Searched refs:SAMFile (Results 1 – 3 of 3) sorted by relevance
| /dports/biology/mummer/mummer-4.0.0beta2-2-g277dac5/include/mummer/ |
| H A D | postnuc.hh | 280 std::ostream& SAMFile, bool long_format, const long minLen = 0);
418 std::ostream& SAMFile, bool long_format, in printSAMAlignments() argument
426 SAMFile << B.Id() << '\t' in printSAMAlignments()
435 SAMFile.write(B.seq() + start, len); in printSAMAlignments()
437 SAMFile << '*'; in printSAMAlignments()
439 SAMFile << "\t*\tNM:i:" << Al.Errors; in printSAMAlignments()
441 SAMFile << "\tMD:Z:" << createMD(Al, A.seq(), B.seq(), B.len()); in printSAMAlignments()
442 SAMFile << '\n'; in printSAMAlignments()
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| /dports/biology/sra-tools/sra-tools-2.11.0/tools/bam-loader/ |
| H A D | bam-priv.h | 32 typedef struct SAMFile SAMFile; typedef
62 struct SAMFile { struct
76 SAMFile sam; argument
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| H A D | bam.c | 139 static int SAMFileRead1(SAMFile *const self) in SAMFileRead1()
173 static rc_t SAMFileLastError(SAMFile const *const self) in SAMFileLastError()
178 static void SAMFilePutBack(SAMFile *const self, int ch) in SAMFilePutBack()
186 static rc_t SAMFileInit(SAMFile *self, RawFile_vt *vt) in SAMFileInit()
1330 SAMFile *const file = &self->file.sam; in ProcessSAMHeader()
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