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help > Possible to just preprocess?
Jan 20, 2015 08:01 PM | Jamie Hanson
Possible to just preprocess?
Hello Dr. Spielberg and colleagues,
I was interested in using GTG for just pre-processing (a colleague has a novel network detection algorithm I was trying to use). Would that be possible in GTG? I tried to input a resting state scan and a whole brain mask (for both the whole brain mask and ROI mask). I however ran into some errors.
After clicking the preprocess button, I enter a vector for participant ID (Subjects={'2011031012401','2011031012401_rest.nii.gz'};), ROI labels (Mask={'WholeBrain','2011031012401_rest_mask.nii.gz'};), change the # of slices and TR, and select the appropriate files. I next click motion censoring (just for my piloting). I however get the following error:
>> METAlab_GTG
Warning: matlabpool will be removed in a future release.
To query the size of an already started parallel pool, query the 'NumWorkers' property of the pool.
To check if a pool is already started use 'isempty(gcp('nocreate'))'.
Error using dlmread (line 61)
The file ' ' could not be opened because: No such file or directory
Error in METAlab_GTG_preprocess_GUI>preprocess_for_graph (line 1683)
mot_pred = dlmread(par_filename);
Error in METAlab_GTG_preprocess_GUI>Start_pushbutton_Callback (line 1233)
[out.ts{currsub,1},out.num_censored_vols(currsub,1),out.num_censored_vols_FD(currsub,1),out.num_censored_vols_DVARS(currsub,1),out.GCOR(currsub,1),out.mean_FD(currsub,1),out.mean_DVARS(currsub,1)]
=
preprocess_for_graph(out,sub,logfile_fid,img_ext,func_filename,parc_filename,funcmask_filename,WM_filename,vent_filename,parc_warp_filename,WM_warp_filename,vent_warp_filename,par_filename);
Error in gui_mainfcn (line 95)
feval(varargin{:});
Error in METAlab_GTG_preprocess_GUI (line 80)
gui_mainfcn(gui_State, varargin{:});
Error in
@(hObject,eventdata)METAlab_GTG_preprocess_GUI('Start_pushbutton_Callback',hObject,eventdata,guidata(hObject))
Error while evaluating UIControl Callback
I'm using Matlab2014b; any thoughts on what I might have done wrong?
Any suggestions are greatly appreciated! I attached my preprocessing log (which says I'm missing files for the participant, but that file exist, etc.). Does GTG want individual (non-stacked/indexed) files?
Thanks much!
Jamie.
I was interested in using GTG for just pre-processing (a colleague has a novel network detection algorithm I was trying to use). Would that be possible in GTG? I tried to input a resting state scan and a whole brain mask (for both the whole brain mask and ROI mask). I however ran into some errors.
After clicking the preprocess button, I enter a vector for participant ID (Subjects={'2011031012401','2011031012401_rest.nii.gz'};), ROI labels (Mask={'WholeBrain','2011031012401_rest_mask.nii.gz'};), change the # of slices and TR, and select the appropriate files. I next click motion censoring (just for my piloting). I however get the following error:
>> METAlab_GTG
Warning: matlabpool will be removed in a future release.
To query the size of an already started parallel pool, query the 'NumWorkers' property of the pool.
To check if a pool is already started use 'isempty(gcp('nocreate'))'.
Error using dlmread (line 61)
The file ' ' could not be opened because: No such file or directory
Error in METAlab_GTG_preprocess_GUI>preprocess_for_graph (line 1683)
mot_pred = dlmread(par_filename);
Error in METAlab_GTG_preprocess_GUI>Start_pushbutton_Callback (line 1233)
[out.ts{currsub,1},out.num_censored_vols(currsub,1),out.num_censored_vols_FD(currsub,1),out.num_censored_vols_DVARS(currsub,1),out.GCOR(currsub,1),out.mean_FD(currsub,1),out.mean_DVARS(currsub,1)]
=
preprocess_for_graph(out,sub,logfile_fid,img_ext,func_filename,parc_filename,funcmask_filename,WM_filename,vent_filename,parc_warp_filename,WM_warp_filename,vent_warp_filename,par_filename);
Error in gui_mainfcn (line 95)
feval(varargin{:});
Error in METAlab_GTG_preprocess_GUI (line 80)
gui_mainfcn(gui_State, varargin{:});
Error in
@(hObject,eventdata)METAlab_GTG_preprocess_GUI('Start_pushbutton_Callback',hObject,eventdata,guidata(hObject))
Error while evaluating UIControl Callback
I'm using Matlab2014b; any thoughts on what I might have done wrong?
Any suggestions are greatly appreciated! I attached my preprocessing log (which says I'm missing files for the participant, but that file exist, etc.). Does GTG want individual (non-stacked/indexed) files?
Thanks much!
Jamie.
Threaded View
| Title | Author | Date |
|---|---|---|
| Jamie Hanson | Jan 20, 2015 | |
| Jamie Hanson | Jan 25, 2015 | |
| Jamie Hanson | Jan 23, 2015 | |
| Jeffrey Spielberg | Jan 23, 2015 | |
| Jamie Hanson | Jan 23, 2015 | |
| Jeffrey Spielberg | Jan 23, 2015 | |
| Jamie Hanson | Jan 23, 2015 | |
| Jeffrey Spielberg | Jan 23, 2015 | |
| Jamie Hanson | Jan 23, 2015 | |
| Jeffrey Spielberg | Jan 23, 2015 | |
| Jamie Hanson | Jan 23, 2015 | |
| Jeffrey Spielberg | Jan 23, 2015 | |
| Jeffrey Spielberg | Jan 23, 2015 | |
