add a taxonomy_terms view to allow autocompletion to retrieve a term of the taxonomy

modify by_replicon_taxonomy to be query document by any terms of its taxonomy 

src/couchapp/secreton/views/by_replicon_taxonomy/map.js

 function(doc) {
-	var taxo =  doc.replicon.taxonomy;
-	for( var i=0; i<taxo.length; i++ ){
-		emit(taxo[i], doc._id);
-  }
+	taxonomy =  doc.replicon.taxonomy;
+	for( var j=0; j< taxonomy.length ; j++ ){
+		emit(taxonomy[j], {
+	    	"id" : doc._id,
+	    	"code" : doc.code ,
+	    	"name" : doc.replicon.name ,
+	    	"T3SS_family" : doc.T3SS_family,
+	    	"taxid" : doc.replicon.taxid,
+	    	"strain" : doc.replicon.strain ,
+	    	"taxonomy" : doc.replicon.taxonomy.join( ", ") ,
+	    	"type" : doc.replicon.type
+	    });
+	}
 }
 
 

src/couchapp/secreton/views/taxonomy_terms/map.js

+function(doc) {
+	taxonomy =  doc.replicon.taxonomy;
+	for( var j=0; j< taxonomy.length ; j++ ){
+		var term= taxonomy[j];
+		for( var syllabe_l = 3 ; syllabe_l <= term.length ; syllabe_l++){
+			for(var i=0; i<= term.length-syllabe_l; i++){
+				var key = term.substring(i, i+syllabe_l);
+				key = key.toLowerCase();
+				emit( [key, term] , 1 );
+			}
+		}
+	}
+}

src/couchapp/secreton/views/taxonomy_terms/reduce.js

+function(keys, values, rereduce){
+	return sum(values);
+}
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