/* This file is part of Jellyfish.
Jellyfish is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
Jellyfish is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU General Public License for more details.
You should have received a copy of the GNU General Public License
along with Jellyfish. If not, see .
*/
#ifndef __JELLYFISH_PARSER_COMMON_H__
#define __JELLYFISH_PARSER_COMMON_H__
#ifdef HAVE_CONFIG_H
#include
#endif
#include
#include
namespace jellyfish {
enum file_type { DONE_TYPE
, FASTA_TYPE
, FASTQ_TYPE
#ifdef HAVE_HTSLIB
, SAM_TYPE
#endif
};
struct stream_type {
std::unique_ptr standard;
#ifdef HAVE_HTSLIB
std::unique_ptr sam;
#endif
bool good() {
return (standard && standard->good())
#ifdef HAVE_HTSLIB
|| (sam && sam->good())
#endif
;
}
void reset() {
standard.reset();
#ifdef HAVE_HTSLIB
sam.reset();
#endif
}
};
}
#endif // __JELLYFISH_PARSER_COMMON_H__