added file name sorting code to abrastract analysis

there does seem to be some kind of strange file saving ordering problem
going on... into the 'drawing' --> folder. will look at it and try and
see what its doing wrong

config.refindx

@@ -1,45 +1,46 @@
 <!-- THIS FILE NEEDS TO GO IN THE APPLICATION /data/ folder -->
 
 <config>
-<camera>
-<id>1</id>
-<width>640</width>
-<height>480</height>
-</camera>
-<display>
-<fps>30</fps>
-</display>
-<locale>
-<name>SWANSEA</name>
-</locale>
+    <mode>drawing</mode>
+	<camera>
+		<id>1</id>
+		<width>640</width>
+		<height>480</height>
+	</camera>
+	<display>
+		<fps>30</fps>
+    </display>
+	<locale>
+		<name>SWANSEA</name>
+	</locale>
 
-<analysis_NUM_RUN>
-<NUM_RUN_shadowscapes>          3      </NUM_RUN_shadowscapes>
-<NUM_RUN_relaxrate>             3      </NUM_RUN_relaxrate>
-<NUM_RUN_iresponse>             3      </NUM_RUN_iresponse>
-<NUM_RUN_shapefromshading>      3      </NUM_RUN_shapefromshading>
-<NUM_RUN_strobe>                5      </NUM_RUN_strobe>
-<NUM_RUN_camnoise>              5      </NUM_RUN_camnoise>
-<NUM_RUN_colorsingle>           5      </NUM_RUN_colorsingle>
-<NUM_RUN_colormulti>            5      </NUM_RUN_colormulti>
-<NUM_RUN_diffnoise>             3      </NUM_RUN_diffnoise>
-</analysis_NUM_RUN>
-
-<analysis_time>
-<acquiretime_shadowscapes>      30      </acquiretime_shadowscapes>
-<acquiretime_relaxrate>         30      </acquiretime_relaxrate>
-<acquiretime_iresponse>         30      </acquiretime_iresponse>
-<acquiretime_shapefromshading>  30      </acquiretime_shapefromshading>
-<acquiretime_strobe>            30      </acquiretime_strobe>
-<acquiretime_camnoise>          30      </acquiretime_camnoise>
-<acquiretime_colorsingle>       40      </acquiretime_colorsingle>
-<acquiretime_colormulti>        40      </acquiretime_colormulti>
-<acquiretime_diffnoise>         30      </acquiretime_diffnoise>
-</analysis_time>
-
-<relaxrate>
-<threshold>51</threshold>
-<maxblobs>25</maxblobs>
-</relaxrate>
+    <analysis_NUM_RUN>
+        <NUM_RUN_shadowscapes>          3      </NUM_RUN_shadowscapes>
+        <NUM_RUN_relaxrate>             3      </NUM_RUN_relaxrate>
+        <NUM_RUN_iresponse>             3      </NUM_RUN_iresponse>
+        <NUM_RUN_shapefromshading>      3      </NUM_RUN_shapefromshading>
+        <NUM_RUN_strobe>                5      </NUM_RUN_strobe>
+        <NUM_RUN_camnoise>              5      </NUM_RUN_camnoise>
+        <NUM_RUN_colorsingle>           5      </NUM_RUN_colorsingle>
+        <NUM_RUN_colormulti>            5      </NUM_RUN_colormulti>
+        <NUM_RUN_diffnoise>             3      </NUM_RUN_diffnoise>
+    </analysis_NUM_RUN>
 
+    <analysis_time>
+        <acquiretime_shadowscapes>      30      </acquiretime_shadowscapes>
+        <acquiretime_relaxrate>         30      </acquiretime_relaxrate>
+        <acquiretime_iresponse>         30      </acquiretime_iresponse>
+        <acquiretime_shapefromshading>  30      </acquiretime_shapefromshading>
+        <acquiretime_strobe>            30      </acquiretime_strobe>
+        <acquiretime_camnoise>          30      </acquiretime_camnoise>
+        <acquiretime_colorsingle>       40      </acquiretime_colorsingle>
+        <acquiretime_colormulti>        40      </acquiretime_colormulti>
+        <acquiretime_diffnoise>         30      </acquiretime_diffnoise>
+    </analysis_time>
+    
+    <relaxrate>
+        <treshold>51</treshold>
+        <maxblobs>25</maxblobs>
+    </relaxrate>
+    
 </config>

example/RefractiveIndex.cpp

@@ -55,7 +55,7 @@ void RefractiveIndex::setup()
     // <mode>
     string m = XML.getValue("config:mode", "analysing");
     _mode = (m == "analysing" ? MODE_ANALYSING : (m == "drawing" ? MODE_DRAWING : MODE_ANALYSING));
-    
+        
     // <camera>
     _vid_id = XML.getValue("config:camera:id", CAMERA_ID);
     cout << "_vid_id: " << _vid_id << endl;
@@ -65,12 +65,12 @@ void RefractiveIndex::setup()
     
