public class PDBfile extends StructureFile
{
- private static String CALC_ID_PREFIX = "JalviewPDB";
+ private final static String CALC_ID_PREFIX = "JalviewPDB";
public PDBfile(boolean addAlignmentAnnotations,
boolean predictSecondaryStructure, boolean externalSecStr)
setId(safeName(getDataName()));
setChains(new Vector<PDBChain>());
- List<SequenceI> rna = new ArrayList<SequenceI>();
- List<SequenceI> prot = new ArrayList<SequenceI>();
+ List<SequenceI> rna = new ArrayList<>();
+ List<SequenceI> prot = new ArrayList<>();
PDBChain tmpchain;
String line = null;
boolean modelFlag = false;
boolean terFlag = false;
String lastID = "";
- int indexx = 0;
+ // int indexx = 0;
String atomnam = null;
try
{