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realmsong504 / pDOC

Prognostication of chronic disorders of consciousness using resting state fMRI and clinical characteristics
MIT License
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Error occured while running pDOC #2

Open ethmery opened 4 years ago

ethmery commented 4 years ago

Dear Doc. Song, Thank you for developing pDOC for the research of patients with DOC. I ran pDOC on MATLAB today while it broke halfway showing "error" that I had to manually ended the program. I am posting the log file showing on MATLAB main screen hoping that it could be of help to find out what was wrong.

pDOC Processing 1 CHENYONG copy standard brain network atlas. Warning: spm.util.cdir was DEPRECATED in SPM8 and has now been REMOVED. Please update your batches to use BasicIO instead. Conversion Normalise:EstWrite -> Old Normalise:EstWrite You might have to manually update the template image in Old Normalise:EstWrite. Conversion Normalise:Write -> Old Normalise:Write Item oldnorm: No field(s) named estwrite

Running job #1

Running 'Change Directory (Deprecated)' New working directory: f:\pDOC\CHENYONG\fMRI Done 'Change Directory (Deprecated)' Running 'Slice Timing'

SPM12: spm_slice_timing (v6130) 22:22:42 - 18/11/2019

Number of slices is... : 64 Time to Repeat (TR) is... : 2 Parameters are specified as... : slice indices Completed : 22:29:04 - 18/11/2019 Done 'Slice Timing' Running 'Realign: Estimate & Reslice'

SPM12: spm_realign (v6070) 22:29:04 - 18/11/2019

Completed : 22:33:23 - 18/11/2019

SPM12: spm_reslice (v5929) 22:33:23 - 18/11/2019

Completed : 22:43:32 - 18/11/2019 Done 'Realign: Estimate & Reslice' Running 'Old Normalise: Estimate & Write' Smoothing by 0 & 8mm.. Coarse Affine Registration.. Fine Affine Registration.. 3D CT Norm... iteration 1: FWHM = 6.259 Var = 1.07649 iteration 2: FWHM = 5.341 Var = 0.935516 iteration 3: FWHM = 5.297 Var = 0.919712 iteration 4: FWHM = 5.304 Var = 0.919712 iteration 5: FWHM = 5.3 Var = 0.919712 iteration 6: FWHM = 5.303 Var = 0.919712 iteration 7: FWHM = 5.302 Var = 0.919712 iteration 8: FWHM = 5.302 Var = 0.919712 iteration 9: FWHM = 5.301 Var = 0.919712 iteration 10: FWHM = 5.302 Var = 0.919712 iteration 11: FWHM = 5.301 Var = 0.919712 iteration 12: FWHM = 5.302 Var = 0.919712 iteration 13: FWHM = 5.301 Var = 0.919712 iteration 14: FWHM = 5.302 Var = 0.919712 iteration 15: FWHM = 5.302 Var = 0.919712 iteration 16: FWHM = 5.301 Var = 0.919712 Saving Parameters..

SPM12: spm_write_sn (v4878) 22:43:43 - 18/11/2019

Completed : 22:43:44 - 18/11/2019 Done 'Old Normalise: Estimate & Write' Running 'Old Normalise: Write'

SPM12: spm_write_sn (v4878) 22:43:44 - 18/11/2019

Completed : 22:43:50 - 18/11/2019 Done 'Old Normalise: Write' Running 'Smooth' Done 'Smooth' Done

removing the head motion and whole brain mean. read the 3D files and form a 4D matrix multiple regression rewrite the new 3D files Error using f_temporalMask_fMRI3D_series (line 13) numel(temporal_mask) = 563 ~= 500.

Error in f_spm8batch_BB_EPI2fMRI_SC (line 215) prefix=f_temporalMask_fMRI3D_series(fMRI_3D_series, temporal_mask);

Error in f_DOC_prognosication_rsfMRI_clinical (line 42) f_spm8batch_BB_EPI2fMRI_SC(subject_list_file);

Error in pDOC>pb_calculation_Callback (line 196) f_DOC_prognosication_rsfMRI_clinical(patient_directory,...

Error in gui_mainfcn (line 96) feval(varargin{:});

Error in pDOC (line 42) gui_mainfcn(gui_State, varargin{:});

Error in @(hObject,eventdata)pDOC('pb_calculation_Callback',hObject,eventdata,guidata(hObject))

Error while evaluating uicontrol Callback

[At this point I waited for about 30 minutes with no response, I had to manually close the GUI.]

Bye.

Thank you very much!

realmsong504 commented 4 years ago

Hi, I guess that there are other nii files in addtion to the fMRI nii files in your "fMRI" folder. So I suggest that you should delete all nii files in the "fMRI" folder and then recopy the fMRI nii files into it. Good luck.

The error is as follows. "Error using f_temporalMask_fMRI3D_series (line 13) numel(temporal_mask) = 563 ~= 500."