/
runCERRCommand.m
1409 lines (1132 loc) · 61.2 KB
/
runCERRCommand.m
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function status = runCERRCommand(varargin)
%Hold all the defined commands.
%User-defined commands can be added, preferably at the bottom!
%If you add a command, please also add it to the help list in helpListC, just
%below the header.
%Created by JOD.
%Latest modifications: 30 Dec 02, JOD.
% 05 Jan 03, JOD
% 08 Jan 03, JOD, get handle to maskM to erase later; turn off zoom commands.
% 08 Jan 03, JOD, added second input for 'loop command_str'
% 09 Jan 03, JOD, added delete command.
% 15 Jan 03, JOD, picksagcor changed to pick.
% 09 Apr 03, JOD, added 3D and 3d and 3-d.
% 30 Apr 03, JOD, added support for calling user
% defined functions with feval.
% 01 May 03, JOD, added 'dose' command & corrected bug in 'pos' command.
% 05 May 03, JOD, updated help function.
% 13 Dec 05, DK, Added Structure Volume command.
% 26 Apr 06, DK, Added exportDVH option
% 22 Jun 06, DK, Re written SLICE POSITIONING(all 'go to' command)
%
% Copyright 2010, Joseph O. Deasy, on behalf of the CERR development team.
%
% This file is part of The Computational Environment for Radiotherapy Research (CERR).
%
% CERR development has been led by: Aditya Apte, Divya Khullar, James Alaly, and Joseph O. Deasy.
%
% CERR has been financially supported by the US National Institutes of Health under multiple grants.
%
% CERR is distributed under the terms of the Lesser GNU Public License.
%
% This version of CERR is free software: you can redistribute it and/or modify
% it under the terms of the GNU General Public License as published by
% the Free Software Foundation, either version 3 of the License, or
% (at your option) any later version.
%
% CERR is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY;
% without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
% See the GNU General Public License for more details.
%
% You should have received a copy of the GNU General Public License
% along with CERR. If not, see <http://www.gnu.org/licenses/>.
global stateS
if ~exist('planC','var')
global planC
end
if isfield(stateS,'planLoaded') && ~stateS.planLoaded
error('Please load a plan first to use the command line help.')
return;
end
indexS = planC{end};
CERRStatusString('') %clear command window.
%Options removed from runCERRCommand due to incompatibility or obsolecence.
% 'To delete a DVH, type ''del dvh [num]''.',...
% 'To reload all option settings in CERROptions.m: ''reload options'' ',...
% 'To pick sagittal and/or coronal slice positions from transverse view: ''pick'', then use the mouse to select position.',...
% 'To loop through the images but run a command line command on each slice, type ''loop [command]''.',...
% 'To create a dose distance plot, type ''ddp [structNum] [maximum distance of plot] [resolution in cm] [''max'' or ''min'' dose]''.',...
% 'To get the position of a point, type ''pos'', then select the position with the mouse.',...
%commandh = findobj('tag','command');
%Make the slice viewer the active figure
%figure(stateS.handle.CERRSliceViewer)
if nargin == 0
in_str = get(stateS.handle.commandLine,'String');
else
in_str = varargin{:};
end
status = 1; %OK unless we go to the outer catch statement.
