Method getNonEmptyLines

src/rnabloom/RNABloom.java:5794–5813

(String textFile)

    }
    
    private static String[] getNonEmptyLines(String textFile) throws IOException {
        ArrayList<String> lines = new ArrayList<>();
        
        BufferedReader br = getTextFileReader(textFile);
        
        for (String line; (line = br.readLine()) != null; ) {
            line = line.trim();
            
            if (line.isEmpty()) {
                continue;
            }
            
            lines.add(line);
        }
        
        String[] linesArray = new String[lines.size()];
        lines.toArray(linesArray);
        
        return linesArray;
    }
    
    public static final String SUBSAMPLE_STROBEMER = "s";
    public static final String SUBSAMPLE_KMER = "k";