Implemented parameter for CDR1 frequency

src/main/java/CellFileWriter.java

@@ -13,6 +13,7 @@ public class CellFileWriter {
     private String[] headers = {"Alpha CDR3", "Beta CDR3", "Alpha CDR1", "Beta CDR1"};
     List<Integer[]> cells;
     String filename;
+    Integer cdr1Freq;
 
     public CellFileWriter(String filename, CellSample cells) {
         if(!filename.matches(".*\\.csv")){
@@ -20,15 +21,18 @@ public class CellFileWriter {
         }
         this.filename = filename;
         this.cells = cells.getCells();
+        this.cdr1Freq = cells.getCdr1Freq();
     }
 
     public void writeCellsToFile() {
         CSVFormat cellFileFormat = CSVFormat.Builder.create()
+                .setCommentMarker('#')
                 .setHeader(headers)
                 .build();
         try(BufferedWriter writer = Files.newBufferedWriter(Path.of(filename), StandardOpenOption.CREATE_NEW);
             CSVPrinter printer = new CSVPrinter(writer, cellFileFormat);
         ){
+            printer.printComment("Sample contains 1 unique CDR1 for every " + cdr1Freq + "unique CDR3s.");
             printer.printRecords(cells);
         } catch(IOException ex){
             System.out.println("Could not make new file named "+filename);