if ~isempty(in_str)
disp(['Command: ' in_str])
word1 = word(in_str,1);
try
switch lower(word1)
case 'printmode'
togglsStr = word(in_str,2);
if (strcmpi(togglsStr,'on') && stateS.printMode) || (strcmpi(togglsStr,'off') && ~stateS.printMode)
return;
end
stateS.printMode = xor(stateS.printMode, 1);
if stateS.printMode
structNum = strmatch('skin',lower({planC{indexS.structures}.structureName}),'exact');
if isempty(structNum)
structNum = strmatch('external',lower({planC{indexS.structures}.structureName}),'exact');
end
if isempty(structNum)
warndlg('"Skin" structure must be defined for printmode. If you have another name indicating skin, please change the name to skin and try again.','Undefined "Skin"','modal')
stateS.printMode = 0;
return;
end
[assocScan, relStructNum] = getStructureAssociatedScan(structNum, planC);
isSkinUniform = any(bitget(planC{indexS.structureArray}(assocScan).bitsArray,relStructNum));
if ~isSkinUniform
buttonName = questdlg('"Skin" must be uniformized to display in printmode in sagittal and coronal views. This may take a few seconds. Do you wish to uniformize skin?','Uniformize Skin?','Yes','No','Yes');
if strcmpi(buttonName,'yes')
planC = updateStructureMatrices(planC, structNum);
end
end
else
set(stateS.handle.CERRAxis,'color',[0 0 0])
end
stateS.doseDisplayChanged = 1;
sliceCallBack('refresh')
case 'set'
try
optS = stateS.optS;
tmp = findstr('set',in_str);
in_str2 = in_str(tmp + 3:length(in_str));
if isempty(in_str2)
prompt = { 'Enter the complete field and value to be set. Example "optS.loadCT = ''yes''; "' };
dlg_title = 'Set CERR Options';
num_lines = 1;
def = {''};
in_str2 = inputdlg(prompt,dlg_title,num_lines,def);
if isempty(in_str2)
return
end
end
if iscell(in_str2)
in_str2 = in_str2{1};
end
optS = setOptsExe(in_str2,optS);
stateS.optS = optS;
tmpInd = findstr('=',in_str2);
opt_str = deblank2(in_str2(1:tmpInd-1));
tmpInd = findstr('.',opt_str);
opt_str2 = opt_str(tmpInd+1:length(opt_str));
switch lower(opt_str2)
case 'ctwidth'
CTWidthh = findobj('tag','CTWidth');
set(CTWidthh,'String',num2str(stateS.optS.CTWidth));
case 'ctlevel'
CTLevelh = findobj('tag','CTLevel');
set(CTLevelh,'String',num2str(stateS.optS.CTLevel));
end
catch
helpdlg('That was an invalid options setting.')
end
case 'reload'
w2 = word(in_str,2);
switch lower(w2)
case 'options'
[fname, pathname] = uigetfile('*.m','Select options .m file');
optName = [pathname fname];
optS = opts4Exe(optName);
stateS.optS = optS;
stateS.doseChanged = 1; %This forces refresh of displays.
sliceCallBack('refresh')
sliceCallBack('refreshAllOthers')
return
end
case 'list'
try
switch lower(word(in_str,2))
case 'header'
ind = 'header';
num = 1;
ind2 = getfield(indexS,ind);
fieldsC = fieldnames(planC{ind2}(num));
disp(['RTOG/AAPM info for: ' in_str])
disp('')
len1 = length(planC{ind2});
if len1 == 1
disp(['There is ' num2str(len1) ' entry.'])
else
disp(['There are ' num2str(len1) ' entries.'])
end
disp('')
infoS = planC{ind2}(num);
disp(infoS)
case 'comment'
ind = 'comment';
num = 1 ;
ind2 = getfield(indexS,ind);
fieldsC = fieldnames(planC{ind2}(num));
disp(['RTOG/AAPM info for: ' in_str])
disp('')
len1 = length(planC{ind2});
if len1 == 1
disp(['There is ' num2str(len1) ' entry.'])
else
disp(['There are ' num2str(len1) ' entries.'])
end
disp('')
infoS = planC{ind2}(num);
disp(infoS)
case 'slice'
ind = 'scan' ;
num = str2num(word(in_str,3));
if isempty(num)
prompt = {'Enter the slice Number:'};
dlg_title = 'List Slice';
num_lines = 1;
def = {''};
num = inputdlg(prompt,dlg_title,num_lines,def);
if isempty(num)
return
else
num = str2num(num{1});
end
end
ind2 = getfield(indexS,ind);
fieldsC = fieldnames(planC{ind2}.scanInfo(num));
disp(['RTOG/AAPM info for: ' in_str])
disp('')
len1 = length(planC{ind2}.scanInfo);
if len1 == 1
disp(['There is ' num2str(len1) ' entry.'])
else
disp(['There are ' num2str(len1) ' entries.'])
