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Import pbbam_0.23.0+dfsg.orig.tar.xz
authorAndreas Tille <tille@debian.org>
Sun, 4 Aug 2019 19:16:32 +0000 (20:16 +0100)
committerAndreas Tille <tille@debian.org>
Sun, 4 Aug 2019 19:16:32 +0000 (20:16 +0100)
commit2af56dd7e54b720ee78260dedc0b2bd6e442dfae
treed15dd61195779762e7f4ddf1db01eca9602779c2tree | snapshot
Import pbbam_0.23.0+dfsg.orig.tar.xz

[dgit import orig pbbam_0.23.0+dfsg.orig.tar.xz]
684 files changed:
.clang-format [new file with mode: 0644] blob
.gitignore [new file with mode: 0644] blob
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CHANGELOG.md [new file with mode: 0644] blob
INSTALL.md [new file with mode: 0644] blob
LICENSE.txt [new file with mode: 0644] blob
README.md [new file with mode: 0644] blob
bamboo_build.sh [new file with mode: 0755] blob
docs/Doxyfile.in [new file with mode: 0644] blob
docs/Makefile [new file with mode: 0644] blob
docs/examples/code/BarcodeQuery.txt [new file with mode: 0644] blob
docs/examples/code/Compare.txt [new file with mode: 0644] blob
docs/examples/code/Compare_AlignedEnd.txt [new file with mode: 0644] blob
docs/examples/code/Compare_AlignedStart.txt [new file with mode: 0644] blob
docs/examples/code/Compare_AlignedStrand.txt [new file with mode: 0644] blob
docs/examples/code/Compare_BarcodeForward.txt [new file with mode: 0644] blob
docs/examples/code/Compare_BarcodeQuality.txt [new file with mode: 0644] blob
docs/examples/code/Compare_BarcodeReverse.txt [new file with mode: 0644] blob
docs/examples/code/Compare_FullName.txt [new file with mode: 0644] blob
docs/examples/code/Compare_LocalContextFlag.txt [new file with mode: 0644] blob
docs/examples/code/Compare_MapQuality.txt [new file with mode: 0644] blob
docs/examples/code/Compare_MovieName.txt [new file with mode: 0644] blob
docs/examples/code/Compare_NumDeletedBases.txt [new file with mode: 0644] blob
docs/examples/code/Compare_NumInsertedBases.txt [new file with mode: 0644] blob
docs/examples/code/Compare_NumMatches.txt [new file with mode: 0644] blob
docs/examples/code/Compare_NumMismatches.txt [new file with mode: 0644] blob
docs/examples/code/Compare_QueryEnd.txt [new file with mode: 0644] blob
docs/examples/code/Compare_QueryStart.txt [new file with mode: 0644] blob
docs/examples/code/Compare_ReadAccuracy.txt [new file with mode: 0644] blob
docs/examples/code/Compare_ReadGroupId.txt [new file with mode: 0644] blob
docs/examples/code/Compare_ReadGroupNumericId.txt [new file with mode: 0644] blob
docs/examples/code/Compare_ReferenceEnd.txt [new file with mode: 0644] blob
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docs/examples/code/Compare_TypeFromOperator.txt [new file with mode: 0644] blob
docs/examples/code/Compare_TypeToName.txt [new file with mode: 0644] blob
docs/examples/code/Compare_Zmw.txt [new file with mode: 0644] blob
docs/examples/code/EntireFileQuery.txt [new file with mode: 0644] blob
docs/examples/code/EntireFileQuery_BamFilename.txt [new file with mode: 0644] blob
docs/examples/code/EntireFileQuery_NonConst.txt [new file with mode: 0644] blob
docs/examples/code/GenomicIntervalQuery.txt [new file with mode: 0644] blob
docs/examples/code/GenomicIntervalQuery_Reuse.txt [new file with mode: 0644] blob
docs/examples/code/PbiAlignedEndFilter.txt [new file with mode: 0644] blob
docs/examples/code/PbiAlignedLengthFilter.txt [new file with mode: 0644] blob
docs/examples/code/PbiAlignedStartFilter.txt [new file with mode: 0644] blob
docs/examples/code/PbiAlignedStrandFilter.txt [new file with mode: 0644] blob
docs/examples/code/PbiBarcodeFilter.txt [new file with mode: 0644] blob
docs/examples/code/PbiBarcodeForwardFilter.txt [new file with mode: 0644] blob
docs/examples/code/PbiBarcodeQualityFilter.txt [new file with mode: 0644] blob
docs/examples/code/PbiBarcodeReverseFilter.txt [new file with mode: 0644] blob
docs/examples/code/PbiBarcodesFilter.txt [new file with mode: 0644] blob
docs/examples/code/PbiBuilder_WithReader.txt [new file with mode: 0644] blob
docs/examples/code/PbiBuilder_WithWriter.txt [new file with mode: 0644] blob
docs/examples/code/PbiFilterQuery.txt [new file with mode: 0644] blob
