--- /dev/null
+/*
+ * heatmapsim.cpp
+ * Mothur
+ *
+ * Created by Sarah Westcott on 6/8/09.
+ * Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
+ *
+ */
+
+#include "heatmapsim.h"
+#include "sharedjabund.h"
+#include "sharedsorabund.h"
+#include "sharedjclass.h"
+#include "sharedsorclass.h"
+#include "sharedjest.h"
+#include "sharedsorest.h"
+#include "sharedthetayc.h"
+#include "sharedthetan.h"
+#include "sharedmorisitahorn.h"
+#include "sharedbraycurtis.h"
+
+//**********************************************************************************************************************
+HeatMapSim::HeatMapSim(string dir, string i, int f) : outputDir(dir), inputfile(i), fontSize(f) {
+ m = MothurOut::getInstance();
+}
+//**********************************************************************************************************************
+vector<string> HeatMapSim::getPic(vector<SharedRAbundVector*> lookup, vector<Calculator*> calcs) {
+ try {
+ EstOutput data;
+ vector<double> sims;
+ vector<string> outputNames;
+
+ //make file for each calculator selected
+ for (int k = 0; k < calcs.size(); k++) {
+
+ if (m->control_pressed) { return outputNames; }
+
+ string filenamesvg = outputDir + m->getRootName(m->getSimpleName(inputfile)) + lookup[0]->getLabel() + "." + calcs[k]->getName() + ".heatmap.sim.svg";
+ m->openOutputFile(filenamesvg, outsvg);
+ outputNames.push_back(filenamesvg);
+
+ //svg image
+ outsvg << "<svg xmlns:svg=\"http://www.w3.org/2000/svg\" xmlns=\"http://www.w3.org/2000/svg\" width=\"100%\" height=\"100%\" viewBox=\"0 0 " + toString((lookup.size() * 150) + 160) + " " + toString((lookup.size() * 150) + 160) + "\">\n";
+ outsvg << "<g>\n";
+
+ //white backround
+ outsvg << "<rect fill=\"white\" stroke=\"white\" x=\"0\" y=\"0\" width=\"" + toString((lookup.size() * 150) + 160) + "\" height=\"" + toString((lookup.size() * 150) + 160) + "\"/>";
+ outsvg << "<text fill=\"black\" class=\"seri\" font-size=\"" + toString(fontSize) + "\" x=\"" + toString((lookup.size() * 75) - 40) + "\" y=\"25\">Heatmap at distance " + lookup[0]->getLabel() + "</text>\n";
+
+ //column labels
+ for (int h = 0; h < lookup.size(); h++) {
+ outsvg << "<text fill=\"black\" class=\"seri\" font-size=\"" + toString(fontSize) + "\" x=\"" + toString(((150 * (h+1)) ) - ((int)lookup[h]->getGroup().length() / 2)) + "\" y=\"50\">" + lookup[h]->getGroup() + "</text>\n";
+ outsvg << "<text fill=\"black\" class=\"seri\" font-size=\"" + toString(fontSize) + "\" y=\"" + toString(((150 * (h+1)) ) - ((int)lookup[h]->getGroup().length() / 2)) + "\" x=\"50\">" + lookup[h]->getGroup() + "</text>\n";
+ }
+
+ sims.clear();
+// double biggest = -1;
+ double biggest = 1;
+ float scaler;
+
+ //get sim for each comparison and save them so you can find the relative similairity
+ for(int i = 0; i < (lookup.size()-1); i++){
+ for(int j = (i+1); j < lookup.size(); j++){
+
+ if (m->control_pressed) { outsvg.close(); return outputNames; }
+
+ vector<SharedRAbundVector*> subset;
+ subset.push_back(lookup[i]); subset.push_back(lookup[j]);
+
+ //get similairity between groups
+ data = calcs[k]->getValues(subset);
+ sims.push_back(1.0 - data[0]);
+
+ //save biggest similairity to set relative sim
+// if (data[0] > biggest) { biggest = data[0]; }
+ }
+ }
+
+ //map biggest similairity found to red
+ scaler = 255.0 / biggest;
+
+ int count = 0;
+ //output similairites to file
+ for(int i = 0; i < (lookup.size()-1); i++){
+ for(int j = (i+1); j < lookup.size(); j++){
+
+ //find relative color
+ int color = scaler * sims[count];
+ //draw box
+ outsvg << "<rect fill=\"rgb(" + toString(color) + ",0,0)\" stroke=\"rgb(" + toString(color) + ",0,0)\" x=\"" + toString((i*150)+80) + "\" y=\"" + toString((j*150)+75) + "\" width=\"150\" height=\"150\"/>\n";
+ count++;
+ }
+ }
+
+ int y = ((lookup.size() * 150) + 120);
+ printLegend(y, biggest);
+
+ outsvg << "</g>\n</svg>\n";
+ outsvg.close();
+
+ }
+
+ return outputNames;
+ }
+ catch(exception& e) {
+ m->errorOut(e, "HeatMapSim", "getPic");
