94b51de40108650b05db9de5f6ea96ef5a00884b,java/src/org/broadinstitute/sting/playground/gatk/walkers/HLAcaller/CreatePedFileWalker.java,CreatePedFileWalker,onTraversalDone,#number#,367

Before Change


            PrintAminoAcidSites(A_exons,"A",true);
            PrintAminoAcidSites(C_exons,"C",false);
            PrintAminoAcidSites(B_exons,"B",false);
            PrintAminoAcidSites(DRB1_exons,"DRB1",false);
            PrintAminoAcidSites(DQA1_exons,"DQA1",true);
            PrintAminoAcidSites(DQB1_exons,"DQB1",false);
            PrintAminoAcidSites(DPA1_exons,"DPA1",false);
            PrintAminoAcidSites(DPB1_exons,"DPB1",true);
        }

    }

After Change


                PrintSNPS(HLA_DPB1_start,HLA_DPB1_end);
            }

            if (PrintAA){
                PrintAminoAcidSites(A_exons,"A",true);
                PrintAminoAcidSites(C_exons,"C",false);
                PrintAminoAcidSites(B_exons,"B",false);
                PrintAminoAcidSites(DRB1_exons,"DRB1",false);
                PrintAminoAcidSites(DQA1_exons,"DQA1",true);
                PrintAminoAcidSites(DQB1_exons,"DQB1",false);
                PrintAminoAcidSites(DPA1_exons,"DPA1",false);
                PrintAminoAcidSites(DPB1_exons,"DPB1",true);
            }
        }