A completely automated MATLAB-based trainable image cell segmentation, fluorescence quantification and analysis suite, particularly well suited for high-throughput time lapse fluorescence microscopy of in vivo bacterial cells.
I have been using the superSeggerGui and it was able to run the alignment program correctly, but it throws a series of errors when it comes to segmentation. I am trying to evaluate 300 TIF images of cells in fluorescence microscopy with correctly formatted filenames, and I am using MATLAB_R2017b with all the necessary toolboxes. Could you please take a look? Thank you so much for your time and help!
P.S. if it matters, my operating system is macOS 10.13.5
`
loading Constants : 100XEc.mat
BatchSuperSeggerOpti : images already aligned
xy1: BatchSuperSeggerOpti : Segmenting Cells
Error using cellprops3 (line 60)
Undefined function 'fast_rotate_loose_double' for input arguments of type 'double'.
Error in BatchSuperSeggerOpti>intProcessXY (line 317)
parfor(i=1:num_t,workers) % through all frames
Error in BatchSuperSeggerOpti (line 215)
parfor(j = 1:num_xy,workers)
Error in superSeggerGui>segment_images_Callback (line 213)
BatchSuperSeggerOpti(dirname, skip, clean_flag, CONST, startEnd);
Error in gui_mainfcn (line 95)
feval(varargin{:});
Error in superSeggerGui (line 38)
gui_mainfcn(gui_State, varargin{:});
Error in matlab.graphics.internal.figfile.FigFile/read>@(hObject,eventdata)superSeggerGui('segment_images_Callback',hObject,eventdata,guidata(hObject))
Hi,
I have been using the superSeggerGui and it was able to run the alignment program correctly, but it throws a series of errors when it comes to segmentation. I am trying to evaluate 300 TIF images of cells in fluorescence microscopy with correctly formatted filenames, and I am using MATLAB_R2017b with all the necessary toolboxes. Could you please take a look? Thank you so much for your time and help!
P.S. if it matters, my operating system is macOS 10.13.5
` loading Constants : 100XEc.mat BatchSuperSeggerOpti : images already aligned xy1: BatchSuperSeggerOpti : Segmenting Cells Error using cellprops3 (line 60) Undefined function 'fast_rotate_loose_double' for input arguments of type 'double'.
Error in perRegionOpti (line 82) data.regs.info(ii,:) = CONST.regionScoreFun.props( mask, data.regs.props(ii) );
Error in ssoSegFunPerReg (line 66) data = perRegionOpti( data, 1, CONST,header);
Error in doSeg (line 102) [data, ~] = CONST.seg.segFun( phase, CONST, header, dataname, crop_box);
Error in BatchSuperSeggerOpti>intProcessXY (line 317) parfor(i=1:num_t,workers) % through all frames
Error in BatchSuperSeggerOpti (line 215) parfor(j = 1:num_xy,workers)
Error in superSeggerGui>segment_images_Callback (line 213) BatchSuperSeggerOpti(dirname, skip, clean_flag, CONST, startEnd);
Error in gui_mainfcn (line 95) feval(varargin{:});
Error in superSeggerGui (line 38) gui_mainfcn(gui_State, varargin{:});
Error in matlab.graphics.internal.figfile.FigFile/read>@(hObject,eventdata)superSeggerGui('segment_images_Callback',hObject,eventdata,guidata(hObject))
Error while evaluating UIControl Callback.
`