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How to fix error: "Index in position 1 is invalid. Array indices must be positive integers or logical values"

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David Cohen
David Cohen on 28 Aug 2020
Commented: David Cohen on 4 Sep 2020
Hello! I am trying to run an automatic software on MATLAB that converts 2D images of brain slices into a 3D model. I am currently in the "slice outline" phase, but I can't seem to troubleshoot an error that reads "Index in position 1 is invalid. Array indices must be positive integers or logical values." If anyone can help solve this I would really appreciate it! I'll attach the code below:
Full error message:
Index in position 1 is invalid. Array indices must be positive integers or logical values.
Error in Img_filename_list (line 41)
img_name{(img_idy+(length(Name_Channels)-channel_check))/length(Name_Channels),channel_check}=char(img_names_raw(ii));
Error in STEP_1_Slice_Outline (line 10)
img_name=Img_filename_list(img_format);
Code:
(Slice Outline)
STEP_0_Parameters;
toolbox_chk
warning('off')
img_name=Img_filename_list(img_format); # <---- line 10#
h_progress = waitbar(0,'Slice Boundary Detection');
manual_list=[];
Code for (Img_filename_list.m) : (line 37-44)
for ii=1:size(img_info_no,1)
img_idy=find(img_info_no(:,4)==ii);
for channel_check = 1:length(Name_Channels)
if img_info_no(img_idy,3)==channel_check
img_name{(img_idy+(length(Name_Channels)-channel_check))/length(Name_Channels),channel_check}=char(img_names_raw(ii)); # <-----line 41#
end
end
end

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Accepted Answer

James Tursa
James Tursa on 28 Aug 2020
Type the following at the command line:
dbstop if error
Then run your code. When the error occurs, the code will pause with all variables intact. Examine img_format to see what it is and then backtrack in your code to figure out why it isn't what you expect.

  1 Comment

David Cohen
David Cohen on 4 Sep 2020
Thanks for the function! I wasn't able to understand the error from the img_format file, but I adjusted some paramters in a different file that was being referenced (Step_0) and the error was resolved.

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