Hi Siddharth
can you cc the list so others can answer? Did you check the norm to make
sure it's ok?
You can definitely take the mri_cc from 5.3 and use the rest of 5.1. If you
let us know your hardware/software environment we'll send you an updated
binary, but as I said it's usually a symptom of something else going wrong
Bruce
On Thu, 16 May 2013, Ray, Siddharth wrote:
Hi Bruce,
Thanks for the prompt reply. I am using 5.1 version and I don’t think I can
switch to a new version because I already have subjects processed using this
one.
So do we have any fix for this version?
Please let me know.
-Siddharth
-----Original Message-----
From: Bruce Fischl [mailto:fis...@nmr.mgh.harvard.edu]
Sent: Thursday, May 16, 2013 2:08 PM
To: Ray, Siddharth
Cc: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] F Problem running : mri_cc -aseg.auto_
Hi Siddharth
what FS version are you running? I did fix this recently, and the fix is
certainly in 5.3. It only happened if there was something badly wrong, like the
norm.mgz being empty for example, so it was more a symptom of an earlier
failure then a problem of it's own (although I did have it print out an error
message instead of running forever)
cheers
Bruce
On Thu, 16 May 2013, Ray,
Siddharth wrote:
Hi,
I am new to freesurfer and was trying to run it on couple of my
subjects but I am stuck (for last 40 hrs) at stage
“mri_cc -aseg aseg.auto_noCCseg.mgz -o aseg.auto.mgz -lta
/home/sray2/Desktop/combirx/cr052_ip_output/mri/transforms/cc_up.lta
cr052_ip_output”
it seems. The last few lines of the log file were:
searching scale 1 Z rot 9.9
searching scale 1 Z rot 10.1 global minimum found at slice 122.0,
rotations (-3.99, 3.36)
final transformation (x=122.0, yr=-3.992, zr=3.355):
0.996 -0.059 -0.069 25.704;
0.058 0.998 -0.004 -3.212;
0.070 0.000 0.998 -51.078;
0.000 0.000 0.000 1.000;
Have anyone came across this error before ? and know how to fix this.
Please let me know.
Thanks in advance.
~Siddharth Ray
P.S. I have attached the log file here.
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