| /dports/biology/pbbam/pbbam-0.18.0/src/ |
| H A D | PbiBuilder.cpp | 301 void PbiReferenceDataBuilder::WriteData(BGZF* bgzf) in WriteData()
570 auto* bgzf = outFile_.get(); in Close() local
632 void PbiBuilderPrivate::WriteFromTempFile(PbiTempFile<T>& tempFile, BGZF* bgzf) in WriteFromTempFile()
648 void PbiBuilderPrivate::WritePbiHeader(BGZF* bgzf) in WritePbiHeader()
678 void PbiBuilderPrivate::WriteReferenceData(BGZF* bgzf) { refDataBuilder_->WriteData(bgzf); } in WriteReferenceData()
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| H A D | BaiIndexedBamReader.cpp | 82 int BaiIndexedBamReader::ReadRawData(BGZF* bgzf, bam1_t* b) in ReadRawData()
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| H A D | BamReader.cpp | 125 int BamReader::ReadRawData(BGZF* bgzf, bam1_t* b) { return bam_read1(bgzf, b); } in ReadRawData()
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| H A D | IndexedBamWriter.cpp | 70 BGZF* bgzf = file_.get()->fp.bgzf; in Write() local
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| H A D | PbiIndexIO.cpp | 85 std::unique_ptr<BGZF, HtslibBgzfDeleter> bgzf(bgzf_open(filename.c_str(), "rb")); in Load() local
280 std::unique_ptr<BGZF, HtslibBgzfDeleter> bgzf(bgzf_open(filename.c_str(), "wb")); in Save() local
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| H A D | BamWriter.cpp | 100 BGZF* bgzf = file_.get()->fp.bgzf; in Write() local
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| H A D | PbiIndexedBamReader.cpp | 144 int PbiIndexedBamReader::ReadRawData(BGZF* bgzf, bam1_t* b) in ReadRawData()
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| /dports/biology/vt/vt-0.57721/lib/htslib/ |
| H A D | faidx.c | 53 BGZF *bgzf; member
99 faidx_t *fai_build_core(BGZF *bgzf) in fai_build_core()
259 BGZF *bgzf = NULL; in fai_build3() local
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| /dports/biology/stacks/stacks-2.4/htslib/ |
| H A D | faidx.c | 53 BGZF *bgzf; member
99 faidx_t *fai_build_core(BGZF *bgzf) in fai_build_core()
259 BGZF *bgzf = NULL; in fai_build3() local
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| /dports/biology/kallisto/kallisto-0.46.1/ext/htslib/ |
| H A D | faidx.c | 53 BGZF *bgzf; member
99 faidx_t *fai_build_core(BGZF *bgzf) in fai_build_core()
263 BGZF *bgzf = NULL; in fai_build3() local
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| /dports/biology/bedtools/bedtools2-2.30.0/src/utils/htslib/ |
| H A D | faidx.c | 54 BGZF *bgzf; member
103 static faidx_t *fai_build_core(BGZF *bgzf) { in fai_build_core()
436 BGZF *bgzf = NULL; in fai_build3_core() local
572 BGZF *bgzf = bgzf_open(fn, "rb"); in fai_load3_core() local
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| /dports/biology/sra-tools/sra-tools-2.11.0/ncbi-vdb/test/align/ |
| H A D | bamfuzz.cpp | 100 BGZF* bgzf = (BGZF*)malloc(sizeof(BGZF)); in KMain() local
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| /dports/biology/ncbi-vdb/ncbi-vdb-2.11.0/test/align/ |
| H A D | bamfuzz.cpp | 100 BGZF* bgzf = (BGZF*)malloc(sizeof(BGZF)); in KMain() local
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| /dports/biology/sra-tools/sra-tools-2.11.0/ncbi-vdb/libs/align/ |
| H A D | samextract-bam.cpp | 192 BGZF* bgzf; member in BGZFview
311 BGZF* bgzf = (BGZF*)malloc(sizeof(*bgzf)); in seeker() local
401 BGZF* bgzf = (BGZF*)where; in inflater() local
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| /dports/biology/ncbi-vdb/ncbi-vdb-2.11.0/libs/align/ |
| H A D | samextract-bam.cpp | 192 BGZF* bgzf; member in BGZFview
311 BGZF* bgzf = (BGZF*)malloc(sizeof(*bgzf)); in seeker() local
401 BGZF* bgzf = (BGZF*)where; in inflater() local
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| /dports/biology/freebayes/freebayes-1.3.5/contrib/htslib/ |
| H A D | faidx.c | 56 BGZF *bgzf; member
109 static faidx_t *fai_build_core(BGZF *bgzf) { in fai_build_core()
440 BGZF *bgzf = NULL; in fai_build3_core() local
576 BGZF *bgzf = bgzf_open(fn, "rb"); in fai_load3_core() local
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| /dports/biology/py-pysam/pysam-0.18.0/htslib/ |
| H A D | faidx.c | 56 BGZF *bgzf; member
109 static faidx_t *fai_build_core(BGZF *bgzf) { in fai_build_core()
440 BGZF *bgzf = NULL; in fai_build3_core() local
576 BGZF *bgzf = bgzf_open(fn, "rb"); in fai_load3_core() local
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| /dports/biology/htslib/htslib-1.14/ |
| H A D | faidx.c | 56 BGZF *bgzf; member
109 static faidx_t *fai_build_core(BGZF *bgzf) { in fai_build_core()
440 BGZF *bgzf = NULL; in fai_build3_core() local
576 BGZF *bgzf = bgzf_open(fn, "rb"); in fai_load3_core() local
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| /dports/sysutils/testdisk/testdisk-7.1/src/ |
| H A D | file_gz.c | 116 int bgzf=0; in header_check_gz() local
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| /dports/biology/plink/plink-ng-79b2df8c/1.9/ |
| H A D | hts.h | 92 no_compression, gzip, bgzf, custom, enumerator
118 BGZF *bgzf; member
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| /dports/biology/plink/plink-ng-79b2df8c/2.0/include/ |
| H A D | plink2_text.h | 167 BgzfRawDecompressStream bgzf; member
372 BgzfRawMtDecompressStream bgzf; member
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| /dports/biology/kallisto/kallisto-0.46.1/ext/htslib/htslib/ |
| H A D | hts.h | 145 no_compression, gzip, bgzf, custom, enumerator
171 BGZF *bgzf; member
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| /dports/biology/vt/vt-0.57721/ |
| H A D | hts_utils.h | 51 BGZF *bgzf; member
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| /dports/biology/vt/vt-0.57721/lib/htslib/htslib/ |
| H A D | hts.h | 147 no_compression, gzip, bgzf, custom, enumerator
173 BGZF *bgzf; member
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| /dports/biology/bedtools/bedtools2-2.30.0/src/utils/htslib/htslib/ |
| H A D | hts.h | 148 no_compression, gzip, bgzf, custom, enumerator
174 BGZF *bgzf; member
|