variant_header_builder.h

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#ifndef __gamgee__variant_header_builder__
#define __gamgee__variant_header_builder__

#include "utils/utils.h"
#include "variant_header.h"

#include "htslib/vcf.h"

#include <memory>

namespace gamgee {

class VariantHeaderBuilder {
 public: 

  VariantHeaderBuilder() noexcept;
  VariantHeaderBuilder(VariantHeaderBuilder&& other) noexcept;
  VariantHeaderBuilder(const VariantHeaderBuilder& other) = delete; 

  void add_contig(const std::string& id, const std::string& length = "", const std::string& url = "", const std::string& extra = "");
  void add_filter(const std::string& id, const std::string& description = "", const std::string& extra = "");
  void add_info_field(const std::string& id, const std::string& number, const std::string& type, const std::string& description = "", const std::string& source = "", const std::string& version = "", const std::string& extra = "");
  void add_format_field(const std::string& id, const std::string& number, const std::string& type, const std::string& description = "", const std::string& extra = "");
  void add_sample(const std::string& sample);
  void add_source(const std::string& source);

  void advanced_add_arbitrary_line(const std::string& line);

  VariantHeader build() const { return VariantHeader{m_header}; }

 private:
  std::shared_ptr<bcf_hdr_t> m_header;

};

}

#endif