unpacksdcmdir for unpacking
the dicoms, and then point the config file to the appropriate .mgz
file, so I'm not doing anything particularly unusual in terms of
unpacking or messing w/ the headers (We scan on a Siemens 3T tim
trio.) I can send this to the listserv if you prefer.
Best,
Scott
fslstats -t /Volumes/RAID_4TB/futhink/nc331_recon/dmri/dwi.nii.gz -k
/Volumes/RAID_4TB/futhink/nc331_recon/dlabel/diff/White-Matter++.bbr.nii.gz
-m -s | awk '{print $1/$2}' >
/Volumes/RAID_4TB/futhink/nc331_recon/dmri/dwi_snr.txt
** ERROR (nifti_image_read): failed to find header file for '-t'
** ERROR: nifti_image_open(-t): bad header info
Error: failed to open file -t
ERROR: Could not open image -t
Image Exception : #22 :: Failed to read volume -t
terminate called after throwing an instance of 'RBD_COMMON::BaseException'
On Fri, Dec 9, 2011 at 12:44 PM, Anastasia Yendiki
<ayend...@nmr.mgh.harvard.edu> wrote:
Hi Scott - Here are the tracula executables for snow leopard that we posted
in response to that thread:
ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/misc/macos-snow-leopard-intel/dmri_5.1_snow_leopard.tar.gz
Let me know if this solves the memory errors.
a.y
On Fri, 9 Dec 2011, Scott Hayes wrote:
Hi Anastasia,
I've encountered an error using tracula w/ snow leopard OS that was
previously reported on the FS listserv:
http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg18829.html
I'm wondering if there is a documented solution available?
Recompiling from source code would be beyond my expertise.
David: I'm cc'ing you just as a heads up--all of the workstations in
the imaging center run snow leopard OS.
Best,
Scott
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