docs/examples/code/PbiFilter_Composition.txt [new file with mode: 0644] blob
docs/examples/code/PbiFilter_CustomFilter.txt [new file with mode: 0644] blob
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docs/examples/code/PbiIdentityFilter.txt [new file with mode: 0644] blob
docs/examples/code/PbiLocalContextFilter.txt [new file with mode: 0644] blob
docs/examples/code/PbiMapQualityFilter.txt [new file with mode: 0644] blob
docs/examples/code/PbiMovieNameFilter.txt [new file with mode: 0644] blob
docs/examples/code/PbiNumDeletedBasesFilter.txt [new file with mode: 0644] blob
docs/examples/code/PbiNumInsertedBasesFilter.txt [new file with mode: 0644] blob
docs/examples/code/PbiNumMatchesFilter.txt [new file with mode: 0644] blob
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docs/examples/code/PbiQueryStartFilter.txt [new file with mode: 0644] blob
docs/examples/code/PbiReadAccuracyFilter.txt [new file with mode: 0644] blob
docs/examples/code/PbiReadGroupFilter.txt [new file with mode: 0644] blob
docs/examples/code/PbiReferenceEndFilter.txt [new file with mode: 0644] blob
docs/examples/code/PbiReferenceIdFilter.txt [new file with mode: 0644] blob
docs/examples/code/PbiReferenceNameFilter.txt [new file with mode: 0644] blob
docs/examples/code/PbiReferenceStartFilter.txt [new file with mode: 0644] blob
docs/examples/code/PbiZmwFilter.txt [new file with mode: 0644] blob
docs/examples/code/ReadAccuracyQuery.txt [new file with mode: 0644] blob
docs/examples/code/SubreadLengthQuery.txt [new file with mode: 0644] blob
docs/examples/code/Tag_AsciiCtor.txt [new file with mode: 0644] blob
docs/examples/code/WhitelistedZmwReadStitcher.txt [new file with mode: 0644] blob
docs/examples/code/ZmwGroupQuery.txt [new file with mode: 0644] blob
docs/examples/code/ZmwQuery.txt [new file with mode: 0644] blob
docs/examples/plaintext/AlignmentPrinterOutput.txt [new file with mode: 0644] blob
docs/examples/plaintext/PbiFilter_DataSetXmlFilters.txt [new file with mode: 0644] blob
docs/meson.build [new file with mode: 0644] blob
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docs/source/api/AlignmentPrinter.rst [new file with mode: 0644] blob
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docs/source/api/BarcodeQuery.rst [new file with mode: 0644] blob
docs/source/api/BarcodeSet.rst [new file with mode: 0644] blob
docs/source/api/Cigar.rst [new file with mode: 0644] blob
docs/source/api/CigarOperation.rst [new file with mode: 0644] blob
docs/source/api/Compare.rst [new file with mode: 0644] blob
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docs/source/api/ConsensusAlignmentSet.rst [new file with mode: 0644] blob
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docs/source/api/EntireFileQuery.rst [new file with mode: 0644] blob
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docs/source/api/Frames.rst [new file with mode: 0644] blob
docs/source/api/GenomicInterval.rst [new file with mode: 0644] blob
docs/source/api/GenomicIntervalCompositeBamReader.rst [new file with mode: 0644] blob
docs/source/api/GenomicIntervalQuery.rst [new file with mode: 0644] blob
docs/source/api/HdfSubreadSet.rst [new file with mode: 0644] blob
docs/source/api/IndexResultBlock.rst [new file with mode: 0644] blob
docs/source/api/IndexedFastaReader.rst [new file with mode: 0644] blob
docs/source/api/Interval.rst [new file with mode: 0644] blob
docs/source/api/InvalidSequencingChemistryException.rst [new file with mode: 0644] blob
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docs/source/api/PbiIndexedBamReader.rst [new file with mode: 0644] blob
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docs/source/api/QNameQuery.rst [new file with mode: 0644] blob
docs/source/api/QualityValue.rst [new file with mode: 0644] blob
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docs/source/api/ReadAccuracyQuery.rst [new file with mode: 0644] blob
docs/source/api/ReadGroupInfo.rst [new file with mode: 0644] blob
docs/source/api/ReferenceSet.rst [new file with mode: 0644] blob
docs/source/api/SamTagCodec.rst [new file with mode: 0644] blob
