Dear Drs. Wang,

Thanks for releasing Gretna 2. I tested it on a resting-state fMRI dataset (26 subjects) but received error report (see below) during the step of regressing out. The preprocessing steps before regress out is stable, and I can see the output images with prefix "dswran". Would you mind to give me some hints? Many Thanks!
I ran the analyses on an iMac computer (macOS Sierra, version 10.12.6), using Matlab (R2016b). I have also added SPM12 (version 6470), BrainNetViewer (20150807), DPABI (V3.0_171210), and gifts-1.6 in Matlab path.

Bests,
Delin Sun, PhD
Duke University Medical Center


19-Dec-2017 13:04:00 RegressOut00001 submitted (2 run / 0 fail / 234 done / 129 left)
19-Dec-2017 13:04:00 RegressOut00002 submitted (3 run / 0 fail / 234 done / 128 left)
19-Dec-2017 13:04:11 RegressOut00001 failed (2 run / 1 fail / 234 done / 128 left)
19-Dec-2017 13:04:11 RegressOut00002 failed (1 run / 2 fail / 234 done / 128 left)
19-Dec-2017 13:04:11 RegressOut00003 submitted (2 run / 2 fail / 234 done / 127 left)
19-Dec-2017 13:04:11 RegressOut00004 submitted (3 run / 2 fail / 234 done / 126 left)
19-Dec-2017 13:04:21 RegressOut00003 failed (2 run / 3 fail / 234 done / 126 left)
19-Dec-2017 13:04:21 RegressOut00004 failed (1 run / 4 fail / 234 done / 126 left)
19-Dec-2017 13:04:21 RegressOut00005 submitted (2 run / 4 fail / 234 done / 125 left)
19-Dec-2017 13:04:21 RegressOut00006 submitted (3 run / 4 fail / 234 done / 124 left)
19-Dec-2017 13:04:26 Detrend00026 completed (2 run / 4 fail / 235 done / 124 left)
19-Dec-2017 13:04:26 RegressOut00007 submitted (3 run / 4 fail / 235 done / 123 left)
19-Dec-2017 13:04:31 RegressOut00005 failed (2 run / 5 fail / 235 done / 123 left)
19-Dec-2017 13:04:31 RegressOut00006 failed (1 run / 6 fail / 235 done / 123 left)
19-Dec-2017 13:04:31 RegressOut00008 submitted (2 run / 6 fail / 235 done / 122 left)
19-Dec-2017 13:04:31 RegressOut00009 submitted (3 run / 6 fail / 235 done / 121 left)
19-Dec-2017 13:04:36 RegressOut00007 failed (2 run / 7 fail / 235 done / 121 left)
19-Dec-2017 13:04:36 RegressOut00010 submitted (3 run / 7 fail / 235 done / 120 left)
19-Dec-2017 13:04:41 RegressOut00008 failed (2 run / 8 fail / 235 done / 120 left)
19-Dec-2017 13:04:41 RegressOut00009 failed (1 run / 9 fail / 235 done / 120 left)
19-Dec-2017 13:04:41 RegressOut00011 submitted (2 run / 9 fail / 235 done / 119 left)
19-Dec-2017 13:04:41 RegressOut00012 submitted (3 run / 9 fail / 235 done / 118 left)
19-Dec-2017 13:04:46 RegressOut00010 failed (2 run / 10 fail / 235 done / 118 left)
19-Dec-2017 13:04:46 RegressOut00013 submitted (3 run / 10 fail / 235 done / 117 left)
19-Dec-2017 13:04:52 RegressOut00011 failed (2 run / 11 fail / 235 done / 117 left)
19-Dec-2017 13:04:52 RegressOut00012 failed (1 run / 12 fail / 235 done / 117 left)
19-Dec-2017 13:04:52 RegressOut00014 submitted (2 run / 12 fail / 235 done / 116 left)
19-Dec-2017 13:04:52 RegressOut00015 submitted (3 run / 12 fail / 235 done / 115 left)
19-Dec-2017 13:04:57 RegressOut00013 failed (2 run / 13 fail / 235 done / 115 left)
19-Dec-2017 13:04:57 RegressOut00016 submitted (3 run / 13 fail / 235 done / 114 left)
19-Dec-2017 13:05:02 RegressOut00014 failed (2 run / 14 fail / 235 done / 114 left)
19-Dec-2017 13:05:02 RegressOut00015 failed (1 run / 15 fail / 235 done / 114 left)
19-Dec-2017 13:05:02 RegressOut00017 submitted (2 run / 15 fail / 235 done / 113 left)
19-Dec-2017 13:05:02 RegressOut00018 submitted (3 run / 15 fail / 235 done / 112 left)
