[MINC-users] (no subject)
Nugent, Allison C. (NIH/NIMH)
minc-users@bic.mni.mcgill.ca
Tue, 20 Jan 2004 14:26:55 -0500
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Hello,
I'm having a frustrating problem with the N3 package, running on
solaris. Version 1.0 had previously worked fine on my machine, then one
day, it stopped. It would crash at nu_evaluate, leaving .imp files, but not
creating my n3 corrected .mnc files. It would give errors saying things
like the temporary files had different image dimensions than my input file.
So, instead of fixing it, I decided it was time for an upgrade. I bogged
down somewhere in getting the fortran gcc libraries, and turned things over
to my system administrator. He's still working on the upgraded version of
N3, but just recompiled N3 1.0. Here's the message I get when it quits:
[nu_evaluate]
[allison@kismet:/mnt/v1280/raid1/mood/users/allison/struct_workspace/allison
_nugent] [2004-01-20 14:20:29] /usr/local/bin/evaluate_field -clobber
-verbose -like /tmp//template.mnc test.imp /tmp//field_volume.mnc
Error: MINC file has only 0 dims, volume requires 3.
Failed to read volume: /tmp//template.mnc.
nu_evaluate: crashed while running evaluate_field (termination status=256)
nu_correct: crashed while running nu_evaluate (termination status=256)
mincinfo on the temporary file template.mnc crashes
mincheader complains, but writes the header. The values for xspace, yspace,
and zspace are given, but the full definition of the structures is missing.
It seems that the problem is in the writing of these temporary images. I've
tried specifying a different tmp directory, but that didn't' help.
Can anyone please help? I'm at my wit's end with this!!
Allison C. Nugent, PhD
MRI Physicist
Mood and Anxiety Disorders Program
(301)451-8863
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<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>Hello,</span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'> I'm
having a frustrating problem with the N3 package, running on solaris.
Version 1.0 had previously worked fine on my machine, then one day, it
stopped. It would crash at nu_evaluate, leaving .imp files, but not
creating my n3 corrected .mnc files. It would give errors saying things
like the temporary files had different image dimensions than my input
file. So, instead of fixing it, I decided it was time for an upgrade.
I bogged down somewhere in getting the fortran gcc libraries, and turned things
over to my system administrator. He's still working on the upgraded
version of N3, but just recompiled N3 1.0. Here's the message I get
when it quits:</span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'> </span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>[nu_evaluate]
[allison@kismet:/mnt/v1280/raid1/mood/users/allison/struct_workspace/allison_nugent]
[2004-01-20 </span></font><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>14:20:29</span></font><font size=2 face=Arial><span
style='font-size:10.0pt;font-family:Arial'>] /usr/local/bin/evaluate_field
-clobber -verbose -like /tmp//template.mnc test.imp /tmp//field_volume.mnc</span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>Error: MINC file has only 0 dims, volume requires 3.</span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>Failed to read volume: /tmp//template.mnc.</span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>nu_evaluate: crashed while running evaluate_field
(termination status=256)</span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>nu_correct: crashed while running nu_evaluate (termination
status=256)</span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'> </span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>mincinfo on the temporary file template.mnc crashes</span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>mincheader complains, but writes the header. The
values for xspace, yspace, and zspace are given, but the full definition of the
structures is missing. </span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'> </span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>It seems that the problem is in the writing of these
temporary images. I've tried specifying a different tmp directory,
but that didn't' help. </span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'> </span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>Can anyone please help? I'm at my wit's end with
this!!</span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'> </span></font></p>
<p class=MsoAutoSig><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>Allison C. Nugent, PhD</span></font></p>
<p class=MsoAutoSig><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>MRI Physicist</span></font></p>
<p class=MsoAutoSig><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>Mood and Anxiety Disorders Program</span></font></p>
<p class=MsoAutoSig><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>(301)451-8863 </span></font></p>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'> </span></font></p>
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