end
disp('')
infoS = planC{ind2}.scanInfo(num);
disp('Scan slice information is:')
disp(infoS)
case 'structure'
ind = 'structures';
num = str2num(word(in_str,3));
if isempty(num)
prompt = {'Enter the structure Number:'};
dlg_title = 'List structure';
num_lines = 1;
def = {''};
num = inputdlg(prompt,dlg_title,num_lines,def);
if isempty(num)
return
else
num = str2num(num{1});
end
end
if words(in_str) > 3 & strcmp(lower(word(in_str,4)),'points')
slice = str2num(word(in_str,5));
disp(['Points for structure ' num2str(num) ', in slice ' num2str(slice) ':'])
for i = 1 : length(planC{indexS.structures}(num).contour(slice).segments)
disp(['Segment ' num2str(i) ':'])
disp(planC{indexS.structures}(num).contour(slice).segments(i).points)
end
return
end
ind2 = getfield(indexS,ind);
fieldsC = fieldnames(planC{ind2}(num));
disp(['RTOG/AAPM info for: ' in_str])
disp('')
len1 = length(planC{ind2});
if len1 == 1
disp(['There is ' num2str(len1) ' entry.'])
else
disp(['There are ' num2str(len1) ' entries.'])
end
disp('')
infoS = planC{ind2}(num);
disp(infoS)
case 'beam'
ind = 'beamGeometry';
num = str2num(word(in_str,4));
if isempty(num)
prompt = {'Enter the beam Number:'};
dlg_title = 'List beam';
num_lines = 1;
def = {''};
num = inputdlg(prompt,dlg_title,num_lines,def);
if isempty(num)
return
else
num = str2num(num{1});
end
end
ind2 = getfield(indexS,ind);
fieldsC = fieldnames(planC{ind2}(num));
disp(['RTOG/AAPM info for: ' in_str])
disp('')
len1 = length(planC{ind2});
if len1 == 1
disp(['There is ' num2str(len1) ' entry.'])
else
disp(['There are ' num2str(len1) ' entries.'])
end
disp('')
infoS = planC{ind2}(num);
disp(infoS)
file = planC{indexS.beamGeometry}(num).file;
format compact
disp(['Beam geometry entry ' num2str(num) ' file contains:'])
for i = 1 : length(file)
disp(file{i})
end
case 'dose'
ind = 'dose';
num = str2num(word(in_str,3));
if isempty(num)
prompt = {'Enter the dose Number:'};
dlg_title = 'List dose';
num_lines = 1;
def = {''};
num = inputdlg(prompt,dlg_title,num_lines,def);
if isempty(num)
return
else
num = str2num(num{1});
end
end
ind2 = getfield(indexS,ind);
fieldsC = fieldnames(planC{ind2}(num));
disp(['RTOG/AAPM info for: ' in_str])
disp('')
len1 = length(planC{ind2});
if len1 == 1
disp(['There is ' num2str(len1) ' entry.'])
else
disp(['There are ' num2str(len1) ' entries.'])
end
disp('')
infoS = planC{ind2}(num);
disp(infoS)
case 'dvh'
ind = 'DVH';
num = str2num(word(in_str,3));
if isempty(num)
prompt = {'Enter the DVH Number:'};
dlg_title = 'List DVH';
num_lines = 1;
def = {''};
num = inputdlg(prompt,dlg_title,num_lines,def);
if isempty(num)
return
else
num = str2num(num{1});
end
end
ind2 = getfield(indexS,ind);
fieldsC = fieldnames(planC{ind2}(num));
disp(['RTOG/AAPM info for: ' in_str])
disp('')
len1 = length(planC{ind2});
if len1 == 1
disp(['There is ' num2str(len1) ' entry.'])
else
disp(['There are ' num2str(len1) ' entries.'])
end
disp('')
infoS = planC{ind2}(num);
disp(infoS)
case 'options'
ind = 'CERROptions';
num = 1;
ind2 = getfield(indexS,ind);
fieldsC = fieldnames(planC{ind2}(num));
disp(['RTOG/AAPM info for: ' in_str])
disp('')
len1 = length(planC{ind2});
if len1 == 1
disp(['There is ' num2str(len1) ' entry.'])
