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self_contained_example.html
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<!DOCTYPE html><html>
<head>
<title>Interactive Spectrum Development</title>
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<script>/**
* Parts Copyright (C) 2011-2012, Alex Russell (slightlyoff@chromium.org)
* Parts Copyright (C) Copyright (C) 1998-2000 Greg J. Badros
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* Use of this source code is governed by the LGPL, which can be found in the
* COPYING.LGPL file.
*
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*
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a.Expression(c),d.call(this,b,e,f),this.expression.addExpression(c,-1)}a.assert(this.strength instanceof a.Strength,"_strength not set")},toString:function(){return d.prototype.toString.call(this)+" = 0)"}})}(this.c||module.parent.exports||{}),function(a){"use strict";a.EditInfo=a.inherit({initialize:function(a,b,c,d,e){this.constraint=a,this.editPlus=b,this.editMinus=c,this.prevEditConstant=d,this.index=e},toString:function(){return"<cn="+this.constraint+", ep="+this.editPlus+", em="+this.editMinus+", pec="+this.prevEditConstant+", index="+this.index+">"}})}(this.c||module.parent.exports||{}),function(a){"use strict";a.Tableau=a.inherit({initialize:function(){this.columns=new a.HashTable,this.rows=new a.HashTable,this._infeasibleRows=new a.HashSet,this._externalRows=new a.HashSet,this._externalParametricVars=new a.HashSet},noteRemovedVariable:function(b,c){a.trace&&console.log("c.Tableau::noteRemovedVariable: ",b,c);var d=this.columns.get(b);c&&d&&d.delete(c)},noteAddedVariable:function(a,b){b&&this.insertColVar(a,b)},getInternalInfo:function(){var a="Tableau Information:\n";return a+="Rows: "+this.rows.size,a+=" (= "+(this.rows.size-1)+" constraints)",a+="\nColumns: "+this.columns.size,a+="\nInfeasible Rows: "+this._infeasibleRows.size,a+="\nExternal basic variables: "+this._externalRows.size,a+="\nExternal parametric variables: ",a+=this._externalParametricVars.size,a+="\n"},toString:function(){var a="Tableau:\n";return this.rows.each(function(b,c){a+=b,a+=" <==> ",a+=c,a+="\n"}),a+="\nColumns:\n",a+=this.columns,a+="\nInfeasible rows: ",a+=this._infeasibleRows,a+="External basic variables: ",a+=this._externalRows,a+="External parametric variables: ",a+=this._externalParametricVars},insertColVar:function(b,c){var d=this.columns.get(b);d||(d=new a.HashSet,this.columns.set(b,d)),d.add(c)},addRow:function(b,c){a.trace&&a.fnenterprint("addRow: "+b+", "+c),this.rows.set(b,c),c.terms.each(function(a){this.insertColVar(a,b),a.isExternal&&this._externalParametricVars.add(a)},this),b.isExternal&&this._externalRows.add(b),a.trace&&a.traceprint(""+this)},removeColumn:function(b){a.trace&&a.fnenterprint("removeColumn:"+b);var c=this.columns.get(b);c?(this.columns.delete(b),c.each(function(a){var c=this.rows.get(a);c.terms.delete(b)},this)):a.trace&&console.log("Could not find var",b,"in columns"),b.isExternal&&(this._externalRows.delete(b),this._externalParametricVars.delete(b))},removeRow:function(b){a.trace&&a.fnenterprint("removeRow:"+b);var c=this.rows.get(b);return a.assert(null!=c),c.terms.each(function(c){var e=this.columns.get(c);null!=e&&(a.trace&&console.log("removing from varset:",b),e.delete(b))},this),this._infeasibleRows.delete(b),b.isExternal&&this._externalRows.delete(b),this.rows.delete(b),a.trace&&a.fnexitprint("returning "+c),c},substituteOut:function(b,c){a.trace&&a.fnenterprint("substituteOut:"+b+", "+c),a.trace&&a.traceprint(""+this);var d=this.columns.get(b);d.each(function(a){var d=this.rows.get(a);d.substituteOut(b,c,a,this),a.isRestricted&&0>d.constant&&this._infeasibleRows.add(a)},this),b.isExternal&&(this._externalRows.add(b),this._externalParametricVars.delete(b)),this.columns.delete(b)},columnsHasKey:function(a){return!!this.columns.get(a)}})}(this.c||module.parent.exports||{}),function(a){var b=a.Tableau,c=b.prototype,d=1e-8,e=a.Strength.weak;a.SimplexSolver=a.inherit({"extends":a.Tableau,initialize:function(){a.Tableau.call(this),this._stayMinusErrorVars=[],this._stayPlusErrorVars=[],this._errorVars=new a.HashTable,this._markerVars=new a.HashTable,this._objective=new a.ObjectiveVariable({name:"Z"}),this._editVarMap=new a.HashTable,this._editVarList=[],this._slackCounter=0,this._artificialCounter=0,this._dummyCounter=0,this.autoSolve=!0,this._fNeedsSolving=!1,this._optimizeCount=0,this.rows.set(this._objective,new a.Expression),this._stkCedcns=[0],a.trace&&a.traceprint("objective expr == "+this.rows.get(this._objective))},addLowerBound:function(b,c){var d=new a.Inequality(b,a.GEQ,new a.Expression(c));return this.addConstraint(d)},addUpperBound:function(b,c){var d=new a.Inequality(b,a.LEQ,new a.Expression(c));return this.addConstraint(d)},addBounds:function(a,b,c){return this.addLowerBound(a,b),this.addUpperBound(a,c),this},add:function(){for(var a=0;arguments.length>a;a++)this.addConstraint(arguments[a]);return this},addConstraint:function(b){a.trace&&a.fnenterprint("addConstraint: "+b);var c=Array(2),d=Array(1),e=this.newExpression(b,c,d);if(d=d[0],this.tryAddingDirectly(e)||this.addWithArtificialVariable(e),this._fNeedsSolving=!0,b.isEditConstraint){var f=this._editVarMap.size,g=c[0],h=c[1];!g instanceof a.SlackVariable&&console.warn("cvEplus not a slack variable =",g),!h instanceof a.SlackVariable&&console.warn("cvEminus not a slack variable =",h),a.debug&&console.log("new c.EditInfo("+b+", "+g+", "+h+", "+d+", "+f+")");var i=new a.EditInfo(b,g,h,d,f);this._editVarMap.set(b.variable,i),this._editVarList[f]={v:b.variable,info:i}}return this.autoSolve&&(this.optimize(this._objective),this._setExternalVariables()),this},addConstraintNoException:function(b){a.trace&&a.fnenterprint("addConstraintNoException: "+b);try{return this.addConstraint(b),!0}catch(c){return!1}},addEditVar:function(b,c){return a.trace&&a.fnenterprint("addEditVar: "+b+" @ "+c),this.addConstraint(new a.EditConstraint(b,c||a.Strength.strong))},beginEdit:function(){return a.assert(this._editVarMap.size>0,"_editVarMap.size > 0"),this._infeasibleRows.clear(),this._resetStayConstants(),this._stkCedcns.push(this._editVarMap.size),this},endEdit:function(){return a.assert(this._editVarMap.size>0,"_editVarMap.size > 0"),this.resolve(),this._stkCedcns.pop(),this.removeEditVarsTo(this._stkCedcns[this._stkCedcns.length-1]),this},removeAllEditVars:function(){return this.removeEditVarsTo(0)},removeEditVarsTo:function(b){try{for(var c=this._editVarList.length,d=b;c>d;d++)this._editVarList[d]&&this.removeConstraint(this._editVarMap.get(this._editVarList[d].v).constraint);return this._editVarList.length=b,a.assert(this._editVarMap.size==b,"_editVarMap.size == n"),this}catch(e){throw new a.InternalError("Constraint not found in removeEditVarsTo")}},addPointStays:function(b){return a.trace&&console.log("addPointStays",b),b.forEach(function(a,b){this.addStay(a.x,e,Math.pow(2,b)),this.addStay(a.y,e,Math.pow(2,b))},this),this},addStay:function(b,c,d){var f=new a.StayConstraint(b,c||e,d||1);return this.addConstraint(f)},removeConstraint:function(a){return this.removeConstraintInternal(a),this},removeConstraintInternal:function(b){a.trace&&a.fnenterprint("removeConstraintInternal: "+b),a.trace&&a.traceprint(""+this),this._fNeedsSolving=!0,this._resetStayConstants();var c=this.rows.get(this._objective),d=this._errorVars.get(b);a.trace&&a.traceprint("eVars == "+d),null!=d&&d.each(function(e){var f=this.rows.get(e);null==f?c.addVariable(e,-b.weight*b.strength.symbolicWeight.value,this._objective,this):c.addExpression(f,-b.weight*b.strength.symbolicWeight.value,this._objective,this),a.trace&&a.traceprint("now eVars == "+d)},this);var e=this._markerVars.get(b);if(this._markerVars.delete(b),null==e)throw new a.InternalError("Constraint not found in removeConstraintInternal");if(a.trace&&a.traceprint("Looking to remove var "+e),null==this.rows.get(e)){var f=this.columns.get(e);a.trace&&a.traceprint("Must pivot -- columns are "+f);var g=null,h=0;f.each(function(b){if(b.isRestricted){var c=this.rows.get(b),d=c.coefficientFor(e);if(a.trace&&a.traceprint("Marker "+e+"'s coefficient in "+c+" is "+d),0>d){var f=-c.constant/d;(null==g||h>f||a.approx(f,h)&&b.hashCode<g.hashCode)&&(h=f,g=b)}}},this),null==g&&(a.trace&&a.traceprint("exitVar is still null"),f.each(function(a){if(a.isRestricted){var b=this.rows.get(a),c=b.coefficientFor(e),d=b.constant/c;(null==g||h>d)&&(h=d,g=a)}},this)),null==g&&(0==f.size?this.removeColumn(e):f.escapingEach(function(a){return a!=this._objective?(g=a,{brk:!0}):void 0},this)),null!=g&&this.pivot(e,g)}if(null!=this.rows.get(e)&&this.removeRow(e),null!=d&&d.each(function(a){a!=e&&this.removeColumn(a)},this),b.isStayConstraint){if(null!=d)for(var j=0;this._stayPlusErrorVars.length>j;j++)d.delete(this._stayPlusErrorVars[j]),d.delete(this._stayMinusErrorVars[j])}else if(b.isEditConstraint){a.assert(null!=d,"eVars != null");var k=this._editVarMap.get(b.variable);this.removeColumn(k.editMinus),this._editVarMap.delete(b.variable)}return null!=d&&this._errorVars.delete(d),this.autoSolve&&(this.optimize(this._objective),this._setExternalVariables()),this},reset:function(){throw a.trace&&a.fnenterprint("reset"),new a.InternalError("reset not implemented")},resolveArray:function(b){a.trace&&a.fnenterprint("resolveArray"+b);var c=b.length;this._editVarMap.each(function(a,d){var e=d.index;c>e&&this.suggestValue(a,b[e])},this),this.resolve()},resolvePair:function(a,b){this.suggestValue(this._editVarList[0].v,a),this.suggestValue(this._editVarList[1].v,b),this.resolve()},resolve:function(){a.trace&&a.fnenterprint("resolve()"),this.dualOptimize(),this._setExternalVariables(),this._infeasibleRows.clear(),this._resetStayConstants()},suggestValue:function(b,c){a.trace&&console.log("suggestValue("+b+", "+c+")");var d=this._editVarMap.get(b);if(!d)throw new a.Error("suggestValue for variable "+b+", but var is not an edit variable");var e=c-d.prevEditConstant;return d.prevEditConstant=c,this.deltaEditConstant(e,d.editPlus,d.editMinus),this},solve:function(){return this._fNeedsSolving&&(this.optimize(this._objective),this._setExternalVariables()),this},setEditedValue:function(b,c){if(!this.columnsHasKey(b)&&null==this.rows.get(b))return b.value=c,this;if(!a.approx(c,b.value)){this.addEditVar(b),this.beginEdit();try{this.suggestValue(b,c)}catch(d){throw new a.InternalError("Error in setEditedValue")}this.endEdit()}return this},addVar:function(b){if(!this.columnsHasKey(b)&&null==this.rows.get(b)){try{this.addStay(b)}catch(c){throw new a.InternalError("Error in addVar -- required failure is impossible")}a.trace&&a.traceprint("added initial stay on "+b)}return this},getInternalInfo:function(){var a=c.getInternalInfo.call(this);return a+="\nSolver info:\n",a+="Stay Error Variables: ",a+=this._stayPlusErrorVars.length+this._stayMinusErrorVars.length,a+=" ("+this._stayPlusErrorVars.length+" +, ",a+=this._stayMinusErrorVars.length+" -)\n",a+="Edit Variables: "+this._editVarMap.size,a+="\n"},getDebugInfo:function(){return""+this+this.getInternalInfo()+"\n"},toString:function(){var a=c.getInternalInfo.call(this);return a+="\n_stayPlusErrorVars: ",a+="["+this._stayPlusErrorVars+"]",a+="\n_stayMinusErrorVars: ",a+="["+this._stayMinusErrorVars+"]",a+="\n",a+="_editVarMap:\n"+this._editVarMap,a+="\n"},getConstraintMap:function(){return this._markerVars},addWithArtificialVariable:function(b){a.trace&&a.fnenterprint("addWithArtificialVariable: "+b);var c=new a.SlackVariable({value:++this._artificialCounter,prefix:"a"}),d=new a.ObjectiveVariable({name:"az"}),e=b.clone();a.trace&&a.traceprint("before addRows:\n"+this),this.addRow(d,e),this.addRow(c,b),a.trace&&a.traceprint("after addRows:\n"+this),this.optimize(d);var f=this.rows.get(d);if(a.trace&&a.traceprint("azTableauRow.constant == "+f.constant),!a.approx(f.constant,0))throw this.removeRow(d),this.removeColumn(c),new a.RequiredFailure;var g=this.rows.get(c);if(null!=g){if(g.isConstant)return this.removeRow(c),this.removeRow(d),void 0;var h=g.anyPivotableVariable();this.pivot(h,c)}a.assert(null==this.rows.get(c),"rowExpression(av) == null"),this.removeColumn(c),this.removeRow(d)},tryAddingDirectly:function(b){a.trace&&a.fnenterprint("tryAddingDirectly: "+b);var c=this.chooseSubject(b);return null==c?