     // <display>
     int fps = XML.getValue("config:display:fps", 30);
-    
+            
     // <location>
     _location = XML.getValue("config:locale:name", LOCATION);
-    
+        
     cout << "Configuring..." << endl;
-    
+
     // display
     cout << "> display" << endl;
     ofSetFrameRate(fps);
@@ -94,9 +94,9 @@ void RefractiveIndex::setup()
     }
     
     cout << "RRRRRREADY!" << endl;        
-    
+
     _analysisAdapator = NULL;
-    
+
     //getting a warning from the OFlog that the pixels aren't allocated
     //void ofPixels::allocate(int w, int h, ofImageType type)    
     _pixels.allocate(_vid_w, _vid_h, OF_IMAGE_COLOR); 
@@ -107,7 +107,7 @@ void RefractiveIndex::setup()
     _analysisVector.push_back(new ShadowScapesAnalysis(V)); 
     _analysisVector.push_back(new ShadowScapesAnalysis(H));
     _analysisVector.push_back(new ShadowScapesAnalysis(D));
-    
+	    
     _analysisVector.push_back(new RelaxRateAnalysis());
     
 	
@@ -125,7 +125,7 @@ void RefractiveIndex::setup()
     
     _analysisVector.push_back(new DiffNoiseAnalysis());	
     
-    
+
     //_currentAnalysisIndx = 0;
     //_currentAnalysis = _analysisVector.at(_currentAnalysisIndx++); 
     //_state = ISTATE_START;
@@ -210,7 +210,7 @@ void RefractiveIndex::draw()
     
     // black
     ofBackground(0, 0, 0);
-    
+           
     if(_currentAnalysis)
         _currentAnalysis->draw();
 }
@@ -271,7 +271,7 @@ void RefractiveIndex::keyPressed  (int key)
         if(!_currentAnalysis)
             _state = ISTATE_TRANSITION;            
     }
-    
+
     else if(key == '2')
     {
         if(_currentAnalysis)
@@ -280,7 +280,7 @@ void RefractiveIndex::keyPressed  (int key)
         if(!_currentAnalysis)
             _state = ISTATE_TRANSITION;            
     }
-    
+
     else if(key == '3')
     {        
         if(_currentAnalysis)
@@ -352,7 +352,7 @@ void RefractiveIndex::keyPressed  (int key)
         if(!_currentAnalysis)
             _state = ISTATE_TRANSITION;            
     }
-    
+
     else if(key == 'q')
     {
         if(_currentAnalysis)
@@ -366,42 +366,42 @@ void RefractiveIndex::keyPressed  (int key)
      TO DO:  add a file dialog so we can save images to another hard drive...
      e.g.: http://dev.openframeworks.cc/pipermail/of-dev-openframeworks.cc/2011-April/003125.html
      
-     >> 		case 's':
-     >> 			doSave ^= true;
-     >> 			doLoad = false;
-     >> 			if(doSave) {
-     >> 				ofFileDialogResult r = ofSystemLoadDialog("Select path to save to", true);
-     >> 				if(r.bSuccess) {
-     >> 					saveCounter = 0;
-     >> 					savePath = r.getPath();
-     >> 					ofDirectory::createDirectory(savePath + "/color/");
-     >> 					ofDirectory::createDirectory(savePath + "/depth/");
-     >> 					printf("SAVE %s %s\n", r.getPath().c_str(), r.getName().c_str());
-     >> 				} else {
-     >> 					doSave = false;
-     >> 				}
-     >> 				
-     >> 			}
-     >> 			break;
-     >> 			
-     >> 		case 'l':
-     >> 			doLoad ^= true;
-     >> 			doSave = false;
-     >> 			if(doLoad) {
-     >> 				ofFileDialogResult r = ofSystemLoadDialog("Select path to load from", true);
-     >> 				if(r.bSuccess) {
-     >> 					loadCounter = 0;
-     >> 					loadPath = r.getPath();
-     >> 					ofDirectory dir;
-     >> 					loadMaxFiles = MAX(dir.listDir(loadPath + "/color"), dir.listDir(loadPath + "/depth"));
-     >> 					printf("LOAD %i %s %s\n", loadMaxFiles, r.getPath().c_str(), r.getName().c_str());
-     >> 				} else {
-     >> 					doLoad = false;
-     >> 				}
-     >> 				
-     >> 			}
-     >> 			break;
-     */
+>> 		case 's':
+>> 			doSave ^= true;
+>> 			doLoad = false;
+>> 			if(doSave) {
+>> 				ofFileDialogResult r = ofSystemLoadDialog("Select path to save to", true);
+>> 				if(r.bSuccess) {
+>> 					saveCounter = 0;
+>> 					savePath = r.getPath();
+>> 					ofDirectory::createDirectory(savePath + "/color/");
+>> 					ofDirectory::createDirectory(savePath + "/depth/");
+>> 					printf("SAVE %s %s\n", r.getPath().c_str(), r.getName().c_str());
+>> 				} else {
+>> 					doSave = false;
+>> 				}
+>> 				
+>> 			}
+>> 			break;
+>> 			
+>> 		case 'l':
+>> 			doLoad ^= true;
+>> 			doSave = false;
+>> 			if(doLoad) {
+>> 				ofFileDialogResult r = ofSystemLoadDialog("Select path to load from", true);
+>> 				if(r.bSuccess) {
+>> 					loadCounter = 0;
+>> 					loadPath = r.getPath();
+>> 					ofDirectory dir;
+>> 					loadMaxFiles = MAX(dir.listDir(loadPath + "/color"), dir.listDir(loadPath + "/depth"));
+>> 					printf("LOAD %i %s %s\n", loadMaxFiles, r.getPath().c_str(), r.getName().c_str());
+>> 				} else {
+>> 					doLoad = false;
+>> 				}
+>> 				
+>> 			}
+>> 			break;
+    */
     
