... and when you want to run in text-mode because you plan to start your
job on a server from a remote computer (that is why we initially were
interested in text-mode): VNC is cool (www.realvnc.com), it gives you
your entire x-session from a remote computer.
You can start and run a job remotely and still use graphics. When the
client is shut down, VNC with your entire X-session still keeps running
and doing stuff while you are out having fun.
Cheers,
Bas
> Maybe it is possible to create a shell script that first opens all the
> figures (main, graphics, interactive?) and then runs your job. Your
> problem seems to be caused by some step assuming that there is a
> window while actually there isn't.
>
> Maybe that works?
>
> best
> Alle Meije
>
> Volkmar Glauche wrote:
>> Hi Jon,
>>
>> I am afraid this would need hacking SPM code :-( There is no
>> adaptation to run in text mode. And after all, you will definitely
>> want to check each spatial and statistical processing step for each
>> of your subjects! There are always cases where something goes wrong -
>> if you don't monitor each processing step then you end up
>> interpreting some data where you can't trust realignment,
>> normalisation, coregistration ...
>> Volkmar
>>
>> On Wed, 20 Sep 2006, jon freedlander wrote:
>>
>>> Hello all,
>>>
>>> We are running fMRI analyses using SPM5 on Matlab R2006a. The
>>> analyses run
>>> fine when we are running in graphical mode, however we would like to
>>> be able
>>> to have a shell script run them from the command line, i.e., without
>>> the GUI.
>>> However, when we run the same analyses that work within the GUI from
>>> the
>>> command line, we get the following errors:
>>>
>>> Running "Slice Timing"
>>> ??? Error using ==> figure
>>> Width and height must be > 0.
>>>
>>> Error in ==> spm at 1142
>>> Finter = figure('IntegerHandle','off',...
>>>
>>> Error in ==> spm_figure at 257
>>> F = spm('CreateIntWin');
>>>
>>> Error in ==> spm at 1753
>>> Finter = spm_figure('GetWin','Interactive');
>>>
>>> Error in ==> spm_jobman>run_struct1 at 1454
>>> [Finter,unused,CmdLine] = spm('FnUIsetup',c.name);
>>>
>>> Error in ==> spm_jobman>run_struct1 at 1480
>>> run_struct1(c.val{i});
>>>
>>> Error in ==> spm_jobman>run_struct1 at 1480
>>> run_struct1(c.val{i});
>>>
>>> Error in ==> spm_jobman>run_job at 417
>>> run_struct1(c);
>>>
>>> Error in ==> spm_jobman at 79
>>> run_job(varargin{2});
>>>
>>>>> --------------------------
>>> Running "Realign: Estimate & Reslice"
>>> ??? Error using ==> figure
>>> Width and height must be > 0.
>>>
>>> Error in ==> spm at 1142
>>> Finter = figure('IntegerHandle','off',...
>>>
>>> Error in ==> spm_figure at 257
>>> F = spm('CreateIntWin');
>>>
>>> Error in ==> spm at 1753
>>> Finter = spm_figure('GetWin','Interactive');
>>>
>>> Error in ==> spm_jobman>run_struct1 at 1454
>>> [Finter,unused,CmdLine] = spm('FnUIsetup',c.name);
>>>
>>> Error in ==> spm_jobman>run_struct1 at 1480
>>> run_struct1(c.val{i});
>>>
>>> Error in ==> spm_jobman>run_struct1 at 1480
>>> run_struct1(c.val{i});
>>>
>>> Error in ==> spm_jobman>run_struct1 at 1480 run_struct1(c.val{i});
>>>
>>> Error in ==> spm_jobman>run_job at 417
>>> run_struct1(c);
>>>
>>> Error in ==> spm_jobman at 79
>>> run_job(varargin{2});
>>>
>>> Does anyone know if there is anything we could do to get this to
>>> work? Is
>>> there something special we have to set to get it to run happily in
>>> text mode?
>>>
>>> Thanks very much,
>>>
>>> Jon Freedlander, MA.Cand.
>>> Research Program Assistant II
>>> Johns Hopkins University
>>> School of Medicine
>>> Department of Neurology
>>>
>>>
>>
>
>
|