Method connect

src/rnabloom/util/GraphUtils.java:4836–4872

(ArrayList<String> segments, BloomFilterDeBruijnGraph graph, int lookahead)

    }
    
    public static String connect(ArrayList<String> segments, BloomFilterDeBruijnGraph graph, int lookahead) {
        int numSeqs = segments.size();
        switch (numSeqs) {
            case 0:
                return "";
            case 1:
                return segments.get(0);
            default:
                int k = graph.getK();
                String last = segments.get(0);
                String longest = last;
    
                for (int i=1; i<numSeqs; i+=2) {             
                    String current = segments.get(i+1);     
                    
                    String connected = connect(last, current, graph, segments.get(i).length()+k, lookahead);
                    int connectedLength = connected.length();
                    
                    if (connectedLength > 0) {
                        last = connected;
                        
                        if (connectedLength > longest.length()) {
                            longest = connected;
                        }
                    }
                    else {
                        last = current;
                        
                        if (current.length() > longest.length()) {
                            longest = current;
                        }
                    }
                }
                
                return longest;
        }
    }
    
    public static String connect(String left, String right, BloomFilterDeBruijnGraph graph, int bound, int lookahead) {
        int k = graph.getK();