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biojs-vis-pdbviewer

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A BioJS 2.0 component to view protein structures

494 lines (493 loc) 14.5 kB
Clazz.load(["java.lang.ref.WeakReference","java.util.AbstractMap","$.Iterator","$.Map"],"java.util.WeakHashMap",["java.lang.IllegalArgumentException","$.IllegalStateException","java.lang.ref.ReferenceQueue","java.util.AbstractCollection","$.AbstractSet","$.Arrays","$.ConcurrentModificationException","$.NoSuchElementException"],function(){ c$=Clazz.decorateAsClass(function(){ this.referenceQueue=null; this.elementCount=0; this.elementData=null; this.loadFactor=0; this.threshold=0; this.modCount=0; if(!Clazz.isClassDefined("java.util.WeakHashMap.HashIterator")){ java.util.WeakHashMap.$WeakHashMap$HashIterator$(); } Clazz.instantialize(this,arguments); },java.util,"WeakHashMap",java.util.AbstractMap,java.util.Map); c$.newEntryArray=Clazz.defineMethod(c$,"newEntryArray", ($fz=function(size){ return new Array(size); },$fz.isPrivate=true,$fz),"~N"); Clazz.makeConstructor(c$, function(){ this.construct(16); }); Clazz.makeConstructor(c$, function(capacity){ Clazz.superConstructor(this,java.util.WeakHashMap,[]); if(capacity>=0){ this.elementCount=0; this.elementData=java.util.WeakHashMap.newEntryArray(capacity==0?1:capacity); this.loadFactor=7500; this.computeMaxSize(); this.referenceQueue=new java.lang.ref.ReferenceQueue(); }else{ throw new IllegalArgumentException(); }},"~N"); Clazz.makeConstructor(c$, function(capacity,loadFactor){ Clazz.superConstructor(this,java.util.WeakHashMap,[]); if(capacity>=0&&loadFactor>0){ this.elementCount=0; this.elementData=java.util.WeakHashMap.newEntryArray(capacity==0?1:capacity); this.loadFactor=Math.round((loadFactor*10000)); this.computeMaxSize(); this.referenceQueue=new java.lang.ref.ReferenceQueue(); }else{ throw new IllegalArgumentException(); }},"~N,~N"); Clazz.makeConstructor(c$, function(map){ this.construct(map.size()<6?11:map.size()*2); this.putAllImpl(map); },"java.util.Map"); Clazz.overrideMethod(c$,"clear", function(){ if(this.elementCount>0){ this.elementCount=0; java.util.Arrays.fill(this.elementData,null); this.modCount++; while(this.referenceQueue.poll()!=null){ } }}); Clazz.defineMethod(c$,"computeMaxSize", ($fz=function(){ this.threshold=(Math.floor(this.elementData.length*this.loadFactor/10000)); },$fz.isPrivate=true,$fz)); Clazz.overrideMethod(c$,"containsKey", function(key){ return this.getEntry(key)!=null; },"~O"); Clazz.overrideMethod(c$,"entrySet", function(){ this.poll(); return((Clazz.isClassDefined("java.util.WeakHashMap$1")?0:java.util.WeakHashMap.$WeakHashMap$1$()),Clazz.innerTypeInstance(java.util.WeakHashMap$1,this,null)); }); Clazz.overrideMethod(c$,"keySet", function(){ this.poll(); if(this.$keySet==null){ this.$keySet=((Clazz.isClassDefined("java.util.WeakHashMap$2")?0:java.util.WeakHashMap.$WeakHashMap$2$()),Clazz.innerTypeInstance(java.util.WeakHashMap$2,this,null)); }return this.$keySet; }); Clazz.overrideMethod(c$,"values", function(){ this.poll(); if(this.valuesCollection==null){ this.valuesCollection=((Clazz.isClassDefined("java.util.WeakHashMap$3")?0:java.util.WeakHashMap.$WeakHashMap$3$()),Clazz.innerTypeInstance(java.util.WeakHashMap$3,this,null)); }return this.valuesCollection; }); Clazz.overrideMethod(c$,"get", function(key){ this.poll(); if(key!=null){ var index=(key.hashCode()&0x7FFFFFFF)%this.elementData.length; var entry=this.elementData[index]; while(entry!=null){ if(key.equals(entry.get())){ return entry.value; }entry=entry.