(a.trace&&a.fnexitprint("returning false"),!1):(b.newSubject(c),this.columnsHasKey(c)&&this.substituteOut(c,b),this.addRow(c,b),a.trace&&a.fnexitprint("returning true"),!0)},chooseSubject:function(b){a.trace&&a.fnenterprint("chooseSubject: "+b);var c=null,d=!1,e=!1,f=b.terms,g=f.escapingEach(function(a,b){if(d){if(!a.isRestricted&&!this.columnsHasKey(a))return{retval:a}}else if(a.isRestricted){if(!e&&!a.isDummy&&0>b){var f=this.columns.get(a);(null==f||1==f.size&&this.columnsHasKey(this._objective))&&(c=a,e=!0)}}else c=a,d=!0},this);if(g&&void 0!==g.retval)return g.retval;if(null!=c)return c;var h=0,g=f.escapingEach(function(a,b){return a.isDummy?(this.columnsHasKey(a)||(c=a,h=b),void 0):{retval:null}},this);if(g&&void 0!==g.retval)return g.retval;if(!a.approx(b.constant,0))throw new a.RequiredFailure;return h>0&&b.multiplyMe(-1),c},deltaEditConstant:function(b,c,d){a.trace&&a.fnenterprint("deltaEditConstant :"+b+", "+c+", "+d);var e=this.rows.get(c);if(null!=e)return e.constant+=b,0>e.constant&&this._infeasibleRows.add(c),void 0;var f=this.rows.get(d);if(null!=f)return f.constant+=-b,0>f.constant&&this._infeasibleRows.add(d),void 0;var g=this.columns.get(d);g||console.log("columnVars is null -- tableau is:\n"+this),g.each(function(a){var c=this.rows.get(a),e=c.coefficientFor(d);c.constant+=e*b,a.isRestricted&&0>c.constant&&this._infeasibleRows.add(a)},this)},dualOptimize:function(){a.trace&&a.fnenterprint("dualOptimize:");for(var b=this.rows.get(this._objective);this._infeasibleRows.size;){var c=this._infeasibleRows.values()[0];this._infeasibleRows.delete(c);var d=null,e=this.rows.get(c);if(e&&0>e.constant){var g,f=Number.MAX_VALUE,h=e.terms;if(h.each(function(c,e){if(e>0&&c.isPivotable){var h=b.coefficientFor(c);g=h/e,(f>g||a.approx(g,f)&&c.hashCode<d.hashCode)&&(d=c,f=g)}}),f==Number.MAX_VALUE)throw new a.InternalError("ratio == nil (MAX_VALUE) in dualOptimize");this.pivot(d,c)}}},newExpression:function(b,c,d){a.trace&&(a.fnenterprint("newExpression: "+b),a.traceprint("cn.isInequality == "+b.isInequality),a.traceprint("cn.required == "+b.required));var e=b.expression,f=new a.Expression(e.constant),g=new a.SlackVariable,h=new a.DummyVariable,i=new a.SlackVariable,j=new a.SlackVariable,k=e.terms;if(k.each(function(a,b){var c=this.rows.get(a);c?f.addExpression(c,b):f.addVariable(a,b)},this),b.isInequality){if(a.trace&&a.traceprint("Inequality, adding slack"),++this._slackCounter,g=new a.SlackVariable({value:this._slackCounter,prefix:"s"}),f.setVariable(g,-1),this._markerVars.set(b,g),!b.required){++this._slackCounter,i=new a.SlackVariable({value:this._slackCounter,prefix:"em"}),f.setVariable(i,1);
var l=this.rows.get(this._objective);l.setVariable(i,b.strength.symbolicWeight.value*b.weight),this.insertErrorVar(b,i),this.noteAddedVariable(i,this._objective)}}else if(b.required)a.trace&&a.traceprint("Equality, required"),++this._dummyCounter,h=new a.DummyVariable({value:this._dummyCounter,prefix:"d"}),f.setVariable(h,1),this._markerVars.set(b,h),a.trace&&a.traceprint("Adding dummyVar == d"+this._dummyCounter);else{a.trace&&a.traceprint("Equality, not required"),++this._slackCounter,j=new a.SlackVariable({value:this._slackCounter,prefix:"ep"}),i=new a.SlackVariable({value:this._slackCounter,prefix:"em"}),f.setVariable(j,-1),f.setVariable(i,1),this._markerVars.set(b,j);var l=this.rows.get(this._objective);a.trace&&console.log(l);var m=b.strength.symbolicWeight.value*b.weight;0==m&&(a.trace&&a.traceprint("cn == "+b),a.trace&&a.traceprint("adding "+j+" and "+i+" with swCoeff == "+m)),l.setVariable(j,m),this.noteAddedVariable(j,this._objective),l.setVariable(i,m),this.noteAddedVariable(i,this._objective),this.insertErrorVar(b,i),this.insertErrorVar(b,j),b.isStayConstraint?(this._stayPlusErrorVars.push(j),this._stayMinusErrorVars.push(i)):b.isEditConstraint&&(c[0]=j,c[1]=i,d[0]=e.constant)}return 0>f.constant&&f.multiplyMe(-1),a.trace&&a.fnexitprint("returning "+f),f},optimize:function(b){a.trace&&a.fnenterprint("optimize: "+b),a.trace&&a.traceprint(""+this),this._optimizeCount++;var c=this.rows.get(b);a.assert(null!=c,"zRow != null");for(var g,h,e=null,f=null;;){if(g=0,h=c.terms,h.escapingEach(function(a,b){return a.isPivotable&&g>b?(g=b,e=a,{brk:1}):void 0},this),g>=-d)return;a.trace&&console.log("entryVar:",e,"objectiveCoeff:",g);var i=Number.MAX_VALUE,j=this.columns.get(e),k=0;if(j.each(function(b){if(a.trace&&a.traceprint("Checking "+b),b.isPivotable){var c=this.rows.get(b),d=c.coefficientFor(e);a.trace&&a.traceprint("pivotable, coeff = "+d),0>d&&(k=-c.constant/d,(i>k||a.approx(k,i)&&b.hashCode<f.hashCode)&&(i=k,f=b))}},this),i==Number.MAX_VALUE)throw new a.InternalError("Objective function is unbounded in optimize");this.pivot(e,f),a.trace&&a.traceprint(""+this)}},pivot:function(b,c){a.trace&&console.log("pivot: ",b,c);var d=!1;d&&console.time(" SimplexSolver::pivot"),null==b&&console.warn("pivot: entryVar == null"),null==c&&console.warn("pivot: exitVar == null"),d&&console.time(" removeRow");var e=this.removeRow(c);d&&console.timeEnd(" removeRow"),d&&console.time(" changeSubject"),e.changeSubject(c,b),d&&console.timeEnd(" changeSubject"),d&&console.time(" substituteOut"),this.substituteOut(b,e),d&&console.timeEnd(" substituteOut"),d&&console.time(" addRow"),this.addRow(b,e),d&&console.timeEnd(" addRow"),d&&console.timeEnd(" SimplexSolver::pivot")},_resetStayConstants:function(){a.trace&&console.log("_resetStayConstants");for(var b=0;this._stayPlusErrorVars.length>b;b++){var 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</script>
<script>/*
This is part of Cambio 2.1 program (https://hekili.ca.sandia.gov/cambio) and is licensed under the LGPL v2.1 license
This library is free software; you can redistribute it and/or
modify it under the terms of the GNU Lesser General Public
License as published by the Free Software Foundation; either
version 2.1 of the License, or (at your option) any later version.
