Method getMaxReadLength

src/rnabloom/RNABloom.java:958–982

(String path)

    }
    
    public static int getMaxReadLength(String path) throws FileFormatException, IOException{
        int max = -1;

        if (FastqReader.isCorrectFormat(path)) {
            FastqRecord r = new FastqRecord();
            FastqReader fr = new FastqReader(path);
            for (int i=0; i< 100 && fr.hasNext(); ++i) {
                fr.nextWithoutName(r);
                max = Math.max(max, r.seq.length());
            }
            fr.close();
        }
        else if (FastaReader.isCorrectFormat(path)) {
            FastaReader fr = new FastaReader(path);
            for (int i=0; i< 100 && fr.hasNext(); ++i) {
                max = Math.max(max, fr.next().length());
            }
            fr.close();                
        }
        else {
            throw new FileFormatException("Incompatible file format for `" + path + "`");
        }
        
        return max;
    }
    
    public void initializeGraph(boolean strandSpecific,
                            long dbgbfNumBits,