     
 }

src/AbstractAnalysis.cpp

@@ -3,31 +3,72 @@
 #include "AbstractAnalysis.h"
 #include "RefractiveIndex.h"
 #include "ofxFileHelper.h"
+#include "ofSystemUtils.h"
+
+void AbstractAnalysis::setup(int camWidth, int camHeight) {
+    
+    _cam_w = camWidth; _cam_h = camHeight;
+    
+    if(RefractiveIndex::_mode == MODE_DRAWING) {
+        ofFileDialogResult r = ofSystemLoadDialog("choooose da folda", true);
+        if(!r.bSuccess) {
+            ofSystemAlertDialog("OOOOPS.... ERROR...");
+            return;
+        }
+                
+        _whole_file_path_analysis = r.filePath;
+        _whole_file_path_synthesis = r.filePath + "/darwings";        
+    }
+    
+}
 
 // this is the main threaded loop for a given analysis
 void AbstractAnalysis::do_synthesize() {
     
-    for(int i = 0; i < NUM_RUN; i++) {
-        
-        cout << "NUM_RUN: " << i << endl;
+    switch(RefractiveIndex::_mode)
+    {
+        case MODE_ANALYSING:
+        {
+            for(int i = 0; i < NUM_RUN; i++) {
                 
-        _saved_filenames_analysis.clear();  
-        _saved_filenames_synthesis.clear(); 
-
-        _state = STATE_ACQUIRING;
-        acquire();
-        if(_state == STATE_STOP) goto exit;
-        _state = STATE_SYNTHESISING;
-        synthesise();
-        if(_state == STATE_STOP) goto exit;
-        _state = STATE_DISPLAY_RESULTS;
-        displayresults();
-        cleanup();
+                cout << "NUM_RUN: " << i << endl;
+                
+                _saved_filenames_analysis.clear();  
+                _saved_filenames_synthesis.clear(); 
+                
+                _state = STATE_ACQUIRING;
+                acquire();
+                if(_state == STATE_STOP) goto exit;
+                _state = STATE_SYNTHESISING;
+                synthesise();
+                if(_state == STATE_STOP) goto exit;
+                _state = STATE_DISPLAY_RESULTS;
+                displayresults();
+                cleanup();
+            }                    
+        }
+            
+        case MODE_DRAWING:
+        {            
+            ofxFileHelper fileHelperDrawing;
+            if(!fileHelperDrawing.doesDirectoryExist(_whole_file_path_synthesis)){
+                fileHelperDrawing.makeDirectory(_whole_file_path_synthesis);
+            }            
+            
+            read_dir_create_list(_whole_file_path_analysis);
+            _state = STATE_SYNTHESISING;
+            synthesise();
+            if(_state == STATE_STOP) goto exit;
+            _state = STATE_DISPLAY_RESULTS;
+            displayresults();
+            cleanup();            
+        }
     }
     
-    exit:    
+exit:    
     cleanup();
-    ofNotifyEvent(_synthesize_cb, _name);
+    ofNotifyEvent(_synthesize_cb, _name);    
+    
 }
 
 void AbstractAnalysis::create_dir_allocate_images()
@@ -116,6 +157,57 @@ void AbstractAnalysis::create_dir_allocate_images()
 
 }
 
+
+
+
+bool cmp_file(string f0, string f1)
+
+{
+    
+    int v0 = atoi(f0.substr(0, f0.find("_")).c_str());
+    
+    int v1 = atoi(f1.substr(0, f1.find("_")).c_str());    
+    
+    return v0 < v1;
+    
+}
+
+
+
+void AbstractAnalysis::read_dir_create_list(string folder_path)
+
+{
+    
+    File dir(folder_path);
+    
+    
+    
+    if(dir.exists() && dir.isDirectory()) {
+        
+        vector<string> list;
+        
+        dir.list(list);   
+        
+        
+        
+        std::sort(list.begin(), list.end(), cmp_file);
+        
+        
+        
+        for(int i = 0; i < list.size(); i++) {
+            
+            string filepath = folder_path + "/" + list[i]; 
+            
+            _saved_filenames_analysis.push_back(filepath);
+            
+        }                
+        
+    }
+}
+
+
+
+
 void AbstractAnalysis::saveImageAnalysis(string filename)
 {
     
@@ -180,6 +272,7 @@ void AbstractAnalysis::saveImageSynthesis(string filename, ofxCvImage* newPixels
 #endif
     