else
disp(['There are ' num2str(len1) ' entries.'])
end
disp('')
infoS = planC{ind2}(num);
disp(infoS)
case 'index'
ind = 'indexS';
num = 1;
ind2 = getfield(indexS,ind);
fieldsC = fieldnames(planC{ind2}(num));
disp(['RTOG/AAPM info for: ' in_str])
disp('')
len1 = length(planC{ind2});
if len1 == 1
disp(['There is ' num2str(len1) ' entry.'])
else
disp(['There are ' num2str(len1) ' entries.'])
end
disp('')
infoS = planC{ind2}(num);
disp(infoS)
otherwise
helpdlg(helpListC)
end %list case
return
catch
disp('Sorry that was an invalid name.')
len1 = length(planC{ind2});
if len1 == 0
disp(['There are no ' word(in_str,2) ' entries.'])
end
disp('')
end %list command
disp('')
case 'show'
switch lower(word(in_str,2))
case 'name'
set(stateS.handle.patientName,'Visible', 'on');
case 'film'
entry = str2num(word(in_str,3));
str = 'No film stored.';
try
imageM = planC{indexS.digitalFilm}(entry).image;
if isempty(imageM)
warning(str)
CERRStatusString(str)
return
end
f = figure;
catch
warning(str)
CERRStatusString(str)
return
end
try
filmV = stateS.handle.film;
catch
filmV = [];
end
stateS.handle.film = [filmV(:)',f];
hFilm = image(imageM,'cdatamapping','scaled');
axis image;
colormap gray;
hP1 = get(hFilm,'parent');
hFig = get(hP1,'parent');
set(hFig,'name','CERR Film Viewer')
set(hFig,'numbertitle','off')
set(hFig,'tag','CERRFilmViewer')
Position = [115 54 780 570];
set(hFig,'position',Position)
filmNumber = planC{indexS.digitalFilm}(entry).filmNumber;
beamNumber = planC{indexS.digitalFilm}(entry).beamNumber;
if optS.displayPatientName == 1
name = planC{indexS.scan}(1).scanInfo(1).patientName;
name = fixDisplayString(name);
str = ['Patient name: ' name ];
text(0.0,1.05,str,'units','normalized','fontsize',8)
end
str = ['Film number: ' num2str(filmNumber) ', beam number: ' num2str(beamNumber) '.'];
text(0.6,-0.10,str,'units','normalized','fontsize',8)
str = ['Film entry: ' num2str(entry)];
text(0.0,-0.10,str,'units','normalized','fontsize',8)
return
otherwise
helpdlg('Not a valid input.')
return
end
case 'hide'
switch lower(word(in_str,2))
case 'name'
set(stateS.handle.patientName,'Visible', 'off');
end
case 'go' %Go to a given slice
w3 = word(in_str,3);
numWords = words(in_str);
if strcmpi(w3,'z')
% Get the z value passed
zNum = str2num(word(in_str,4));
% Pass variable to "goto" command
goto('z',zNum);
elseif strcmpi(w3,'max') %Go to slice of maximum dose
% Pass variable to "goto" command
goto('max')
elseif numWords > 3
if numWords==4
w4 = word(in_str,4);
w4 = str2num(w4); % only numeric data type supported
goto(w3,w4)
elseif strcmpi(word(in_str,5),'all')
w4 = word(in_str,4);
w4 = str2num(w4); % only numeric data type supported
w5 = word(in_str,5);
goto(w3,w4,w5)
else
% Get the slice number passed
num = str2num(word(in_str,3));
% Pass variable to "goto" command
goto('slice',num);
end
end
case 'mask' %show a spy mask of values included in an ROI
structNum = str2num(word(in_str,2));
doseNum = str2num(word(in_str,3));
rxDose = str2num(word(in_str,4));
lowCutoff = 0.95;
highCutoff = 1.1;
% This is for command line help funciton
if isempty(structNum)