This library 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
Lesser General Public License for more details.
You should have received a copy of the GNU Lesser General Public
License along with this library; if not, write to the Free Software
Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA
Feature TODO list (created 20160220):
-Fix intermitten issue of zooming in messes up (especially aver dragging starting from the y-axis title)
[Done 20160218] -Add legend
[Done 20160218: Christian] -Zoom in on y-axis
[Done 20160815: Liza] -Draw Peaks
[Done 20180214: Christian]Add peak info display
-Make it so x-axis binning is given seperately for each histogram
[Done 20160310] -Add reference photopeak line drawing
[Done 20160310] -Box that gives stats that follow mouse
[Done 20160520] -x-axis tick labels can overlap (especially for higher enegy values zoomed in for a small range)
[Done 20160520] -Resize plot area based on y-axis label sizes (but if actively zooming in with mouse wheel, keep centered at mouse)
[Done 20160218] -scroll-wheel over y-axis adds remove default amount of padding above/bellow charts scroll left-right (track pad two fingers) pan left/right
[Done 20160218: Christian] -control (alt on mac) drag create duplicate charts that drag with mouse (for energy recalibration)
[Done 20180411] -Add in a mock Wt.WT.emit(...) function and hook up signals
[Done 20160218: Christian]Animate the click-and-drag-right zoom in effect
[Done 20180214: Christian]Some sliders to change scale factor on background and second spectrum (should appear only when something is clicked on to show them)
[Done 20180216: Christian] -Background subtraction mode
-Add statistical error bars
[Done 20160815: Christian] -Add escape peak, compon scatter, etc. mouse interactions
[Done 20160815: Christian] -Add arrows to end of x axis to indicate if the chart extends to the right and left (e.g. can pan)
[Done 20160521] -Add compact x-axis mode
[Done 20180214: Christian]Add widget to scale background and second spectrum
[Done 20170318: Christian] -Add in (optional) x-axis slider widget (the one that shows the entire chart, and indicates what portion you are viewing and lets you drag to change this)
[Done 20170218: Christian] -Add in InterSpec specific mouse functionality (drawing line for peak, deleting peaks, etc)
[Done 20161216: Christian] -Add in ability to add in text to label features (very low priority)
-Add ability to support polynomial binning with deviation pairs (instead of just lower edge energy)
[Done 20180220: Christian] -Customize strokes, colors, lines, etc.
[Done 20160520] -Dont let zoom in to less than one bin width
[Done 20160521] -Fix x-axis labels that hang off end of plot area
[Done 20160520] -Fix adding chart title and compensating for x-axis title
-Customize mouse point to zoom-in/zoom-out where appropriate
-Optimize frequency of rebinning of data (prevent extra rebinned data from being drawn)
-Need some way to filter reference gamma lines to not draw insignificant lines. Ex, Th232 gives ~900 dom elements, which can slow things down
*/
SpectrumChartD3 = function(elem, options) {
var self = this;
// Add any polyfills needed to run D3 code
browserPolyfill();
this.chart = typeof elem === 'string' ? document.getElementById(elem) : elem;
this.cx = this.chart.clientWidth;
this.cy = this.chart.clientHeight;
this.options = options || {};
//if( options.yscale !== "lin" && options.yscale !== "linear" && options.yscale !== "log" && options.yscale !== "sqrt" )
this.options.yscale = "lin";
this.options.gridx = false;
this.options.gridy = false;
this.options.compactXAxis = false;
this.options.adjustYAxisPadding = true;
this.options.wheelScrollYAxis = true;
this.options.showAnimation = false;
this.options.showXAxisSliderChart = false;
this.options.allowPeakFit = (typeof options.allowPeakFit == 'boolean') ? options.allowPeakFit : false;
this.options.showUserLabels = (typeof options.showUserLabels == 'boolean') ? options.showUserLabels : false;
this.options.showPeakLabels = (typeof options.showPeakLabels == 'boolean') ? options.showPeakLabels : false;
this.options.showNuclideNames = (typeof options.showNuclideNames == 'boolean') ? options.showNuclideNames : false;
this.options.showNuclideEnergies = (typeof options.showNuclideEnergies == 'boolean') ? options.showNuclideEnergies : false;
this.options.showLegend = true;
this.options.scaleBackgroundSecondary = (typeof options.scaleBackgroundSecondary == 'boolean') ? options.scaleBackgroundSecondary : false;
this.options.refLineTopPad = 30;
self.options.logYFracTop = 0.05;
self.options.logYFracBottom = 0.025;
self.options.linYFracTop = 0.1;
self.options.linYFracBottom = 0.1;
self.options.sqrtYFracTop = 0.1;
self.options.sqrtYFracBottom = 0.1;
this.options.showRefLineInfoForMouseOver = (typeof options.showRefLineInfoForMouseOver == 'boolean') ? options.showRefLineInfoForMouseOver : true;
this.options.showMouseStats = (typeof options.showMouseStats == 'boolean') ? options.showMouseStats : true;
this.options.showComptonEdge = (typeof options.showComptonEdge == 'boolean') ? options.showComptonEdge : false;
this.options.showComptonPeaks = (typeof options.showComptonPeaks == 'boolean') ? options.showComptonPeaks : false;
this.options.showEscapePeaks = (typeof options.showEscapePeaks == 'boolean') ? options.showEscapePeaks : false;
this.options.showSumPeaks = (typeof options.showSumPeaks == 'boolean') ? options.showSumPeaks : false;
this.options.backgroundSubtract = (typeof options.backgroundSubtract == 'boolean') ? options.backgroundSubtract : false;
this.options.enableColorPicker = (typeof options.enableColorPicker == 'boolean') ? options.enableColorPicker : false;
// Set which spectrums to draw peaks for
this.options.drawPeaksFor = {
FOREGROUND: true,
BACKGROUND: false,
SECONDARY: false,
};
this.options.showXRangeArrows = (typeof options.showXRangeArrows == 'boolean') ? options.showXRangeArrows : true;
this.options.maxScaleFactor = 10;
this.padding = {
"top": 5,
"titlePad" : 5,
"right": 10,
"bottom": 5,
"xTitlePad": 5,
"left": 5,
"labelPad": 5,
"title": 23,
"label": 8,
"sliderChart": 8,
};
this.padding.leftComputed = this.padding.left + this.padding.title + this.padding.label + this.padding.labelPad;
this.padding.topComputed = this.padding.top + this.padding.titlePad + 15;
this.padding.bottomComputed = this.padding.bottom + this.padding.xTitlePad + 15;
this.size = {
"width": Math.max(0, this.cx - this.padding.leftComputed - this.padding.right),
"height": Math.max(0, this.cy - this.padding.topComputed - this.padding.bottomComputed),
"sliderChartHeight": (this.cy - this.padding.topComputed - this.padding.bottomComputed) / 10,
"sliderChartWidth": this.cx - this.padding.leftComputed - this.padding.right - 30,
};
this.animation = {
"duration": 200,
"frames": 6
};
/**
* Added by Christian 20180215
* Used to differentiate between different types of spectra, and for future additional usage
* Each spectrum object should have an associated type with it, which we can compare using this enum.
