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SPM  February 2017

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Subject:

Re: unable to change SPM-batcheditor-defaults

From:

Guillaume Flandin <[log in to unmask]>

Reply-To:

Guillaume Flandin <[log in to unmask]>

Date:

Thu, 9 Feb 2017 19:06:01 +0000

Content-Type:

text/plain

Parts/Attachments:

Parts/Attachments

text/plain (131 lines)

Dear Martin,

Thanks - I see what you mean, I've been annoyed by this a number of
times too. On the other hand, it might have saved a few SPM users from
overwriting their results by accident.

At the moment, this behaviour cannot be modified through the defaults
and you have to manually edit spm_spm.m and comment out lines 352-371.
An alternative would be to delete any existing file called mask.nii
before running GLM specification/estimation as this is the way SPM
detects the presence of analysis results (and this can be done as a
batch module BasicIO > File Operations > Delete Files).

Best regards,
Guillaume.


On 08/02/17 19:39, Martin Hochheimer wrote:
> Dear Guillaume,
> 
> Basically, I am trying to switch off an option for the "run batch" function.
> By default, it asks confirmation to overwrite an existing SPM mat file
> before running, say, a 1stlevel GLM spec & est.
> 
> When I run a batch pipeline that overwrites a bunch of existing SPM
> mats, I do not want to sit next to it and click "continue" at every new
> directory.
> 
> I looked for this default setting in the spm_defaults file, but did not
> see it.
> 
> Could you tell me how to switch this off?
> 
> Thanks a lot!
> 
> Martin
> 
> On 8 February 2017 at 17:04, Guillaume Flandin <[log in to unmask]
> <mailto:[log in to unmask]>> wrote:
> 
>     Dear Martin,
> 
>     Yes, it's unfortunately broken and has been for a while now. I'm not
>     convinced of the usefulness of this option though: what do you use it
>     for and how? Wouldn't it be enough to create a file spm_my_defaults.m
>     with your modified options as described in the help of spm_defaults.m?
> 
>     Best regards,
>     Guillaume.
> 
> 
>     On 08/02/17 10:54, Martin Hochheimer wrote:
>     > Dear SPM experts,
>     >
>     > I have tried several times to change the defaults in the SPM batch
>     editor's section "edit defaults".
>     >
>     > Every time I try to do this, I get the following error:
>     >
>     > As soon as I select the option:
>     >
>     >
>     > Cell contents reference from a non-cell array object.
>     >
>     > Error in cfg_ui_util (line 119)
>     >         [id, stop, contents] = ...
>     >
>     > Error in cfg_ui>local_showmod (line 329)
>     >     [id, namestr, datastr, contents] = cfg_ui_util('showmod',
>     cmid, dflag);
>     >
>     > Error in cfg_ui>local_editdefs (line 248)
>     > local_showmod(gcbo);
>     >
>     > Error while evaluating uimenu Callback
>     >
>     >
>     > and as soon as I try to access any option within the batch
>     defaults window:
>     >
>     >
>     > Cell contents reference from a non-cell array object.
>     >
>     > Error in cfg_ui_util (line 119)
>     >         [id, stop, contents] = ...
>     >
>     > Error in cfg_ui>local_showmod (line 329)
>     >     [id, namestr, datastr, contents] = cfg_ui_util('showmod',
>     cmid, dflag);
>     >
>     > Error in cfg_ui>modlist_Callback (line 898)
>     >         local_showmod(hObject);
>     >
>     > Error in gui_mainfcn (line 96)
>     >         feval(varargin{:});
>     >
>     > Error in cfg_ui (line 53)
>     >     gui_mainfcn(gui_State, varargin{:});
>     >
>     > Error in
>     >
>     @(hObject,eventdata)cfg_ui('modlist_Callback',hObject,eventdata,guidata(hObject))
>     >
>     >
>     > Error while evaluating uicontrol Callback
>     >
>     >
>     >
>     > Could anybody please tell me how to mend this?
>     >
>     > Thank you and all the best!
>     >
>     > Martin Hochheimer
>     >
> 
>     --
>     Guillaume Flandin, PhD
>     Wellcome Trust Centre for Neuroimaging
>     University College London
>     12 Queen Square
>     London WC1N 3BG
> 
> 

-- 
Guillaume Flandin, PhD
Wellcome Trust Centre for Neuroimaging
University College London
12 Queen Square
London WC1N 3BG

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