- JSONParser jsonParser = new JSONParser();
- JSONObject alignmentJsonObj = (JSONObject) jsonParser
- .parse(jsonAlignmentString);
- JSONArray seqJsonArray = (JSONArray) alignmentJsonObj.get("seqs");
- JSONArray alAnnotJsonArray = (JSONArray) alignmentJsonObj
+ Map<String, Object> alignmentJsonObj = (Map<String, Object>) JSONUtils.parse(jsonAlignmentString);
+ List<Object> seqJsonArray = (List<Object>) alignmentJsonObj.get("seqs");
+ List<Object> alAnnotJsonArray = (List<Object>) alignmentJsonObj