*/
this.spectrumTypes = {
FOREGROUND: 'FOREGROUND',
BACKGROUND: 'BACKGROUND',
SECONDARY: 'SECONDARY',
};
/*pre IE9 support */
if (!Array.isArray) {
Array.isArray = function(arg) {
return Object.prototype.toString.call(arg) === '[object Array]';
};
}
/*When dragging the plot, both dragging_plot and zooming_plot will be */
/* true. When only zooming (e.g. mouse wheel), then only zooming_plot */
/* will be true. */
this.dragging_plot = false;
this.zooming_plot = false;
this.refLines = [];
/* x-scale */
this.xScale = d3.scale.linear()
.domain(this.options.xScaleDomain ? this.options.xScaleDomain : [0, 3000])
.range([0, this.size.width]);
/* drag x-axis logic */
this.downx = Math.NaN;
/* y-scale (inverted domain) */
this.yScale = d3.scale.linear()
.domain([0, 100])
.nice()
.range([0, this.size.height])
.nice();
this.downy = Math.NaN;
/* Finds distance between two points */
this.dist = function (a, b) {
return Math.sqrt(Math.pow(a[0]-b[0],2) + Math.pow(a[1]-b[1],2));
};
this.min_max_x_values = function() {
if (!self.rawData || !self.rawData.spectra || !self.rawData.spectra.length)
return [-1,-1];
var min = null, max = null;
self.rawData.spectra.forEach(function(spectrum) {
if (!spectrum.x)
return;
if (min == null || spectrum.x[0] < min) min = spectrum.x[0];
if (max == null || spectrum.x[spectrum.x.length-1] > max) max = spectrum.x[spectrum.x.length-1];
});
return [min,max];
};
this.displayed_raw_start = function(spectrum){
if( !self.rawData || !self.rawData.spectra || !self.rawData.spectra.length )
return -1;
var xstart = self.xScale.domain()[0];
if (!spectrum)
spectrum = self.rawData.spectra[0]; /* use foreground by default */
/* switch to using: */
/* var bisector = d3.bisector(function(d){return d.x;}); */
/* bisector.left(spectrum.x, xstart) */
var i = 0;
while( i < spectrum.x.length && spectrum.x[i] < xstart )
++i;
return i;
};
this.displayed_raw_end = function(spectrum){
if( !self.rawData || !self.rawData.spectra || !self.rawData.spectra.length)
return -1;
var xend = self.xScale.domain()[1];
if (!spectrum)
spectrum = self.rawData.spectra[0]; /* use foreground by default */
var i = spectrum.x.length - 1;
while( i > 0 && spectrum.x[i] > xend )
--i;
return i + 1;
};
this.displayed_start = function(spectrum){
if( !spectrum || !spectrum.points || !spectrum.points.length )
return -1;
var xstart = self.xScale.domain()[0];
var i = 0;
while( i < spectrum.points.length && spectrum.points[i].x <= xstart )
++i;
return Math.max(i - 1,0);
};
this.displayed_end = function(spectrum){
if( !spectrum || !spectrum.points || !spectrum.points.length )
return -1;
var xend = self.xScale.domain()[1];
var i = spectrum.points.length - 1;
while( i > 0 && spectrum.points[i].x >= xend )
--i;
return Math.min(i + 1, spectrum.points.length);
};
this.firstRaw = this.lastRaw = this.rebinFactor = -1;
this.do_rebin();
this.setYAxisDomain = function(){
if( !isNaN(self.downy) )
return;
var yaxisDomain = self.getYAxisDomain(),
y1 = yaxisDomain[0],
y0 = yaxisDomain[1];
this.yScale.domain([y1, y0]);
}
this.setYAxisDomain();
/* drag y-axis logic */
this.downy = Math.NaN;
this.dragged = this.selected = null;
this.vis = d3.select(this.chart).append("svg")
.attr("width", this.cx)
.attr("height", this.cy)
.append("g")
.attr("transform", "translate(" + this.padding.leftComputed + "," + this.padding.topComputed + ")");
this.plot = this.vis.append("rect")
.attr("width", this.size.width)
.attr("height", this.size.height)
.attr("id", "chartarea"+this.chart.id )
.style("fill", "#EEEEEE");
/*.attr("pointer-events", "all"); */
this.svg = d3.select(self.chart).select('svg');
/*
Chart vs. Vis vs. Document Body
___________________________________________
| _______________________________________ |
|| ___________________________________ ||
|| | | ||
|| | VIS (SPECTRUM) | ||
|| | | ||
|| |___________________________________| ||
|| ||
|| CHART ||
||_______________________________________||
| |
| |
| BODY |
| |
| |
|_________________________________________|
*/
/*
NOTE: Restoring the zoom behavior only for touch events
This does NOT affect the behavior for other mouse events.
Restoring the zoom behavior allows pinch zooming/panning with touch interactions.