$next; } return null; }var entry=this.elementData[0]; while(entry!=null){ if(entry.isNull){ return entry.value; }entry=entry.$next; } return null; },"~O"); Clazz.defineMethod(c$,"getEntry", function(key){ this.poll(); if(key!=null){ var index=(key.hashCode()&0x7FFFFFFF)%this.elementData.length; var entry=this.elementData[index]; while(entry!=null){ if(key.equals(entry.get())){ return entry; }entry=entry.$next; } return null; }var entry=this.elementData[0]; while(entry!=null){ if(entry.isNull){ return entry; }entry=entry.$next; } return null; },"~O"); Clazz.overrideMethod(c$,"containsValue", function(value){ this.poll(); if(value!=null){ for(var i=this.elementData.length;--i>=0;){ var entry=this.elementData[i]; while(entry!=null){ var key=entry.get(); if((key!=null||entry.isNull)&&value.equals(entry.value)){ return true; }entry=entry.$next; } } }else{ for(var i=this.elementData.length;--i>=0;){ var entry=this.elementData[i]; while(entry!=null){ var key=entry.get(); if((key!=null||entry.isNull)&&entry.value==null){ return true; }entry=entry.$next; } } }return false; },"~O"); Clazz.overrideMethod(c$,"isEmpty", function(){ return this.size()==0; }); Clazz.defineMethod(c$,"poll", function(){ var toRemove; while((toRemove=this.referenceQueue.poll())!=null){ this.removeEntry(toRemove); } }); Clazz.defineMethod(c$,"removeEntry", function(toRemove){ var entry; var last=null; var index=(toRemove.hash&0x7FFFFFFF)%this.elementData.length; entry=this.elementData[index]; while(entry!=null){ if(toRemove===entry){ this.modCount++; if(last==null){ this.elementData[index]=entry.$next; }else{ last.$next=entry.$next; }this.elementCount--; break; }last=entry; entry=entry.$next; } },"java.util.WeakHashMap.Entry"); Clazz.overrideMethod(c$,"put", function(key,value){ this.poll(); var index=0; var entry; if(key!=null){ index=(key.hashCode()&0x7FFFFFFF)%this.elementData.length; entry=this.elementData[index]; while(entry!=null&&!key.equals(entry.get())){ entry=entry.$next; } }else{ entry=this.elementData[0]; while(entry!=null&&!entry.isNull){ entry=entry.$next; } }if(entry==null){ this.modCount++; if(++this.elementCount>this.threshold){ this.rehash(); index=key==null?0:(key.hashCode()&0x7FFFFFFF)%this.elementData.length; }entry=new java.util.WeakHashMap.Entry(key,value,this.referenceQueue); entry.$next=this.elementData[index]; this.elementData[index]=entry; return null; }var result=entry.value; entry.value=value; return result; },"~O,~O"); Clazz.defineMethod(c$,"rehash", ($fz=function(){ var length=this.elementData.length<<1; if(length==0){ length=1; }var newData=java.util.WeakHashMap.newEntryArray(length); for(var i=0;i<this.elementData.length;i++){ var entry=this.elementData[i]; while(entry!=null){ var index=entry.isNull?0:(entry.hash&0x7FFFFFFF)%length; var next=entry.$next; entry.$next=newData[index]; newData[index]=entry; entry=next; } } this.elementData=newData; this.computeMaxSize(); },$fz.isPrivate=true,$fz)); Clazz.overrideMethod(c$,"putAll", function(map){ this.putAllImpl(map); },"java.util.Map"); Clazz.overrideMethod(c$,"remove", function(key){ this.poll(); var index=0; var entry; var last=null; if(key!=null){ index=(key.hashCode()&0x7FFFFFFF)%this.elementData.length; entry=this.elementData[index]; while(entry!=null&&!key.equals(entry.get())){ last=entry; entry=entry.$next; } }else{ entry=this.elementData[0]; while(entry!=null&&!entry.isNull){ last=entry; entry=entry.$next; } }if(entry!=null){ this.modCount++; if(last==null){ this.elementData[index]=entry.$next; }else{ last.$next=entry.