19-Dec-2017 13:05:07 RegressOut00016 failed (2 run / 16 fail / 235 done / 112 left)
19-Dec-2017 13:05:07 RegressOut00019 submitted (3 run / 16 fail / 235 done / 111 left)
19-Dec-2017 13:05:12 RegressOut00017 failed (2 run / 17 fail / 235 done / 111 left)
19-Dec-2017 13:05:12 RegressOut00018 failed (1 run / 18 fail / 235 done / 111 left)
19-Dec-2017 13:05:12 RegressOut00020 submitted (2 run / 18 fail / 235 done / 110 left)
19-Dec-2017 13:05:12 RegressOut00021 submitted (3 run / 18 fail / 235 done / 109 left)
19-Dec-2017 13:05:17 RegressOut00019 failed (2 run / 19 fail / 235 done / 109 left)
19-Dec-2017 13:05:17 RegressOut00022 submitted (3 run / 19 fail / 235 done / 108 left)
19-Dec-2017 13:05:22 RegressOut00020 failed (2 run / 20 fail / 235 done / 108 left)
19-Dec-2017 13:05:22 RegressOut00021 failed (1 run / 21 fail / 235 done / 108 left)
19-Dec-2017 13:05:22 RegressOut00023 submitted (2 run / 21 fail / 235 done / 107 left)
19-Dec-2017 13:05:22 RegressOut00024 submitted (3 run / 21 fail / 235 done / 106 left)
19-Dec-2017 13:05:27 RegressOut00022 failed (2 run / 22 fail / 235 done / 106 left)
19-Dec-2017 13:05:27 RegressOut00025 submitted (3 run / 22 fail / 235 done / 105 left)
19-Dec-2017 13:05:33 RegressOut00023 failed (2 run / 23 fail / 235 done / 105 left)
19-Dec-2017 13:05:33 RegressOut00024 failed (1 run / 24 fail / 235 done / 105 left)
19-Dec-2017 13:05:33 RegressOut00026 submitted (2 run / 24 fail / 235 done / 104 left)
19-Dec-2017 13:05:38 RegressOut00025 failed (1 run / 25 fail / 235 done / 104 left)
19-Dec-2017 13:05:43 RegressOut00026 failed (0 run / 26 fail / 235 done / 104 left)
*********************************************
The processing of the pipeline is terminated.
See report below for job completion status.
19-Dec-2017 13:05:43
*********************************************
The execution of the following jobs have failed :
RegressOut00001 ; RegressOut00002 ; RegressOut00003 ; RegressOut00004 ; RegressOut00005 ; RegressOut00006 ; RegressOut00007 ; RegressOut00008 ; RegressOut00009 ; RegressOut00010 ; RegressOut00011 ; RegressOut00012 ; RegressOut00013 ; RegressOut00014 ; RegressOut00015 ; RegressOut00016 ; RegressOut00017 ; RegressOut00018 ; RegressOut00019 ; RegressOut00020 ; RegressOut00021 ; RegressOut00022 ; RegressOut00023 ; RegressOut00024 ; RegressOut00025 ; RegressOut00026 ;
More infos can be found in the individual log files. Use the following command to display these logs :
psom_pipeline_visu('/Users/ds366/Desktop/Project_Moral_Injury/GRETNA/Preprocess/GretnaLogs/FunPreproAndNetCon/','log',JOB_NAME)
The following jobs have not been processed due to a dependence on a failed job or the interruption of the pipeline manager :
Filter00001 ; Filter00002 ; Filter00003 ; Filter00004 ; Filter00005 ; Filter00006 ; Filter00007 ; Filter00008 ; Filter00009 ; Filter00010 ; Filter00011 ; Filter00012 ; Filter00013 ; Filter00014 ; Filter00015 ; Filter00016 ; Filter00017 ; Filter00018 ; Filter00019 ; Filter00020 ; Filter00021 ; Filter00022 ; Filter00023 ; Filter00024 ; Filter00025 ; Filter00026 ; Scrubbing00001 ; Scrubbing00002 ; Scrubbing00003 ; Scrubbing00004 ; Scrubbing00005 ; Scrubbing00006 ; Scrubbing00007 ; Scrubbing00008 ; Scrubbing00009 ; Scrubbing00010 ; Scrubbing00011 ; Scrubbing00012 ; Scrubbing00013 ; Scrubbing00014 ; Scrubbing00015 ; Scrubbing00016 ; Scrubbing00017 ; Scrubbing00018 ; Scrubbing00019 ; Scrubbing00020 ; Scrubbing00021 ; Scrubbing00022 ; Scrubbing00023 ; Scrubbing00024 ; Scrubbing00025 ; Scrubbing00026 ; StaticFC00001 ; StaticFC00002 ; StaticFC00003 ; StaticFC00004 ; StaticFC00005 ; StaticFC00006 ; StaticFC00007 ; StaticFC00008 ; StaticFC00009 ; StaticFC00010 ; StaticFC00011 ; StaticFC00012 ; StaticFC00013 ; StaticFC00014 ; StaticFC00015 ; StaticFC00016 ; StaticFC00017 ; StaticFC00018 ; StaticFC00019 ; StaticFC00020 ; StaticFC00021 ; StaticFC00022 ; StaticFC00023 ; StaticFC00024 ; StaticFC00025 ; StaticFC00026 ; DynamicalFC00001 ; DynamicalFC00002 ; DynamicalFC00003 ; DynamicalFC00004 ; DynamicalFC00005 ; DynamicalFC00006 ; DynamicalFC00007 ; DynamicalFC00008 ; DynamicalFC00009 ; DynamicalFC00010 ; DynamicalFC00011 ; DynamicalFC00012 ; DynamicalFC00013 ; DynamicalFC00014 ; DynamicalFC00015 ; DynamicalFC00016 ; DynamicalFC00017 ; DynamicalFC00018 ; DynamicalFC00019 ; DynamicalFC00020 ; DynamicalFC00021 ; DynamicalFC00022 ; DynamicalFC00023 ; DynamicalFC00024 ; DynamicalFC00025 ; DynamicalFC00026 ;
All jobs have been processed, but some jobs have failed.
You may want to restart the pipeline latter if you managed to fix the problems.
Error using gretna_GUI_PreprocessInterface>RunBtn_Callback (line 1006)
\nsbj01\n
< M A T L A B (R) >
Copyright 1984-2016 The MathWorks, Inc.
R2016b (9.1.0.441655) 64-bit (maci64)
September 7, 2016
To get started, type one of these: helpwin, helpdesk, or demo.
For product information, visit http://www.mathworks.com.
Warning: psom:default: The following field(s) were ignored in the structure job
: OutputImgFile
> In psom_set_defaults (line 101)
In psom_run_job (line 111)
******************************
Log of the (matlab) job : RegressOut00001
Started on 19-Dec-2017 13:04:08
User: ds366
host : omalu.dhe.duke.edu
system : unix
******************************
The job starts now !
********************
********************
Something went bad ... the job has FAILED !
The last error message occured was :
Index exceeds matrix dimensions.
File /Users/ds366/Documents/MATLAB/SDLToolBox/GRETNA-2.0.0_release/RunFun/gretna_RUN_RegressOut.m at line 140
File /Users/ds366/Documents/MATLAB/SDLToolBox/GRETNA-2.0.0_release/RunFun/gretna_RUN_RegressOut.m at line 78
File /Users/ds366/Documents/MATLAB/SDLToolBox/GRETNA-2.0.0_release/RunFun/gretna_RUN_RegressOut.m at line 78
File /Users/ds366/Documents/MATLAB/SDLToolBox/GRETNA-2.0.0_release/PSOM/psom_run_job.m at line 214
File /Users/ds366/Documents/MATLAB/SDLToolBox/GRETNA-2.0.0_release/PSOM/psom_run_job.m at line 128
****************
Checking outputs
****************
The output file or directory
/Users/ds366/Desktop/Project_Moral_Injury/GRETNA/Preprocess/FunImg/sbj01/cNGSdswranFun_15440651_17772.nii has not
been generated!
**********************************************
19-Dec-2017 13:04:08 : The job has FAILED
Total time used to process the job : 0.90 sec.
**********************************************
ans =
logical
1
....
Error in gui_mainfcn (line 95)
feval(varargin{:});
Error in gretna_GUI_PreprocessInterface (line 42)
gui_mainfcn(gui_State, varargin{:});
Error in
matlab.graphics.internal.figfile.FigFile/read>@(hObject,eventdata)gretna_GUI_PreprocessInterface('RunBtn_Callback',hObject,eventdata,guidata(hObject))
Error while evaluating UIControl Callback

I also encountered the same problem, did you solve your problem?

rpc24520171153308@gmail.com

>> (please ensure the same dimensions between your data and the template
>> images (e.g., wm and cbf probability maps) in gretna. )
>

Hi,Have you solved this please, I have the same problem. Please advise if you have solved the problem!