prompt = {'Enter the Structure Number'};
dlg_title = 'Calculate Structure MASK';
num_lines = 1;
def = {''};
structNum = inputdlg(prompt,dlg_title,num_lines,def);
if isempty(structNum)
return
else
structNum = str2num(structNum{1});
end
end
scanSet = getStructureAssociatedScan(structNum);
[xUnifV, yUnifV, jnk] = getUniformScanXYZVals(planC{indexS.scan}(scanSet));
[jnk1, jnk2, zCTV] = getScanXYZVals(planC{indexS.scan}(scanSet));
structColor = planC{indexS.structures}(structNum).structureColor;
[scanNum, relStructNum] = getStructureAssociatedScan(structNum, planC);
for indAxis = 1:length(stateS.handle.CERRAxis)
hAxis = stateS.handle.CERRAxis(indAxis);
view = getAxisInfo(hAxis, 'view');
set(hAxis, 'nextplot', 'add');
switch lower(view)
case 'transverse'
zValue = getAxisInfo(hAxis,'coord');
if isfield(planC{indexS.scan}(scanNum),'transM') && isempty(planC{indexS.scan}(scanNum).transM)
sliceT=findnearest(zCTV,zValue);
zslice = zCTV(sliceT);
[segmentsM, planC, isError] = getRasterSegments(structNum, planC);
indV = find(abs(segmentsM(:,1) - zslice) < 1e-3); %mask values on this slice
segmentsM = segmentsM(indV(:),7:9); %segments
%reconstruct the mask:
ROIImageSize = [planC{indexS.scan}(scanSet).scanInfo(1).sizeOfDimension1 planC{indexS.scan}(scanSet).scanInfo(1).sizeOfDimension2];
maskM = zeros(ROIImageSize);
for i = 1 : size(segmentsM,1)
maskM(segmentsM(i,1),segmentsM(i,2):segmentsM(i,3)) = 1;
end
%For Trans:
[i,j] = find(maskM);
[xV, yV, zV] = mtoxyz(i,j,repmat(sliceT, [length(i) 1]),scanSet,planC);
if isempty(zV) || isempty(xV) || isempty(yV)
continue
end
else
dim = 3;
coord = zValue;
[slcC, xV, yV] = getStructureSlice(scanNum, dim, coord);
if isempty(xV) || isempty(yV)
continue
end
if relStructNum<=52
cellNum = 1;
else
cellNum = ceil((relStructNum-52)/8)+1; %uint8
relStructNum = relStructNum-(cellNum-2)*8-52;
end
structsOnSlice = cumbitor(slcC{cellNum}(:));
includeCurrStruct = bitget(structsOnSlice, relStructNum);
if includeCurrStruct
oneStructM = bitget(slcC{cellNum}, relStructNum);
else
continue;
end
[i,j] = find(oneStructM');
xV = xV(j);
yV = yV(i);
zV = zValue*ones(size(xV));
end
% Store x,y,z coords for dose
xDoseV = xV;
yDoseV = yV;
zDoseV = zV;
case 'coronal'
yValue=getAxisInfo(hAxis,'coord');
[scanNum, relStructNum] = getStructureAssociatedScan(structNum, planC);
if isfield(planC{indexS.scan}(scanNum),'transM') && isempty(planC{indexS.scan}(scanNum).transM)
sliceC=findnearest(yUnifV,yValue);
%For Cor:
maskM = getStructureMask(structNum, sliceC, 2, planC);
[i,j] = find(maskM);
[xV, yV, zV] = mtoxyz(repmat(sliceC, [length(i) 1]), j, i, scanSet, planC, 'uniform', getUniformScanSize(planC{indexS.scan}(scanSet)));
if isempty(zV) || isempty(xV) || isempty(yV)
continue
end
else
dim = 2;
coord = yValue;
[slcC, xV, zV] = getStructureSlice(scanNum, dim, coord);
if isempty(xV) || isempty(zV)
continue
end
if relStructNum<=52
cellNum = 1;
else
cellNum = ceil((relStructNum-52)/8)+1; %uint8
relStructNum = relStructNum-(cellNum-2)*8-52;
end
structsOnSlice = cumbitor(slcC{cellNum}(:));
includeCurrStruct = bitget(structsOnSlice, relStructNum);
if includeCurrStruct