*/
this.zoom = d3.behavior.zoom()
.x(self.xScale)
.y(self.yScale)
.on("zoom", self.handleZoom())
.on("zoomend", self.handleZoomEnd());
/* Vis interactions */
this.vis
.call(this.zoom)
.on("mousedown", self.handleVisMouseDown())
.on("mouseup", self.handleVisMouseUp())
.on("wheel", self.handleVisWheel())
.on("touchstart", self.handleVisTouchStart())
.on("touchmove", self.handleVisTouchMove())
.on("touchend", self.handleVisTouchEnd());
/* Cancel the zooms for mouse events, we'll use our own implementation for these (however, keeping the touch zooming) */
this.vis
.on("mousedown.zoom", null)
.on("mousemove.zoom", null)
.on("mouseup.zoom", null)
.on("mouseover.zoom", null)
.on("mouseout.zoom", null)
.on("wheel.zoom", null)
.on("click.zoom", null)
.on("dblclick.zoom", null);
d3.select(document.body)
.on("mouseup", self.handleCancelAllMouseEvents())
d3.select(window).on("mouseup", self.handleCancelAllMouseEvents())
.on("mousemove", function() { if (self.sliderBoxDown || self.leftDragRegionDown || self.rightDragRegionDown || self.currentlyAdjustingSpectrumScale) { d3.event.preventDefault(); d3.event.stopPropagation(); }});;
/* Chart Interactions */
d3.select(this.chart)
.on("mousemove", self.handleChartMouseMove())
.on("mouseleave", self.handleChartMouseLeave())
.on("mouseup", self.handleChartMouseUp())
.on("wheel", self.handleChartWheel())
.on("touchstart", self.handleChartTouchStart())
.on("touchend", self.handleChartTouchEnd());
/*
To allow markers to be updated while mouse is outside of the chart, but still inside the visual.
*/
this.yAxis = d3.svg.axis().scale(this.yScale)
.orient("left")
.innerTickSize(7)
.outerTickSize(1)
.ticks(0);
this.yAxisBody = this.vis.append("g")
.attr("class", "yaxis" )
.attr("transform", "translate(0,0)")
.call(this.yAxis);
this.xAxis = d3.svg.axis().scale(this.xScale)
.orient("bottom")
.innerTickSize(7)
.outerTickSize(1)
.ticks(20, "f");
this.xAxisBody = this.vis.append("g")
.attr("class", "xaxis" )
.attr("transform", "translate(0," + this.size.height + ")")
.call(this.xAxis);
this.vis.append("svg:clipPath")
.attr("id", "clip" + this.chart.id )
.append("svg:rect")
.attr("x", 0)
.attr("y", 0)
.attr("width", this.size.width )
.attr("height", this.size.height );
self.addMouseInfoBox();
/*Make a <g> element to draw everything we want that follows the mouse around */
/* when we're displaying reference photopeaks. If the mouse isnt close enough */
/* to a reference line, then this whole <g> will be hidden */
self.refLineInfo = this.vis.append("g")
.attr("class", "refLineInfo")
.style("display", "none");
/*Put the reference photopeak line text in its own <g> element so */
/* we can call getBBox() on it to get its extent to to decide where to */
/* position the text relative to the selected phtotopeak. */
self.refLineInfoTxt = self.refLineInfo.append("g");
/*Add the text to the <g>. We will use tspan's to append each line of information */
self.refLineInfoTxt.append("text")
.attr("x", 0)
.attr("dy", "1em");
/*Add a small red circle on the x axis to help indicate which line the info is */
/* currently showing for. */
self.refLineInfo.append("circle")
.attr("cx", 0)
.attr("cy", self.size.height)
.attr("r", 2)
.style("fill","red");
this.chartBody = this.vis.append("g")
.attr("clip-path", "url(#clip" + this.chart.id + ")");
self.peakVis = this.vis.append("g")
.attr("class", "peakVis")
.attr("transform","translate(0,0)")
.attr("clip-path", "url(#clip" + this.chart.id + ")");
/* add Chart Title */
var title = this.options.title;
this.options.title = null;
this.setTitle( title, true );
/* Add the x-axis label */
if (this.options.xlabel) {
this.xaxistitle = this.svg.append("text")
.attr("class", "xaxistitle")
.text(this.options.xlabel)
.attr("x", this.size.width/2)
.attr("y", this.size.height )
.attr("dy",29)
.style("text-anchor","middle");
}
/* add y-axis label */
if (this.options.ylabel) {
this.vis.append("g")
.attr('id', 'yaxistitle-container') // Christian: To allow changing the y-axis title
.append("text")
.attr("class", "yaxistitle")
.text(this.options.ylabel + (this.rebinFactor > 1 ? (" per " + this.rebinFactor + " Channels") : "") )
.style("text-anchor","middle");
/*.attr("transform","translate(" + -40 + " " + this.size.height/2+") rotate(-90)"); */
}
}
registerKeyboardHandler = function(callback) {
var callback = callback;
d3.select(window).on("keydown", callback);
}
/**
* Adds polyfills needed to run D3 code on older browsers such as IE11.
*/
browserPolyfill = function() {
// Thanks to: https://developer.mozilla.org/en-US/docs/Web/JavaScript/Reference/Global_Objects/Object/assign
// Christian: Added to support Object.assign(...) method for IE11
if (typeof Object.assign != 'function') {
// Must be writable: true, enumerable: false, configurable: true
Object.defineProperty(Object, "assign", {
value: function assign(target, varArgs) { // .length of function is 2
'use strict';
if (target == null) { // TypeError if undefined or null
throw new TypeError('Cannot convert undefined or null to object');
}
var to = Object(target);
for (var index = 1; index < arguments.length; index++) {
var nextSource = arguments[index];
if (nextSource != null) { // Skip over if undefined or null
for (var nextKey in nextSource) {
// Avoid bugs when hasOwnProperty is shadowed
if (Object.prototype.hasOwnProperty.call(nextSource, nextKey)) {
to[nextKey] = nextSource[nextKey];
}
}
}
}
return to;
},
writable: true,
configurable: true
});
}
// Thanks to: https://developer.mozilla.org/en-US/docs/Web/JavaScript/Reference/Global_Objects/Math/log10
// Christian: Added to support Math.log10(...) method for IE11
Math.log10 = Math.log10 || function(x) {
return Math.log(x) * Math.LOG10E;
};
// Thanks to: https://developer.mozilla.org/en-US/docs/Web/JavaScript/Reference/Global_Objects/String/endsWith
// Christian: Added to support the String method endsWith(...)