     _saved_filenames_synthesis.push_back(_whole_file_path_synthesis+"/"+filename);
+            
     
 }
 

src/AbstractAnalysis.h

@@ -25,7 +25,7 @@ public:
     virtual ~AbstractAnalysis(){;}
     
     // generic function to set up the camera
-    virtual void setup(int camWidth, int camHeight){_cam_w = camWidth; _cam_h = camHeight;}  
+    virtual void setup(int camWidth, int camHeight);  
 
     // this is the main threaded loop for a given analysis
     void do_synthesize();
@@ -37,6 +37,8 @@ protected:
     
     virtual void create_dir_allocate_images();
     
+    virtual void read_dir_create_list(string folder_path);
+    
     virtual void saveImageAnalysis(string filename);
     virtual void saveImageSynthesis(string filename, ofxCvImage* newPixels, ofImageType newType);
     
@@ -54,7 +56,8 @@ protected:
     
         
 public:
-    string  _name;    
+    string  _name;       
+    string  _draw_directory;
     
     // event
     ofEvent<string> _synthesize_cb;    

src/CamNoiseAnalysis.cpp

@@ -15,6 +15,8 @@ using Poco::Thread;
 
 void CamNoiseAnalysis::setup(int camWidth, int camHeight)
 {
+    AbstractAnalysis::setup(camWidth, camHeight);
+    
     NUM_RUN = RefractiveIndex::XML.getValue("config:analysis_NUM_RUN:NUM_RUN_camnoise", NUMBER_RUNS);
     cout << "NUM_RUN CamNoiseAnalysis " << NUM_RUN << endl;
     //NUM_RUN = 5;

src/ColorMultiAnalysis.cpp

@@ -14,6 +14,8 @@ using Poco::Thread;
 
 void ColorMultiAnalysis::setup(int camWidth, int camHeight)
 {
+    AbstractAnalysis::setup(camWidth, camHeight);
+    
     NUM_RUN = RefractiveIndex::XML.getValue("config:analysis_NUM_RUN:NUM_RUN_colormulti", NUMBER_RUNS);
     cout << "NUM_RUN ColorMultiAnalysis " << NUM_RUN << endl;
     //NUM_RUN = 5;
@@ -246,6 +248,8 @@ void ColorMultiAnalysis::draw()
                     //cout << "FADING IN..." << endl;
                 }
                 
+                
+                
                 if (_frame_cnt >= _fade_in_frames && _frame_cnt < _frame_cnt_max-_fade_in_frames){
                     
                     aColor.setHsb(c, 255, 255);

src/ColorSingleAnalysis.cpp

@@ -15,6 +15,8 @@ using Poco::Thread;
 
 void ColorSingleAnalysis::setup(int camWidth, int camHeight)
 {
+    AbstractAnalysis::setup(camWidth, camHeight);
+    
     NUM_RUN = RefractiveIndex::XML.getValue("config:analysis_NUM_RUN:NUM_RUN_colorsingle", NUMBER_RUNS);
     cout << "NUM_RUN ColorSingleAnalysis " << NUM_RUN << endl;
     //NUM_RUN = 5;
@@ -22,11 +24,11 @@ void ColorSingleAnalysis::setup(int camWidth, int camHeight)
     int acq_run_time;   // 10 seconds of acquiring per run
     acq_run_time = RefractiveIndex::XML.getValue("config:analysis_time:acquiretime_colorsingle", ACQUIRE_TIME);
     cout << "ACQUIRE_TIME ColorSingleAnalysis " << acq_run_time << endl;
-
+    
     //int acq_run_time = 25;   // 20 seconds of acquiring per run
     
     DELTA_T_SAVE = 1*(10*acq_run_time/2); // for 20 seconds, we want this to be around 200 files
-                                            // or 10 times per second = every 100 ms
+    // or 10 times per second = every 100 ms
     
     _frame_cnt_max = acq_run_time*ofGetFrameRate();  // e.g.: 30 frames per second * 20 seconds = 600 frames
     
@@ -45,7 +47,7 @@ void ColorSingleAnalysis::setup(int camWidth, int camHeight)
     b = 0;
     
     fileNameTag = "";
-
+    
     _show_image = false;
     _image_shown = false;
     
@@ -101,11 +103,11 @@ void ColorSingleAnalysis::setup(int camWidth, int camHeight)
 
 void ColorSingleAnalysis::acquire()
 {
-
+    
     Timer* save_timer;
-
+    
     TimerCallback<ColorSingleAnalysis> save_callback(*this, &ColorSingleAnalysis::save_cb);
-
+    
     _run_cnt++;
     _frame_cnt = 0; _save_cnt = 0; _anim_cnt = 0, _synth_save_cnt = 0;
     _RUN_DONE = false;
@@ -113,17 +115,18 @@ void ColorSingleAnalysis::acquire()
     