oneStructM = bitget(slcC{cellNum}, relStructNum);
else
continue;
end
[i,j] = find(oneStructM);
xV = xV(j);
zV = zV(i);
yV = yValue*ones(size(xV));
end
% Store x,y,z coords for dose
xDoseV = xV;
yDoseV = yV;
zDoseV = zV;
% Change names so that we only need to plot
% xV,yV for all the views
yV = zV;
case 'sagittal'
xValue=getAxisInfo(hAxis,'coord');
[scanNum, relStructNum] = getStructureAssociatedScan(structNum, planC);
if isfield(planC{indexS.scan}(scanNum),'transM') && isempty(planC{indexS.scan}(scanNum).transM)
sliceS=findnearest(xUnifV,xValue);
%For Sag:
maskM = getStructureMask(structNum, sliceS,1, planC);
[i,j] = find(maskM);
[xV, yV, zV] = mtoxyz(j, repmat(sliceS, [length(i) 1]), i, scanSet, planC, 'uniform', getUniformScanSize(planC{indexS.scan}(scanSet)));
if isempty(zV) || isempty(xV) || isempty(yV)
continue
end
else
dim = 1;
coord = xValue;
[slcC, yV, zV] = getStructureSlice(scanNum, dim, coord);
if isempty(yV) || isempty(zV)
continue
end
if relStructNum<=52
cellNum = 1;
else
cellNum = ceil((relStructNum-52)/8)+1; %uint8
relStructNum = relStructNum-(cellNum-2)*8-52;
end
structsOnSlice = cumbitor(slcC{cellNum}(:));
includeCurrStruct = bitget(structsOnSlice, relStructNum);
if includeCurrStruct
oneStructM = bitget(slcC{cellNum}, relStructNum);
else
continue;
end
[i,j] = find(oneStructM);
yV = yV(j);
zV = zV(i);
xV = xValue*ones(size(yV));
end
% Store x,y,z coords for dose
xDoseV = xV;
yDoseV = yV;
zDoseV = zV;
% Change names so that we only need to plot
% xV,yV for all the views
xV = yV;
yV = zV;
end
% Display mask on axis
if ~isempty(doseNum)
%paint low, prescription and high dose regions
doseV = getDoseAt(doseNum,xDoseV, yDoseV, zDoseV, planC);
lowDoseIndV = doseV < rxDose*lowCutoff;
highDoseIndV = doseV > rxDose*highCutoff;
prescrIndV = doseV >= rxDose*lowCutoff & doseV <= rxDose*highCutoff;
%prescrIndV = 1:length(doseV);
%prescrIndV([lowDoseIndV(:);highDoseIndV(:)]) = [];
h1 = plot(xV(lowDoseIndV),yV(lowDoseIndV),'marker','.','markersize', 5, 'linestyle','none','color','r', 'parent', hAxis, 'tag', 'ROIMask', 'hittest', 'off');
h2 = plot(xV(prescrIndV),yV(prescrIndV),'marker','.','markersize', 5, 'linestyle','none','color','g', 'parent', hAxis, 'tag', 'ROIMask', 'hittest', 'off');
h3 = plot(xV(highDoseIndV),yV(highDoseIndV),'marker','.','markersize', 5, 'linestyle','none','color','b', 'parent', hAxis, 'tag', 'ROIMask', 'hittest', 'off');
stateS.handle.mask = [stateS.handle.mask, h1, h2, h3];
%Draw Mask on linked axes
for i=1:length(stateS.handle.CERRAxis)
linkedView = getAxisInfo(stateS.handle.CERRAxis(i),'view');
if ~strcmpi(linkedView,view)
continue;
end
UD = stateS.handle.aI(i); %get(stateS.handle.CERRAxis(i),'userdata');
if iscell(UD.view) && UD.view{2}==hAxis
h1 = plot(xV(lowDoseIndV),yV(lowDoseIndV),'marker','.','markersize', 5, 'linestyle','none','color','r', 'parent', stateS.handle.CERRAxis(i), 'tag', 'ROIMask', 'hittest', 'off');
h2 = plot(xV(prescrIndV),yV(prescrIndV),'marker','.','markersize', 5, 'linestyle','none','color','g', 'parent', stateS.handle.CERRAxis(i), 'tag', 'ROIMask', 'hittest', 'off');