if (!String.prototype.endsWith) {
String.prototype.endsWith = function(search, this_len) {
if (this_len === undefined || this_len > this.length) {
this_len = this.length;
}
return this.substring(this_len - search.length, this_len) === search;
};
}
// Thank to: https://developer.mozilla.org/en-US/docs/Web/API/ChildNode/remove
// from:https://github.com/jserz/js_piece/blob/master/DOM/ChildNode/remove()/remove().md
// Christian: Added to support the remove(...) method of HTML Element nodes
(function (arr) {
arr.forEach(function (item) {
if (item.hasOwnProperty('remove')) {
return;
}
Object.defineProperty(item, 'remove', {
configurable: true,
enumerable: true,
writable: true,
value: function remove() {
if (this.parentNode !== null)
this.parentNode.removeChild(this);
}
});
});
})([Element.prototype, CharacterData.prototype, DocumentType.prototype]);
}
/**
* -------------- Data Handlers --------------
*/
/**
* elem: The element can be a DOM element, or the object ID of a WObject
* event: must be an object which indicates also the JavaScript event and event target
* args: array of args to pass into the Wt function
*/
SpectrumChartD3.prototype.WtEmit = function(elem, event) {
if (!window.Wt) {
console.warn('Wt not found! Canceling emit function...');
return;
}
// To support ES5 syntax in IE11, we replace spread operator with this
var args = Array.prototype.slice.call(arguments, SpectrumChartD3.prototype.WtEmit.length);
// Emit the function to Wt
// Wt.emit( elem, event, ...args); // ES6 syntax
Wt.emit.apply(Wt, [elem, event].concat(args));
}
SpectrumChartD3.prototype.dataPointDrag = function() {
var self = this;
return function(d) {
registerKeyboardHandler(self.keydown());
document.onselectstart = function() { return false; };
self.selected = self.dragged = d;
self.update(false); /* boolean set to false to indicate no animation needed */
}
}
SpectrumChartD3.prototype.do_rebin = function() {
var self = this;
if( !this.rawData || !self.rawData.spectra || !self.rawData.spectra.length ) {
return;
}
this.rawData.spectra.forEach(function(spectrum, spectrumi) {
var newRebin = 1;
spectrum.points = [];
var firstRaw = self.displayed_raw_start(spectrum);
var lastRaw = self.displayed_raw_end(spectrum);
var npoints = lastRaw - firstRaw;
if( npoints > 1 && self.size.width > 2 ) {
newRebin = Math.ceil( npoints / (self.size.width) );
}
if( newRebin != spectrum.rebinFactor || self.firstRaw !== firstRaw || self.lastRaw !== lastRaw ){
spectrum.points = [];
if( spectrum.rebinFactor != newRebin ){
var txt = self.options.ylabel ? self.options.ylabel : "";
if( newRebin !== 1 )
txt += " per " + newRebin + " Channels"
self.vis.select(".yaxistitle").text( txt );
}
spectrum.rebinFactor = newRebin;
spectrum.firstRaw = firstRaw;
spectrum.lastRaw = lastRaw;
/*Round firstRaw and lastRaw down and up to even multiples of newRebin */
firstRaw -= (firstRaw % newRebin);
lastRaw += newRebin - (lastRaw % newRebin);
if( firstRaw >= newRebin )
firstRaw -= newRebin;
if( lastRaw > spectrum.x.length )
lastRaw = spectrum.x.length;
/*could do some optimizations here where we actually do a slightly larger */
/* range than displayed, so that next time we might not have to go back */
/* through the data to recompute things (it isnt clear if D3 will plot */
/* these datas, should check on this.) */
/*Also, could _maybe_ use energy range, rather than indexes to track if we */
/* need to rebin the data or not... */
/*console.log( "self.rebinFactor=" + self.rebinFactor ); */
for( var i = firstRaw; i < lastRaw; i += newRebin ){
var thisdata = { };
if (i >= spectrum.x.length) {
thisdata['x'] = spectrum.x[spectrum.x.length-1];
}
else
thisdata['x'] = spectrum.x[i];
if (spectrum.y.length > 0) {
var key = 'y';
thisdata[key] = 0;
for( var j = 0; j < newRebin && i+j<spectrum.y.length; ++j )
thisdata[key] += spectrum.y[i+j];
thisdata[key] *= spectrum.yScaleFactor;
}
spectrum.points.push( thisdata );
}
}
});
}
SpectrumChartD3.prototype.rebinSpectrum = function(spectrumToBeAdjusted, linei) {
var self = this;
if( !this.rawData || !this.rawData.spectra || !this.rawData.spectra.length )
return;
/* Check for the which corresponding spectrum line is the specified one to be rebinned */
if (linei == null || !spectrumToBeAdjusted)
return;
var newRebin = 1;
var firstRaw = self.displayed_raw_start(spectrumToBeAdjusted);
var lastRaw = self.displayed_raw_end(spectrumToBeAdjusted);
var npoints = lastRaw - firstRaw;
if( npoints > 1 && this.size.width > 2 )
newRebin = Math.ceil( npoints / this.size.width );
/* Since we can only adjust scale factors for background/secondary/others, we don't need to adjust y-axis title */
/*
if( spectrumToBeAdjusted.rebinFactor != newRebin ){
var txt = this.options.ylabel ? this.options.ylabel : "";
if( newRebin !== 1 )
txt += " per " + newRebin + " Channels"
d3.select(".yaxistitle").text( txt );
}
*/
spectrumToBeAdjusted.rebinFactor = newRebin;
spectrumToBeAdjusted.firstRaw = firstRaw;
spectrumToBeAdjusted.lastRaw = lastRaw;
/*Round firstRaw and lastRaw down and up to even multiples of newRebin */
firstRaw -= (firstRaw % newRebin);
lastRaw += newRebin - (lastRaw % newRebin);
if( firstRaw >= newRebin )
firstRaw -= newRebin;
if( lastRaw > spectrumToBeAdjusted.x.length )
lastRaw = spectrumToBeAdjusted.x.length;
/*could do some optimizations here where we actually do a slightly larger */
/* range than displayed, so that next time we might not have to go back */
/* through the data to recompute things (it isnt clear if D3 will plot */
/* these datas, should check on this.) */
/*Also, could _maybe_ use energy range, rather than indexes to track if we */
/* need to rebin the data or not... */
/*console.log( "self.rebinFactor=" + self.rebinFactor ); */
var i = firstRaw;
for( var pointi = 0; pointi < spectrumToBeAdjusted.points.length; pointi++ ){
var thisdata = spectrumToBeAdjusted.points[pointi];
if( spectrumToBeAdjusted.y.length > 0 ) {
thisdata.y = 0;
for( var j = 0; j < newRebin && i+j<spectrumToBeAdjusted.y.length; ++j )
thisdata.y += spectrumToBeAdjusted.y[i+j];
thisdata.y *= spectrumToBeAdjusted.yScaleFactor;
}
i += newRebin;
}
}
/**
* Adds or replaces the first spectrum seen with the passed-in type in the raw data with new spectrum data.
*/
SpectrumChartD3.prototype.setSpectrumData = function( spectrumData, resetdomain, spectrumType, id, backgroundID ) {
var self = this;
if (!spectrumData) return;
if (!spectrumType || !(spectrumType in self.spectrumTypes)) return;
if (!self.rawData) self.rawData = { updateTime: spectrumData.updateTime, spectra: [] };
if (!self.rawData.updateTime) self.rawData.updateTime = spectrumData.updateTime;
let spectra = self.rawData.spectra;
let index = -1;
spectrumData = spectrumData.spectra[0];
console.log('setting ', spectrumData);
// Set the ID if it was specified
if (typeof id !== 'undefined') spectrumData.id = id;
// Set the background ID if it was specified
if (backgroundID) spectrumData.backgroundID = backgroundID;
// Find index of first spectrum of this type
for (let i = 0; i < spectra.length; i++) {
if (spectra[i].type === spectrumType) {
index = i;
break;
}
}
if (index < 0) { // no spectrum of this type found, so add it onto raw data
spectra.push(spectrumData);
} else { // spectrum found of this type, so replace it
spectra[index] = spectrumData;
}
// Call primary function for setting data
self.setData( self.rawData, resetdomain );
}
/**
* Removes the first spectrum seen with the passed-in type in the raw data.
