what version of spm are you using? Look in your ~/matlab/startup.m file
to see. If you are using version 5 or less, then add --img
doug
On 7/26/13 11:19 AM, Marco Loggia wrote:
> Hello Doug,
>
> I am encountering the error below when running spmregister. Where do you
> think is the issue? Thank
That probably just means that you have run out of space in the directory
you are running it from. Run
quota -v
to see
doug
On 7/26/13 11:27 AM, Marco Loggia wrote:
> Hi again,
>
> interestingly, if I run the same command using the full fsvol path I get
> the 'Disk quota exceeded' message... I wo
Hi again,
interestingly, if I run the same command using the full fsvol path I get
the 'Disk quota exceeded' message... I wonder if even the message I wrote
you about in my previous email has something to do with disk space.
I will try free up some room and try spmregister again!
Marco
bash-4.1$
Hello Doug,
I am encountering the error below when running spmregister. Where do you
think is the issue? Thanks!
Best,
Marco
bash-4.1$ spmregister --mov "$file".nii --s PBR_"$subj" --reg tmp.dat
--fsvol merged.lrrev
Log file is ./spmregister.log
Fri Jul 26 10:52:49 EDT 2013
--mov rsl_CLBP001_
Make sure that there is an orig.mgz in $SUBJECTS_DIR/MGXX_SurferOutput/mri
Also, make sure to send the full terminal output
doug
On 03/28/2013 02:13 PM, Borzello, Mia wrote:
> Hi Freesurfers,
>
> I'm in the middle of coregistering a CT and MRI, and after running
> spmregister --s MGXX_SurferOutp
Hi Freesurfers,
I'm in the middle of coregistering a CT and MRI, and after running
spmregister --s MGXX_SurferOutput --mov ct.mgz --reg spm.reg.dat --fsvol orig
I get the error that orig.mgz is not found in COR or MGZ formats, but I have an
orig.mgz file in my folder. Any help on this would be
gt;>>>>> ??? Undefined function or method 'spm_vol' for input
>>>>>>>>>>>>>>>
> arguments of type 'char'.
>
>
>>> ??? Undefined function or variable 'VG'.
>>&g
27;char'.
>
>
>>> ??? Undefined function or variable 'VF'.
>>>
>
>
>
> INFO: ignore warnings about scalefactor
>
>
>>>>> determining coregistration parameters...
>>>>>
>>>>>
t the SPM
package is in your matlab path (check ~/matlab/startup)
ERROR: spm_coreg
> Two suggestions:
> 1. Can you temporarily change the spm path to spm5 to see if that fixes
the problem?
> 2. Can you send me your command line, directory you ran it from,
SUBJECTS_DIR, and terminal outpu
t; but not for other users.
>>> Any help would be appreciated!
>>> Thanks,
>>> Chindhuri
>>>
>>> Re: [Freesurfer] spmregister error
>>> Douglas N Greve
>>> Fri, 30 Jul 2010 09:58:18 -0700
>
am also not sure if we should be using spm5 since all in the past we
have been using spm2. It presents this error when running under my
name,
>> but not for other users.
>> Any help would be appreciated!
>> Thanks,
>> Chindhuri
>> ______
_______________
> Re: [Freesurfer] spmregister error
>
> Douglas N Greve
> Fri, 30 Jul 2010 09:58:18 -0700
>
> Yes, that should work.
>
> doug
>
> Adam Nitenson wrote:
>
>> Hi Sandra,
>>
>> I just had this same problem a
other users.
Any help would be appreciated!
Thanks,
Chindhuri
Re: [Freesurfer] spmregister error
Douglas N Greve
Fri, 30 Jul 2010 09:58:18 -0700
Yes, that should work.
doug
Adam Nitenson wrote:
> Hi Sandra,
>
> I just had this sam
That seems to now work with those changes.
Thanks so much to Adam and Doug!
Sandra
> Yes, that should work.
>
> doug
>
> Adam Nitenson wrote:
>> Hi Sandra,
>>
>> I just had this same problem about a week ago. The solution which
>> worked for me was adding the following line of text into the
Yes, that should work.
doug
Adam Nitenson wrote:
> Hi Sandra,
>
> I just had this same problem about a week ago. The solution which
> worked for me was adding the following line of text into the startup.m
> file in your matlab folder:
>
> path(path,'/usr/pubsw/common/spm/spm5');
>
> I'm not s
Hi Sandra,
I just had this same problem about a week ago. The solution which
worked for me was adding the following line of text into the startup.m
file in your matlab folder:
path(path,'/usr/pubsw/common/spm/spm5');
I'm not sure it matter exactly where you put it. I put mine in the last
row
Hello,
When running spmregister-sess (standard environment was sourced) I
encountered this error:
ERROR: matlab exited with errors
ERROR: cannot find spm_coreg.m. Make sure that the SPM
package is in your matlab path (check ~/matlab/startup)
ERROR: spm_coreg
ERROR: spmregister failed
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