/usr/include/bambamc/BamBam_BamWriter.h is in libbambamc-dev 0.0.50-1.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 | /**
bambamc
Copyright (C) 2009-2013 German Tischler
Copyright (C) 2011-2013 Genome Research Limited
This program 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.
This program 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 this program. If not, see <http://www.gnu.org/licenses/>.
**/
#if ! defined(BAMBAM_BAMWRITER_H)
#define BAMBAM_BAMWRITER_H
#include <bambamc/BamBam_BamAlignmentPut.h>
#include <bambamc/BamBam_BamHeaderInfo.h>
typedef struct _BamBam_BamWriter
{
BamBam_AlignmentPut * aput;
BamBam_BgzfCompressor * bgzf;
} BamBam_BamWriter;
extern BamBam_BamWriter * BamBam_BamWriter_Delete(BamBam_BamWriter * writer, int * termstatus);
extern BamBam_BamWriter * BamBam_BamWriter_New(
BamBam_BamHeaderInfo * info,
char const * filename,
int compressionLevel) BAMBAM_WARN_IF_UNUSEDRESULT;
extern int BamBam_BamWriter_PutAlignment(
BamBam_BamWriter * writer,
/* flags */
int32_t const flags,
/* target (chromosome) id */
int32_t const tid,
/* position on chromosome (0 based) */
uint64_t const rpos,
/* mate target id */
int32_t const mtid,
/* position of mate on mate target id */
uint64_t const rmpos,
/* sequence name */
char const * name,
/* query sequence (read) */
char const * query,
/* quality string */
char const * qual,
/* cigar operations */
char const * cigar,
/* mapping quality */
int32_t const rqual,
/* insert size */
int32_t const isize
) BAMBAM_WARN_IF_UNUSEDRESULT;
extern int BamBam_BamWriter_PutAuxNumber(BamBam_BamWriter * writer, char const * tag, char const type, void const * rvalue) BAMBAM_WARN_IF_UNUSEDRESULT;
extern int BamBam_BamWriter_Commit(BamBam_BamWriter * writer);
#endif
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