$next; }this.elementCount--; return entry.value; }return null; },"~O"); Clazz.overrideMethod(c$,"size", function(){ this.poll(); return this.elementCount; }); Clazz.defineMethod(c$,"putAllImpl", ($fz=function(map){ if(map.entrySet()!=null){ Clazz.superCall(this,java.util.WeakHashMap,"putAll",[map]); }},$fz.isPrivate=true,$fz),"java.util.Map"); c$.$WeakHashMap$HashIterator$=function(){ Clazz.pu$h(self.c$); c$=Clazz.decorateAsClass(function(){ Clazz.prepareCallback(this,arguments); this.position=0; this.expectedModCount=0; this.currentEntry=null; this.nextEntry=null; this.nextKey=null; this.type=null; Clazz.instantialize(this,arguments); },java.util.WeakHashMap,"HashIterator",null,java.util.Iterator); Clazz.makeConstructor(c$, function(a){ this.type=a; this.expectedModCount=this.b$["java.util.WeakHashMap"].modCount; },"java.util.WeakHashMap.Entry.Type"); Clazz.overrideMethod(c$,"hasNext", function(){ if(this.nextEntry!=null){ return true; }while(true){ if(this.nextEntry==null){ while(this.position<this.b$["java.util.WeakHashMap"].elementData.length){ if((this.nextEntry=this.b$["java.util.WeakHashMap"].elementData[this.position++])!=null){ break; }} if(this.nextEntry==null){ return false; }}this.nextKey=this.nextEntry.get(); if(this.nextKey!=null||this.nextEntry.isNull){ return true; }this.nextEntry=this.nextEntry.$next; } }); Clazz.overrideMethod(c$,"next", function(){ if(this.expectedModCount==this.b$["java.util.WeakHashMap"].modCount){ if(this.hasNext()){ this.currentEntry=this.nextEntry; this.nextEntry=this.currentEntry.$next; var a=this.type.get(this.currentEntry); this.nextKey=null; return a; }throw new java.util.NoSuchElementException(); }throw new java.util.ConcurrentModificationException(); }); Clazz.overrideMethod(c$,"remove", function(){ if(this.expectedModCount==this.b$["java.util.WeakHashMap"].modCount){ if(this.currentEntry!=null){ this.b$["java.util.WeakHashMap"].removeEntry(this.currentEntry); this.currentEntry=null; this.expectedModCount++; }else{ throw new IllegalStateException(); }}else{ throw new java.util.ConcurrentModificationException(); }}); c$=Clazz.p0p(); }; c$.$WeakHashMap$1$=function(){ Clazz.pu$h(self.c$); c$=Clazz.declareAnonymous(java.util,"WeakHashMap$1",java.util.AbstractSet); Clazz.overrideMethod(c$,"size", function(){ return this.b$["java.util.WeakHashMap"].size(); }); Clazz.overrideMethod(c$,"clear", function(){ this.b$["java.util.WeakHashMap"].clear(); }); Clazz.overrideMethod(c$,"remove", function(object){ if(this.contains(object)){ this.b$["java.util.WeakHashMap"].remove((object).getKey()); return true; }return false; },"~O"); Clazz.overrideMethod(c$,"contains", function(object){ if(Clazz.instanceOf(object,java.util.Map.Entry)){ var entry=this.b$["java.util.WeakHashMap"].getEntry((object).getKey()); if(entry!=null){ var key=entry.get(); if(key!=null||entry.isNull){ return object.equals(entry); }}}return false; },"~O"); Clazz.overrideMethod(c$,"iterator", function(){ return Clazz.innerTypeInstance(java.util.WeakHashMap.HashIterator,this,null,((Clazz.isClassDefined("java.util.WeakHashMap$1$1")?0:java.util.WeakHashMap.$WeakHashMap$1$1$()),Clazz.innerTypeInstance(java.util.WeakHashMap$1$1,this,null))); }); c$=Clazz.p0p(); }; c$.$WeakHashMap$1$1$=function(){ Clazz.pu$h(self.c$); c$=Clazz.declareAnonymous(java.util,"WeakHashMap$1$1",null,java.util.WeakHashMap.Entry.Type); Clazz.overrideMethod(c$,"get", function(entry){ return entry; },"java.util.Map.Entry"); c$=Clazz.p0p(); }; c$.