     // RUN ROUTINE
     //for(int i = 0; i < NUM_RUN; i++) {
-      //  _run_cnt = i;
-        //cout << "RUN NUM = " << i;
-
+    //  _run_cnt = i;
+    //cout << "RUN NUM = " << i;
+    
     save_timer = new Timer(0, DELTA_T_SAVE); // timing interval for saving files
     save_timer->start(save_callback);
-        
-        while(!_RUN_DONE && _state != STATE_STOP)
-            Thread::sleep(3);
-
+    
+    while(!_RUN_DONE && _state != STATE_STOP)
+        Thread::sleep(3);
+    
     save_timer->stop();
-
+    
+    
     // }
 }
 
@@ -134,105 +137,13 @@ void ColorSingleAnalysis::synthesise()
     if(_state == STATE_STOP) return;
     
     for(float i=1;i<_saved_filenames_analysis.size()-1;i++){
-    
+        
         //cout << "ColorSingleAnalysis::synthesis FOR LOOP...\n";
+        
         //cout << "_saved_filenames_analysis[i]" << _saved_filenames_analysis[i] << endl;
         
         if(_state == STATE_STOP) return;
         
-        image1.loadImage("Mar_02_19_00_47_2/194_9.72_1.jpg");
-        image1.resize(image1.width/20, image1.height/20);
-        
-        int width = image1.width;
-        int height = image1.height;
-        
-        // get the pixels from the image
-        imagePixels = image1.getPixels();
-        
-        // ------------------- create the vector field ------------------------------------
-        
-        vectorCount = width * height;
-        
-        // create a 2d vector field
-        vectorField = new ofVec2f[vectorCount];
-        
-        // set all values in vector field to 0.0
-        for(int i=0; i<vectorCount; i++){
-            
-            vectorField[i].x = 0.0;
-            vectorField[i].y = 0.0;
-        }
-        
-        
-        // ------------------- calculate the vectors ------------------------------------
-        
-        // loop through all of the pixels
-        for(int x=1; x< width-1; x++){
-            for(int y=1; y< height-1; y++){
-                
-                char areaPixels[9];
-                
-                // loop through the area pixels
-                for(int i=-1; i<=1; i++){
-                    for(int j=-1; j<=1; j++){
-                        
-                        // determine where to read from in the area (not optimized)
-                        int readPos = ((y + j) * width + (x + i)) * 3;
-                        
-                        unsigned char R = imagePixels[readPos];
-                        unsigned char G = imagePixels[readPos+1];
-                        unsigned char B = imagePixels[readPos+2];
-                        
-                        unsigned char BR = (0.299 * R) + (.587 * G) + (.114 * B);
-                        
-                        int writePos = (j+1) * 3 + (i + 1);
-                        
-                        areaPixels[writePos] = BR;
-                    }
-                }
-                
-                
-                
-                float dX = (areaPixels[0] + areaPixels[3] + areaPixels[6])/3 - (areaPixels[2] + areaPixels[5] + areaPixels[8])/3;
-                float dY = (areaPixels[0] + areaPixels[1] + areaPixels[2])/3 - (areaPixels[6] + areaPixels[7] + areaPixels[8])/3;
-                
-                int vectorPos = y * width + x;
-                
-                //printf("dx %f\n", dX);
-                
-                vectorField[vectorPos].x = dX;
-                vectorField[vectorPos].y = dY;
-                
-                //vectorField[vectorPos].x = -dY;
-                //vectorField[vectorPos].y = dX;
-                
-            }
-        }
-        
-        
-        
-        // ------------------- normalize the vectors ------------------------------------
-        
-        // variables for the maximum magnitude (absolute) in x and y
-        float maxMagX = 1.0;
-        float maxMagY = 1.0;
-        
-        // loop through the vector field to find the maximum x and y values
-        for(int i=0; i< vectorCount; i++){
-            
-            if(fabs(vectorField[i].x) > maxMagX)  maxMagX = fabs(vectorField[i].x);
-            if(fabs(vectorField[i].y) > maxMagY)  maxMagY = fabs(vectorField[i].y);
-        }
-        
-        // loop through the vector field to normalize the values
-        for(int i=0; i< vectorCount; i++){
-            
-            vectorField[i].x /= maxMagX;
-            vectorField[i].y /= maxMagY;
-        }
-        
-        // COMMENTING OUT THE FILLER SYNTH ALGORITHM
-        /*  
         if(!image1.loadImage(_saved_filenames_analysis[i])){
             //couldn't load image
             cout << "didn't load image" << endl;
@@ -241,54 +152,51 @@ void ColorSingleAnalysis::synthesise()
         if(image1.loadImage(_saved_filenames_analysis[i])){
             //cout << "LOADED image1!!!" << endl;
             //if(image5.loadImage(_saved_filenames_analysis[i+1])){
-                
-                ///////////////////////// PROCESS THE SAVED CAMERA IMAGES OF SHIT TO THE IMAGES //////////////////////////
-                
-                cvColorImage1.setFromPixels(image1.getPixels(), image1.width, image1.height);
-                //cvColorImage2.setFromPixels(image5.getPixels(), image5.width, image5.height);
-                
-                cvColorImage1.blur(5);
-                cvColorImage1.erode();
-                cvColorImage1.erode();
-                cvColorImage1.dilate();
-                cvColorImage1.blur(5);
-                cvColorImage1.erode();
-                cvColorImage1.erode();
-                cvColorImage1.erode();
-                cvColorImage1.erode();
             