h3 = plot(xV(highDoseIndV),yV(highDoseIndV),'marker','.','markersize', 5, 'linestyle','none','color','b', 'parent', stateS.handle.CERRAxis(i), 'tag', 'ROIMask', 'hittest', 'off');
stateS.handle.mask = [stateS.handle.mask, h1, h2, h3];
end
end
elseif ~strcmpi(view,'legend')
h = plot(xV,yV,'marker','.','markersize', 5, 'linestyle','none','color',structColor, 'parent', hAxis, 'tag', 'ROIMask', 'hittest', 'off');
stateS.handle.mask = [stateS.handle.mask, h];
end
end
case 'dshpoints' %show points on the surface of the ROI
structNum = str2num(word(in_str,2));
% This is for command line help funciton
if isempty(structNum)
prompt = {'Enter the Structure Number'};
dlg_title = 'Calculate Structure DSHPOINTS';
num_lines = 1;
def = {''};
structNum = inputdlg(prompt,dlg_title,num_lines,def);
if isempty(structNum)
return
else
structNum = str2num(structNum{1});
end
end
h = findobj('tag','DSHPoints');
if ~isempty(h)
delete(h)
return
end
pointsM = planC{indexS.structures}(structNum).DSHPoints;
if isempty(pointsM)
optS = planC{indexS.CERROptions};
planC = getDSHPoints(planC,optS,structNum);
pointsM = planC{indexS.structures}(structNum).DSHPoints;
end
zV = pointsM(:,3);
yV = pointsM(:,2);
xV = pointsM(:,1);
scanNum = getStructureAssociatedScan(structNum);
hAxis = stateS.handle.CERRAxis(stateS.currentAxis);
[view coord] = getAxisInfo(hAxis,'view','coord');
[xUniform,yUniform,zUniform] = getScanXYZVals(planC{indexS.scan}(scanNum));
switch lower(view)
case 'coronal'
errordlg('Current view not a transverse view')
return
sliceNum = findnearest(xUniform,coord);
indV = find(abs(xV - xUniform(sliceNum)) < 10 * eps); %mask values on this slice
xSliceV = yV(indV);
ySliceV = zV(indV);
case 'saggital'
errordlg('Current view not a transverse view')
return
sliceNum = findnearest(yUniform,coord);
indV = find(abs(yV - yUniform(sliceNum)) < 10 * eps); %mask values on this slice
xSliceV = xV(indV);
ySliceV = zV(indV);
case 'transverse'
sliceNum = findnearest(zUniform,coord);
indV = find(abs(zV - zUniform(sliceNum)) < 10 * eps); %mask values on this slice
xSliceV = xV(indV);
ySliceV = yV(indV);
end
hold on
h = plot(xSliceV,ySliceV,'r.');
set(h,'markersize',12)
set(h,'tag','DSHPoints')
hold off
return
case 'make'
w2 = word(in_str,2);
if strcmpi(w2,'contour')
drawContour
end
case 'pick'
sliceCallBack('picksagcor')
return
case 'loop'
n = words(in_str);
if n > 1
[word1, start, stop] = word(in_str,1);
rest = in_str(stop+1:end);
rest = deblank2(rest);
sliceCallBack('loop',rest)
else
sliceCallBack('loop')
end
return
case 'movie'
sliceCallBack('movieloop')
return
case 'dose' %show dose of a point chosen with the mouse
sliceCallBack('TOGGLEDOSEQUERY');
return;
case 'scan'
sliceCallBack('TOGGLESCANQUERY');
return;
case {'3d','3-d'}
struct3Dvisualmenu('update')
case 'rename'
structRenameGUI('init');
case 'del'
w2 = word(in_str,2);
switch lower(w2)
case 'structure'
n = str2num(word(in_str,3));
if isempty(n)
prompt = {'Enter the structure number to delete:'};
dlg_title = 'Delete Structure';
num_lines = 1;
def = {''};
n = inputdlg(prompt,dlg_title,num_lines,def);
if isempty(n)
return
else
n = str2num(n{1});
end
end