$WeakHashMap$2$=function(){ Clazz.pu$h(self.c$); c$=Clazz.declareAnonymous(java.util,"WeakHashMap$2",java.util.AbstractSet); Clazz.overrideMethod(c$,"contains", function(object){ return this.b$["java.util.WeakHashMap"].containsKey(object); },"~O"); Clazz.overrideMethod(c$,"size", function(){ return this.b$["java.util.WeakHashMap"].size(); }); Clazz.overrideMethod(c$,"clear", function(){ this.b$["java.util.WeakHashMap"].clear(); }); Clazz.overrideMethod(c$,"remove", function(key){ if(this.b$["java.util.WeakHashMap"].containsKey(key)){ this.b$["java.util.WeakHashMap"].remove(key); return true; }return false; },"~O"); Clazz.overrideMethod(c$,"iterator", function(){ return Clazz.innerTypeInstance(java.util.WeakHashMap.HashIterator,this,null,((Clazz.isClassDefined("java.util.WeakHashMap$2$1")?0:java.util.WeakHashMap.$WeakHashMap$2$1$()),Clazz.innerTypeInstance(java.util.WeakHashMap$2$1,this,null))); }); c$=Clazz.p0p(); }; c$.$WeakHashMap$2$1$=function(){ Clazz.pu$h(self.c$); c$=Clazz.declareAnonymous(java.util,"WeakHashMap$2$1",null,java.util.WeakHashMap.Entry.Type); Clazz.overrideMethod(c$,"get", function(entry){ return entry.getKey(); },"java.util.Map.Entry"); c$=Clazz.p0p(); }; c$.$WeakHashMap$3$=function(){ Clazz.pu$h(self.c$); c$=Clazz.declareAnonymous(java.util,"WeakHashMap$3",java.util.AbstractCollection); Clazz.overrideMethod(c$,"size", function(){ return this.b$["java.util.WeakHashMap"].size(); }); Clazz.overrideMethod(c$,"clear", function(){ this.b$["java.util.WeakHashMap"].clear(); }); Clazz.overrideMethod(c$,"contains", function(object){ return this.b$["java.util.WeakHashMap"].containsValue(object); },"~O"); Clazz.overrideMethod(c$,"iterator", function(){ return Clazz.innerTypeInstance(java.util.WeakHashMap.HashIterator,this,null,((Clazz.isClassDefined("java.util.WeakHashMap$3$1")?0:java.util.WeakHashMap.$WeakHashMap$3$1$()),Clazz.innerTypeInstance(java.util.WeakHashMap$3$1,this,null))); }); c$=Clazz.p0p(); }; c$.$WeakHashMap$3$1$=function(){ Clazz.pu$h(self.c$); c$=Clazz.declareAnonymous(java.util,"WeakHashMap$3$1",null,java.util.WeakHashMap.Entry.Type); Clazz.overrideMethod(c$,"get", function(entry){ return entry.getValue(); },"java.util.Map.Entry"); c$=Clazz.p0p(); }; Clazz.pu$h(self.c$); c$=Clazz.decorateAsClass(function(){ this.hash=0; this.isNull=false; this.value=null; this.$next=null; Clazz.instantialize(this,arguments); },java.util.WeakHashMap,"Entry",java.lang.ref.WeakReference,java.util.Map.Entry); Clazz.makeConstructor(c$, function(a,b,c){ Clazz.superConstructor(this,java.util.WeakHashMap.Entry,[a,c]); this.isNull=a==null; this.hash=this.isNull?0:a.hashCode(); this.value=b; },"~O,~O,java.lang.ref.ReferenceQueue"); Clazz.overrideMethod(c$,"getKey", function(){ return Clazz.superCall(this,java.util.WeakHashMap.Entry,"get",[]); }); Clazz.overrideMethod(c$,"getValue", function(){ return this.value; }); Clazz.overrideMethod(c$,"setValue", function(a){ var b=this.value; this.value=a; return b; },"~O"); Clazz.overrideMethod(c$,"equals", function(a){ if(!(Clazz.instanceOf(a,java.util.Map.Entry))){ return false; }var b=a; var c=Clazz.superCall(this,java.util.WeakHashMap.Entry,"get",[]); return(c==null?c===b.getKey():c.equals(b.getKey()))&&(this.value==null?this.value===b.getValue():this.value.equals(b.getValue())); },"~O"); Clazz.overrideMethod(c$,"hashCode", function(){ return this.hash+(this.value==null?0:this.value.hashCode()); }); Clazz.overrideMethod(c$,"toString", function(){ return Clazz.superCall(this,java.util.WeakHashMap.Entry,"get",[])+"="+this.value; }); Clazz.declareInterface(java.util.WeakHashMap.Entry,"Type"); c$=Clazz.p0p(); Clazz.defineStatics(c$, "DEFAULT_SIZE",16); });