*/
SpectrumChartD3.prototype.removeSpectrumData = function( resetdomain, spectrumType ) {
var self = this;
if (!spectrumType || !(spectrumType in self.spectrumTypes)) return;
if (!self.rawData) self.rawData = { spectra: [] };
let spectra = self.rawData.spectra;
let index = -1;
// Find index of first spectrum of this type
for (let i = 0; i < spectra.length; i++) {
if (spectra[i].type === spectrumType) {
index = i;
break;
}
}
if (index >= 0) { // spectrum found of this type, so delete it
spectra.splice(index, 1);
}
// Call primary function for setting data
self.setData( self.rawData, resetdomain );
}
SpectrumChartD3.prototype.setData = function( data, resetdomain ) {
// need to make some consistency checks on data here
/* -Has all necassary variables */
/* -Energy is monotonically increasing */
/* -All y's are the same length, and consistent with x. */
/* -No infs or nans. */
var self = this;
if (data && data.spectra && data.spectra.length)
for (var i = 0; i < data.spectra.length; ++i)
if (this['line'+i])
this.vis.selectAll("#spectrumline"+i).remove();
this.vis.selectAll('path.line').remove();
if (this.sliderChart) this.sliderChart.selectAll('.sliderLine').remove(); // Clear x-axis slider chart lines if present
this.rawData = null;
this.firstRaw = this.lastRaw = this.rebinFactor = -1; /*force rebin calc */
try
{
if( !data || !data.spectra ) throw null;
if( !Array.isArray(data.spectra) || data.spectra.length < 1 ) throw 'No spectrum-data specified';
/*check that x is same length or one longer than y. */
/*Check that all specified y's are the same length */
}catch(e){
if(e) console.log(e);
// Christian [05122018]: Added other necessary display render methods to ensure consistency even when chart has no data
this.options.scaleBackgroundSecondary = false;
this.removeSpectrumScaleFactorWidget();
this.updateLegend();
this.drawXAxisSliderChart();
this.updateColorPickerItems();
this.redraw()();
return;
}
this.rawData = data;
this.rawData.spectra.forEach( function(spectrum,i){
if( !spectrum || !spectrum.y.length )
return;
if( spectrum.xeqn && spectrum.xeqn.length>1 && !spectrum.x && spectrum.y && spectrum.y.length )
{
/* A polynomial equation was specified, rather than lower channel energies */
spectrum.x = [];
for( var i = 0; i < spectrum.y.length; ++i )
{
spectrum.x[i] = spectrum.xeqn[0];
for( var j = 1; j < spectrum.xeqn.length; ++j )
spectrum.x[i] += spectrum.xeqn[j] * Math.pow(i,j);
}
}
} );
for (var i = 0; i < this.rawData.spectra.length; ++i)
this['line'+i] = null;
this.do_rebin(); /*this doesnt appear to be necassay, but JIC */
/*Make it so the x-axis shows all the data */
if( resetdomain ) {
var bounds = self.min_max_x_values();
var minx = bounds[0], maxx = bounds[1];
this.setXAxisRange(minx, maxx);
}
/*reset the zoom, so first userzoom action wont behave wierdly */
/* this.zoom.x(this.xScale); */
/* this.zoom.y(this.yScale); */
/* Hack: To properly choose the right set of points for the y-axis points */
function y(line) {
return function(d) {
var y = self.yScale(d['y']);
if (isNaN(y)) y = 0;
return y;
}
}
var maxYScaleFactor = 0.1;
for (var i = 0; i < this.rawData.spectra.length; ++i)
this.rawData.spectra[i].dataSum = 0;
/* Create the lines */
for (var i = 0; i < data.spectra.length; ++i) {
var spectrumi = i;
var spectrum = data.spectra[i];
if (!spectrum.lineColor) spectrum.lineColor = self.getRandomColor(); // Set line color if not yet set
if (!spectrum.peakColor) spectrum.peakColor = self.getRandomColor(); // Set peak color if not yet set
if (spectrum.y.length) {
for (var j = 0; j < spectrum.y.length; ++j) {
spectrum.dataSum += spectrum.y[j];
}
this['line' + i] = d3.svg.line()
.interpolate("step-after")
.x( function(d, pi) {
return self.xScale(d.x);
})
.y( y(i) );
this.chartBody.append("path")
.attr("id", "spectrumline"+i)
.attr("class", 'line')
.attr("stroke", spectrum.lineColor ? spectrum.lineColor : 'black')
.attr("d", this['line' + i](spectrum.points));
if (spectrum.yScaleFactor)
maxYScaleFactor = Math.max(spectrum.yScaleFactor, maxYScaleFactor);
}
}
/* + 10 to add at keast some padding for scale */
self.options.maxScaleFactor = maxYScaleFactor + 10;
var maxsfinput;
if (maxsfinput = document.getElementById("max-sf")) {
maxsfinput.value = self.options.maxScaleFactor;
}
function needsDecimal(num) {
return num % 1 != 0;
}
/* Update the spectrum drop down for adjusting y-scale factors */
if (currentsftitle = document.getElementById("current-sf-title")) {
var titles = self.getSpectrumTitles();
currentsftitle.options.length = titles.length;
titles.forEach(function(title,i) {
if (i == 0)
currentsftitle.options[i] = new Option("None", "", true, false);
else
currentsftitle.options[i] = new Option(title, title, false, false);
});
}
this.updateColorPickerItems();
this.addMouseInfoBox();
this.updateLegend();
this.drawScalerBackgroundSecondary();
this.redraw()();
}
/**
* Render/Drawing Functions
*/
SpectrumChartD3.prototype.update = function() {
var self = this;
if (!this.rawData || !this.rawData.spectra || !this.rawData.spectra.length)
return;
// Figure out which set of points to use
// Use background subtract if we're in that view mode, otherwise use the normal set of points
const key = this.options.backgroundSubtract ? 'bgsubtractpoints' : 'points';
this.rawData.spectra.forEach(function(spectrum, i) {
var line = self.vis.select("#spectrumline"+i);
if (spectrum.type === self.spectrumTypes.BACKGROUND) {
line.attr('visibility', self.options.backgroundSubtract ? 'hidden' : 'visible');
if (self.options.backgroundSubtract) return;
}
line.attr("d", self['line'+i](self.rawData.spectra[i][key]));
});
/*
if( self.xrange !== self.xScale.range() ) {
console.log( "xrange changed changed" );
}
if( self.xdomain !== self.xScale.domain() ) {
console.log( "xrange domain changed" );
}
if( self.yrange !== self.yScale.range() ) {
console.log( "yrange range changed" );
}
if( self.ydomain !== self.yScale.domain() ) {
console.log( "yrange domain changed" );
}
if( self.prevRebinFactor !== this.rebinFactor ) {