Fix bugs

script/parse.js

@@ -5,6 +5,7 @@ var OSP = require('..');
 
 var options= {
     smooth: 8,
+    normalize: true,
     name: "My first spectrum"
 }
 
@@ -17,7 +18,7 @@ FS.readFile('./data/rgba.txt', 'utf8', function (err,data) {
         return console.log(err);
     }
     var spectra=OSP.parse(data, options);
-    var annotations=OSP.annotations(spectra.R, options);
+    var annotations=OSP.annotations(spectra.R);
     var chart=OSP.getChart(spectra);
 
     console.log(JSON.stringify(chart));

src/annotations.js

@@ -18,11 +18,11 @@ function getAnnotation(pixel, color, height) {
     };
 }
 
-module.exports=function(spectrum, options) {
+module.exports=function(spectrum) {
     var annotations=[];
-    annotations.push(getAnnotation(options.nMred,"red",15));
-    annotations.push(getAnnotation(options.nMblue,"blue",15));
-    annotations.push(getAnnotation(options.nMgreen,"green",15));
+    annotations.push(getAnnotation(spectrum.nMRed,"red",15));
+    annotations.push(getAnnotation(spectrum.nMBlue,"blue",15));
+    annotations.push(getAnnotation(spectrum.nMGreen,"green",15));
 
     var x=spectrum.x;
     for (var i=0; i<x.length; i++) {

src/parse.js

@@ -126,10 +126,9 @@ function addAbsorbanceTransmittance(spectra) {
     }
 }
 
-function addX(spectra, options) {
+function addX(spectra) {
     for (var key in spectra) {
         var spectrum=spectra[key];
-        console.log(spectrum);
         var diffPoints=spectrum.redPoint-spectrum.bluePoint;
         var diffNM=(spectrum.nMRed-spectrum.nMBlue)/(diffPoints-1);
         var length=spectrum.y.length;
@@ -167,7 +166,7 @@ module.exports = function (text, options) {
     addAbsorbanceTransmittance(spectra);
     addInfo(spectra, options);
     process(spectra, options);
-    addX(spectra,options);
+    addX(spectra);
 
     return spectra;
 }

src/process.js

@@ -50,7 +50,7 @@ module.exports=function(spectra, options) {
             smooth(spectra[key], options.smooth);
         }
         if (options.normalize) {
-            normalize(spectra[key].data);
+            normalize(spectra[key]);
         }
     }
 }