+ exit(1);
+ }
+}
+//**********************************************************************************************************************
+string HeatMapSim::getPic(vector< vector<double> > dists, vector<string> groups) {
+ try {
+
+ vector<double> sims;
+
+ string filenamesvg = outputDir + m->getRootName(m->getSimpleName(inputfile)) + "heatmap.sim.svg";
+ m->openOutputFile(filenamesvg, outsvg);
+
+ //svg image
+ outsvg << "<svg xmlns:svg=\"http://www.w3.org/2000/svg\" xmlns=\"http://www.w3.org/2000/svg\" width=\"100%\" height=\"100%\" viewBox=\"0 0 " + toString((dists.size() * 150) + 160) + " " + toString((dists.size() * 150) + 160) + "\">\n";
+ outsvg << "<g>\n";
+
+ //white backround
+ outsvg << "<rect fill=\"white\" stroke=\"white\" x=\"0\" y=\"0\" width=\"" + toString((dists.size() * 150) + 160) + "\" height=\"" + toString((dists.size() * 150) + 160) + "\"/>";
+ outsvg << "<text fill=\"black\" class=\"seri\" font-size=\"" + toString(fontSize) + "\" x=\"" + toString((dists.size() * 75) - 40) + "\" y=\"25\">Heatmap for " + inputfile + "</text>\n";
+
+ //column labels
+ for (int h = 0; h < groups.size(); h++) {
+ outsvg << "<text fill=\"black\" class=\"seri\" font-size=\"" + toString(fontSize) + "\" x=\"" + toString(((150 * (h+1)) ) - ((int)groups[h].length() / 2)) + "\" y=\"50\">" + groups[h] + "</text>\n";
+ outsvg << "<text fill=\"black\" class=\"seri\" font-size=\"" + toString(fontSize) + "\" y=\"" + toString(((150 * (h+1)) ) - ((int)groups[h].length() / 2)) + "\" x=\"50\">" + groups[h] + "</text>\n";
+ }
+
+ double biggest = -1;
+ float scaler;
+
+ //get sim for each comparison and save them so you can find the relative similairity
+ for(int i = 0; i < (dists.size()-1); i++){
+ for(int j = (i+1); j < dists.size(); j++){
+
+ if (m->control_pressed) { outsvg.close(); return filenamesvg; }
+
+ float sim = 1.0 - dists[i][j];
+ sims.push_back(sim);
+
+ //save biggest similairity to set relative sim
+ if (sim > biggest) { biggest = sim; }
+ }
+ }
+
+ //map biggest similairity found to red
+ scaler = 255.0 / biggest;
+
+ int count = 0;
+ //output similairites to file
+ for(int i = 0; i < (dists.size()-1); i++){
+ for(int j = (i+1); j < dists.size(); j++){
+
+ //find relative color
+ int color = scaler * sims[count];
+ //draw box
+ outsvg << "<rect fill=\"rgb(" + toString(color) + ",0,0)\" stroke=\"rgb(" + toString(color) + ",0,0)\" x=\"" + toString((i*150)+80) + "\" y=\"" + toString((j*150)+75) + "\" width=\"150\" height=\"150\"/>\n";
+ count++;
+ }
+ }
+
+ int y = ((dists.size() * 150) + 120);
+ printLegend(y, biggest);
+
+ outsvg << "</g>\n</svg>\n";
+ outsvg.close();
+
+ return filenamesvg;
+
+ }
+ catch(exception& e) {
+ m->errorOut(e, "HeatMapSim", "getPic");
+ exit(1);
+ }
+}
+
+//**********************************************************************************************************************
+
+void HeatMapSim::printLegend(int y, float maxSim) {
+ try {
+ maxSim = 1;
+
+ //output legend and color labels
+ //go through map and give each score a color value
+ string color;
+ int x = 10;
+
+ //prints legend
+ for (int i = 1; i < 255; i++) {
+ color = toHex(int((float)(i)));
+ outsvg << "<rect fill=\"#" + color + "0000\" stroke=\"#" + color + "0000\" x=\"" + toString(x) + "\" y=\"" + toString(y) + "\" width=\"3\" height=\"30\"/>\n";
+ x += 3;
+ }
+
+ float scaler = maxSim / 5.0;
+
+ //prints legend labels
+ x = 0;
+ for (int i = 0; i<=5; i++) {
+ float label = scaler*i;
+ label = int(label * 1000 + 0.5);
+ label /= 1000.0;
+ string text = toString(label, 1);
+
+ outsvg << "<text fill=\"black\" class=\"seri\" font-size=\"" + toString(fontSize) + "\" x=\"" + toString(x) + "\" y=\"" + toString(y-3) + "\">" + text + "</text>\n";
+ x += 153;
+ }
+ }
+
+ catch(exception& e) {
+ m->errorOut(e, "HeatMapSim", "printLegend");
+ exit(1);
+ }
+}
+
+//**********************************************************************************************************************
+
+
+
+
projects / mothur.git / blobdiff