-                /////////////////////////////////// SAVE TO DISK IN THE SYNTHESIS FOLDER ////////////////////////////////
-                string file_name;
-                
-                file_name = ofToString(_synth_save_cnt, 2)+"_ColorSingleAnalysis_"+ofToString(_run_cnt,2)+".jpg";
-                
-                
-                //<---- THE OLD WAY OF SAVING - works on OSX but generates BLACK FRAMES on WINDOWS ---->
-                // ofSaveImage(cvGrayImage1.getPixelsRef(),_whole_file_path_synthesis+"/"+file_name, OF_IMAGE_QUALITY_BEST);
-                
-                
-                //<---- NEW SAVING - seems to fix WINDOWS saving out BLACK FRAMES PROBLEM ---->
-                //ofImage image;
-                //image.allocate(cvColorImage1.width, cvColorImage1.height, OF_IMAGE_COLOR);
-                
-                // This needs to be here for OSX of we get a BAD ACCESS ERROR. DOES IT BREAK WINDOWS? 
-                //image.setUseTexture(false);  
-                
-                //image.setFromPixels(cvColorImage1.getPixels(), cvColorImage1.width, cvColorImage1.height,OF_IMAGE_COLOR);
-                //image.saveImage(_whole_file_path_synthesis+"/"+file_name);
+            ///////////////////////// PROCESS THE SAVED CAMERA IMAGES OF SHIT TO THE IMAGES //////////////////////////
             
-                //_saved_filenames_synthesis.push_back(_whole_file_path_synthesis+"/"+file_name);
-                
-                // <--- REALLY NEW SAVING METHOD --- 26 feb 2012 --- consolidated the save function into Abstract Analysis> ///
+            cvColorImage1.setFromPixels(image1.getPixels(), image1.width, image1.height);
+            //cvColorImage2.setFromPixels(image5.getPixels(), image5.width, image5.height);
             
-                saveImageSynthesis(file_name, &cvColorImage1, OF_IMAGE_COLOR);
-                _synth_save_cnt++;
-        
-           // }
-        
-         }
-         */
-        
+            cvColorImage1.blur(5);
+            cvColorImage1.erode();
+            cvColorImage1.erode();
+            cvColorImage1.dilate();
+            cvColorImage1.blur(5);
+            cvColorImage1.erode();
+            cvColorImage1.erode();
+            cvColorImage1.erode();
+            cvColorImage1.erode();
+            
+            /////////////////////////////////// SAVE TO DISK IN THE SYNTHESIS FOLDER ////////////////////////////////
+            string file_name;
+            
+            file_name = ofToString(_synth_save_cnt, 2)+"_ColorSingleAnalysis_"+ofToString(_run_cnt,2)+".jpg";
+            
+            
+            //<---- THE OLD WAY OF SAVING - works on OSX but generates BLACK FRAMES on WINDOWS ---->
+            // ofSaveImage(cvGrayImage1.getPixelsRef(),_whole_file_path_synthesis+"/"+file_name, OF_IMAGE_QUALITY_BEST);
+            
+            
+            //<---- NEW SAVING - seems to fix WINDOWS saving out BLACK FRAMES PROBLEM ---->
+            //ofImage image;
+            //image.allocate(cvColorImage1.width, cvColorImage1.height, OF_IMAGE_COLOR);
+            
+            //*** This needs to be here for OSX of we get a BAD ACCESS ERROR. DOES IT BREAK WINDOWS? ***//
+            //image.setUseTexture(false);  
+            
+            //image.setFromPixels(cvColorImage1.getPixels(), cvColorImage1.width, cvColorImage1.height,OF_IMAGE_COLOR);
+            //image.saveImage(_whole_file_path_synthesis+"/"+file_name);
+            
+            //_saved_filenames_synthesis.push_back(_whole_file_path_synthesis+"/"+file_name);
+            
+            // <--- REALLY NEW SAVING METHOD --- 26 feb 2012 --- consolidated the save function into Abstract Analysis> ///
+            
+            saveImageSynthesis(file_name, &cvColorImage1, OF_IMAGE_COLOR);
+            _synth_save_cnt++;
+            
+            // }
+        }
     }
     
     // _saved_filenames_synthesis has processed all the files in the analysis images folder
@@ -297,23 +205,8 @@ void ColorSingleAnalysis::synthesise()
     
 }
 
-// 
 void ColorSingleAnalysis::displayresults()
 {
-    
-    if(_state == STATE_STOP) return;
-    
-    _show_image = true;
-    _image_shown = false;
-    
-    //cout << "_saved_filenames_analysis[i] - " << _saved_filenames_synthesis[i] << endl;
-    
-    while(!_image_shown){
-        Thread::sleep(2);
-        //cout << "!_image_shown" << endl;
-    }
-    
-    /*
     for(float i=1;i<_saved_filenames_synthesis.size();i++){
         
         if(_state == STATE_STOP) return;
@@ -337,7 +230,6 @@ void ColorSingleAnalysis::displayresults()
             _image_shown = false;
         }
     }
-    */
     
