Commit 77663b24 authored by Haowen Zhang's avatar Haowen Zhang
Browse files

Set default output format as BED

parent 3fe5651d

src/chromap.cc

+3 −0
Original line number Diff line number Diff line
@@ -4403,6 +4403,9 @@ void ChromapDriver::ParseArgsAndRun(int argc, char *argv[]) { 
    output_mapping_in_PAF = false;

    output_mapping_in_pairs = false;

  }

  if (!output_mapping_in_SAM && !output_mapping_in_BED && !output_mapping_in_TagAlign && !output_mapping_in_PAF && !output_mapping_in_pairs) {

    output_mapping_in_BED = true;

  }

  if (result.count("low-mem")) {

    low_memory_mode = true;

  }

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