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- /* convert.h -- functions for converting between VCF/BCF and related formats.
-
- Copyright (C) 2014-2021 Genome Research Ltd.
-
- Author: Petr Danecek <pd3@sanger.ac.uk>
-
- Permission is hereby granted, free of charge, to any person obtaining a copy
- of this software and associated documentation files (the "Software"), to deal
- in the Software without restriction, including without limitation the rights
- to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
- copies of the Software, and to permit persons to whom the Software is
- furnished to do so, subject to the following conditions:
-
- The above copyright notice and this permission notice shall be included in
- all copies or substantial portions of the Software.
-
- THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
- IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
- FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
- AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
- LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
- OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
- THE SOFTWARE. */
-
- #ifndef __CONVERT_H__
- #define __CONVERT_H__
-
- #include <htslib/vcf.h>
-
- typedef struct _convert_t convert_t;
- enum convert_option
- {
- allow_undef_tags,
- subset_samples,
- };
-
- convert_t *convert_init(bcf_hdr_t *hdr, int *samples, int nsamples, const char *str);
- void convert_destroy(convert_t *convert);
- int convert_set_option(convert_t *convert, enum convert_option opt, ...);
- int convert_header(convert_t *convert, kstring_t *str);
- int convert_line(convert_t *convert, bcf1_t *rec, kstring_t *str);
- int convert_max_unpack(convert_t *convert);
- int convert_is_tag_used(convert_t *convert, char *tag);
- const char **convert_list_used_tags(convert_t *convert, int *ntags);
-
- #endif
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