 }
 
@@ -348,9 +240,11 @@ void ColorSingleAnalysis::draw()
     switch (_state) {
         case STATE_ACQUIRING:
         {
+            
+            
             if (_frame_cnt < _frame_cnt_max)
             {
-                    
+                
                 float one_third_of_frame_count_max=_frame_cnt_max/3;
                 int _fade_in_frames = one_third_of_frame_count_max/10;
                 
@@ -388,15 +282,15 @@ void ColorSingleAnalysis::draw()
                 }
                 
                 if (_frame_cnt >= (_frame_cnt_max-_fade_in_frames) && _frame_cnt < _frame_cnt_max){
-                   
+                    
                     int fade = ofMap(_fade_cnt, 0, _fade_in_frames, 0, 255);
                     ofSetColor(0, 0, 255-fade);
-        
+                    
                     ofRect(0, 0, ofGetWidth(), ofGetHeight());
                     _fade_cnt++;
                     fileNameTag = "FADING";
                 }
-            
+                
             } else {
                 //_state = STATE_SYNTHESISING;
                 _RUN_DONE = true;
@@ -432,7 +326,7 @@ void ColorSingleAnalysis::draw()
                 //ofRotate(ofMap(_anim_cnt/2.0, 0, _anim_cnt_max, 0, 360));
                 
                 if (_anim_cnt < _fade_in_frames) {
-                   // cout << "ColorSingleAnalysis STATE_SYNTHESIZING = FADING IN ANIMATION...\n";
+                    // cout << "ColorSingleAnalysis STATE_SYNTHESIZING = FADING IN ANIMATION...\n";
                     
                     fade = ofMap(_anim_cnt, 0, _fade_in_frames, 0, 255);
                     
@@ -493,49 +387,9 @@ void ColorSingleAnalysis::draw()
         case STATE_DISPLAY_RESULTS:
         {
             
-            cout << "case STATE_DISPLAY_RESULTS = true" << endl;
-
-            int width = image1.width;
-            int height = image1.height;
-            float spacing = 10;
-            
-            if (_frame_cnt > 2000)
-            {
-                _image_shown = true;
-                _frame_cnt=0;
-            }
-            
-            _frame_cnt++;
-
-            if (_show_image)
-            {  
-                
-                
-                cout << "_show_image = true" << endl;
-               
-                for(int x=0; x<width; x++){
-                    
-                    float xPos = (float) x * spacing + 5;
-                    
-                    for(int y=0; y<height; y++){
-                        float yPos = (float)y * spacing + 5;
-                        glPushMatrix();
-                            ofLine(xPos, yPos, xPos+(vectorField[y*width+x].x*spacing), yPos+(vectorField[y*width+x].y*spacing));
-                        glPopMatrix();
-                    }
-                }
-                
-                //this is where we save the full-frame software output to file... after the vectors, etc. are rendered... 
-                //saveImageSynthesis(file_name, &cvColorImage1, OF_IMAGE_COLOR);
-                
-            }
-            
-            _RUN_DONE = true;
-            break;
-
-            /*
             //cout << "STATE_DISPLAY_RESULTS...\n" << endl;
             
+            
             if (_frame_cnt > 2)
             {
                 _image_shown = true;
@@ -550,9 +404,9 @@ void ColorSingleAnalysis::draw()
                 
                 ofEnableAlphaBlending();
                 
-                    ofSetColor(255, 255, 255);
-                    image2.setFromPixels(image3.getPixels(),image3.width,image3.height, OF_IMAGE_COLOR);
-                    image2.draw(0,0, ofGetWidth(), ofGetHeight());
+                ofSetColor(255, 255, 255);
+                image2.setFromPixels(image3.getPixels(),image3.width,image3.height, OF_IMAGE_COLOR);
+                image2.draw(0,0, ofGetWidth(), ofGetHeight());
                 
                 ofDisableAlphaBlending();
             }
@@ -560,11 +414,12 @@ void ColorSingleAnalysis::draw()
             // display results of the synthesis
             _RUN_DONE = true;
             break;
-            */
+            
             
         }
+            
         default:
-        break;
+            break;
     }
     
 }
@@ -577,4 +432,4 @@ void ColorSingleAnalysis::save_cb(Timer& timer)
     string file_name =ofToString(_save_cnt,2)+"_"+fileNameTag+"_"+ofToString(_run_cnt,2)+".jpg";
     
     saveImageAnalysis(file_name);
-}
+}

src/ColorSingleAnalysis.h

@@ -68,5 +68,5 @@ protected:
     unsigned char * imagePixels;
     int vectorCount;
     ofVec2f * vectorField;
-    
+
 };

src/DiffNoiseAnalysis.cpp

@@ -15,6 +15,8 @@ using Poco::Thread;
 
