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clairelbromley / ZebrafishKymographing

Various software tools written for analysis of lumen opening and membrane retraction in zebrafish.
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Problem with short 90' cuts #57

Closed clairelbromley closed 7 years ago

clairelbromley commented 7 years ago

Despite you now ensuring that contrast between the manual drawing window and main kymograph is the same, it seems that the manual drawing, in the case of the small cuts, highlight a section of the kymograph preceding the cut. Some examples:

210716 E5b screen shot 2016-12-12 at 15 13 13

screen shot 2016-12-12 at 15 19 24

210716 E4 screen shot 2016-12-12 at 15 21 22

210716 E17 screen shot 2016-12-12 at 15 22 31

clairelbromley commented 7 years ago

i.e. the kymograph section shown in the manual drawing window is incorrect

All of the embryos listed above are in the shared googledrive folder "contrast issue"

clairelbromley commented 7 years ago

unsure if this error message is related

Date = 210716, Embryo = 17, Cut = 1 Error using ancestor Not enough input arguments.

Error in imroi/parseInputsForCreateMask (line 77) h_ax = ancestor(obj.h_group,'axes');

Error in imroi/createMask (line 244) [obj,h_im] = parseInputsForCreateMask(varargin{:});

Error in manualSpeedFreehand (line 47) correct_membrane = false(size(M.createMask));

Error in viewerMain>figure1_WindowKeyPressFcn (line 1909) [figurePath, handles.currentManualLineSpeed] = manualSpeedFreehand(handles, get(handles.kymIm(axind), 'CData'));

Error in gui_mainfcn (line 95) feval(varargin{:});

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

Error in @(hObject,eventdata)viewerMain('figure1_WindowKeyPressFcn',hObject,eventdata,guidata(hObject))

Error while evaluating figure WindowKeyPressFcn

Error using ancestor Not enough input arguments.

Error in imroi/parseInputsForCreateMask (line 77) h_ax = ancestor(obj.h_group,'axes');

Error in imroi/createMask (line 244) [obj,h_im] = parseInputsForCreateMask(varargin{:});

Error in manualSpeedFreehand (line 47) correct_membrane = false(size(M.createMask));

Error in viewerMain>figure1_WindowKeyPressFcn (line 1909) [figurePath, handles.currentManualLineSpeed] = manualSpeedFreehand(handles, get(handles.kymIm(axind), 'CData'));

Error in gui_mainfcn (line 95) feval(varargin{:});

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

Error in @(hObject,eventdata)viewerMain('figure1_WindowKeyPressFcn',hObject,eventdata,guidata(hObject))

Error while evaluating figure WindowKeyPressFcn