 void DiffNoiseAnalysis::setup(int camWidth, int camHeight)
 {
+    AbstractAnalysis::setup(camWidth, camHeight);
+    
     NUM_RUN = RefractiveIndex::XML.getValue("config:analysis_NUM_RUN:NUM_RUN_diffnoise", NUMBER_RUNS);
     cout << "NUM_RUN DiffNoiseAnalysis " << NUM_RUN << endl;
     //NUM_RUN = 5;

src/IResponseAnalysis.cpp

@@ -15,6 +15,8 @@ using Poco::Thread;
 
 void IResponseAnalysis::setup(int camWidth, int camHeight)
 {
+    AbstractAnalysis::setup(camWidth, camHeight);
+        
     NUM_RUN = RefractiveIndex::XML.getValue("config:analysis_NUM_RUN:NUM_RUN_iresponse", NUMBER_RUNS);
     cout << "NUM_RUN IResponseAnalysis " << NUM_RUN << endl;
     //NUM_RUN = 5;

src/RelaxRateAnalysis.cpp

@@ -12,11 +12,13 @@ using Poco::Thread;
 
 #define NUMBER_RUNS     1
 #define ACQUIRE_TIME    20
-#define THRESHOLD        80
+#define TRESHOLD        80
 #define MAXBLOBS        15
 
 void RelaxRateAnalysis::setup(int camWidth, int camHeight)
 {
+    AbstractAnalysis::setup(camWidth, camHeight);
+    
     NUM_RUN = RefractiveIndex::XML.getValue("config:analysis_NUM_RUN:NUM_RUN_relaxrate", NUMBER_RUNS);
     cout << "NUM_RUN RelaxRateAnalysis " << NUM_RUN << endl;
     //NUM_RUN = 5;
@@ -25,8 +27,8 @@ void RelaxRateAnalysis::setup(int camWidth, int camHeight)
     acq_run_time = RefractiveIndex::XML.getValue("config:analysis_time:acquiretime_relaxrate", ACQUIRE_TIME);
     cout << "ACQUIRE_TIME RelaxRateAnalysis " << acq_run_time << endl;
     
-    _threshold = RefractiveIndex::XML.getValue("config:relaxrate:threshold", THRESHOLD);
-    cout << "THRESHOLD RelaxRateAnalysis " << _threshold << endl;
+    _treshold = RefractiveIndex::XML.getValue("config:relaxrate:treshold", TRESHOLD);
+    cout << "TRESHOLD RelaxRateAnalysis " << _treshold << endl;
     
     _maxblobs = RefractiveIndex::XML.getValue("config:relaxrate:maxblobs", MAXBLOBS);
     cout << "MAXBLOBS RelaxRateAnalysis " << _maxblobs << endl;
@@ -116,7 +118,7 @@ void RelaxRateAnalysis::synthesise()
             cvColorImage1.setFromPixels(image1.getPixels(), image1.width, image1.height);            
             cvColorImage1.convertToGrayscalePlanarImage(cvGrayDiff1, 1);
             
-            cvGrayDiff1.threshold(_threshold);
+            cvGrayDiff1.threshold(_treshold);
             
             rfiCvContourFinder* cf = new rfiCvContourFinder();
             

src/RelaxRateAnalysis.h

@@ -39,7 +39,7 @@ protected:
     int     _run_cnt, _save_cnt, _synth_save_cnt, _anim_cnt;
     float   c, _frame_cnt, _frame_cnt_max, _anim_cnt_max;
     
-    int     _threshold;
+    int     _treshold;
     int     _maxblobs;
     
     bool _show_image, _image_shown;

src/ShadowScapesAnalysis.cpp

@@ -19,6 +19,8 @@ using Poco::Thread;
 
 void ShadowScapesAnalysis::setup(int camWidth, int camHeight)
 {
+    AbstractAnalysis::setup(camWidth, camHeight);
+    
     NUM_RUN = RefractiveIndex::XML.getValue("config:analysis_NUM_RUN:NUM_RUN_shadowscapes", NUMBER_RUNS);
     cout << "NUM_RUN ShadowScapesAnalysis " << NUM_RUN << endl;
     //NUM_RUN = 5;

src/ShapeFromShadingAnalysis.cpp

@@ -15,6 +15,8 @@ using Poco::Thread;
 
 void ShapeFromShadingAnalysis::setup(int camWidth, int camHeight)
 {       
+    AbstractAnalysis::setup(camWidth, camHeight);
+    
     NUM_RUN = RefractiveIndex::XML.getValue("config:analysis_NUM_RUN:NUM_RUN_shapefromshading", NUMBER_RUNS);
     cout << "NUM_RUN ShapeFromShadingAnalysis " << NUM_RUN << endl;
     //NUM_RUN = 5;

src/StrobeAnalysis.cpp

@@ -15,6 +15,8 @@ using Poco::Thread;
 
 void StrobeAnalysis::setup(int camWidth, int camHeight)
 {
+    AbstractAnalysis::setup(camWidth, camHeight);
+    
     NUM_RUN = RefractiveIndex::XML.getValue("config:analysis_NUM_RUN:NUM_RUN_strobe", NUMBER_RUNS);
     cout << "NUM_RUN StrobeAnalysis " << NUM_RUN << endl;
     //NUM_RUN = 5;