docs/source/api/SequenceInfo.rst [new file with mode: 0644] blob
docs/source/api/SequentialCompositeBamReader.rst [new file with mode: 0644] blob
docs/source/api/Strand.rst [new file with mode: 0644] blob
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docs/source/api/Tag.rst [new file with mode: 0644] blob
docs/source/api/TagCollection.rst [new file with mode: 0644] blob
docs/source/api/VirtualPolymeraseBamRecord.rst [new file with mode: 0644] blob
docs/source/api/VirtualPolymeraseCompositeReader.rst [new file with mode: 0644] blob
docs/source/api/VirtualPolymeraseReader.rst [new file with mode: 0644] blob
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docs/source/api/VirtualRegionType.rst [new file with mode: 0644] blob
docs/source/api/VirtualRegionTypeMap.rst [new file with mode: 0644] blob
docs/source/api/ZmwGroupQuery.rst [new file with mode: 0644] blob
docs/source/api/ZmwQuery.rst [new file with mode: 0644] blob
docs/source/api/ZmwWhitelistVirtualReader.rst [new file with mode: 0644] blob
docs/source/api_reference.rst [new file with mode: 0644] blob
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include/pbbam/Accuracy.h [new file with mode: 0644] blob
include/pbbam/AlignmentPrinter.h [new file with mode: 0644] blob
include/pbbam/BaiIndexedBamReader.h [new file with mode: 0644] blob
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include/pbbam/BamTagCodec.h [new file with mode: 0644] blob
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include/pbbam/BarcodeQuery.h [new file with mode: 0644] blob
include/pbbam/Cigar.h [new file with mode: 0644] blob
include/pbbam/CigarOperation.h [new file with mode: 0644] blob
include/pbbam/ClipType.h [new file with mode: 0644] blob
include/pbbam/Compare.h [new file with mode: 0644] blob
include/pbbam/CompositeBamReader.h [new file with mode: 0644] blob
include/pbbam/CompositeFastaReader.h [new file with mode: 0644] blob
include/pbbam/Config.h [new file with mode: 0644] blob
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include/pbbam/DataSetTypes.h [new file with mode: 0644] blob
include/pbbam/DataSetXsd.h [new file with mode: 0644] blob
include/pbbam/EntireFileQuery.h [new file with mode: 0644] blob
include/pbbam/FastaCache.h [new file with mode: 0644] blob
include/pbbam/FastaReader.h [new file with mode: 0644] blob
include/pbbam/FastaSequence.h [new file with mode: 0644] blob
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include/pbbam/IndexedBamWriter.h [new file with mode: 0644] blob
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include/pbbam/LocalContextFlags.h [new file with mode: 0644] blob
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include/pbbam/Position.h [new file with mode: 0644] blob
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include/pbbam/ReadAccuracyQuery.h [new file with mode: 0644] blob
include/pbbam/ReadGroupInfo.h [new file with mode: 0644] blob
include/pbbam/RecordType.h [new file with mode: 0644] blob
include/pbbam/SamTagCodec.h [new file with mode: 0644] blob
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include/pbbam/SequenceInfo.h [new file with mode: 0644] blob
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include/pbbam/StringUtilities.h [new file with mode: 0644] blob
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include/pbbam/ZmwGroupQuery.h [new file with mode: 0644] blob
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include/pbbam/ZmwTypeMap.h [new file with mode: 0644] blob
include/pbbam/exception/BundleChemistryMappingException.h [new file with mode: 0644] blob
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src/AlignmentPrinter.cpp [new file with mode: 0644] blob
src/Autovalidate.h [new file with mode: 0644] blob
src/BaiIndexedBamReader.cpp [new file with mode: 0644] blob
src/BamFile.cpp [new file with mode: 0644] blob
src/BamFileMerger.cpp [new file with mode: 0644] blob
src/BamHeader.cpp [new file with mode: 0644] blob
src/BamReader.cpp [new file with mode: 0644] blob
src/BamRecord.cpp [new file with mode: 0644] blob
src/BamRecordBuilder.cpp [new file with mode: 0644] blob
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src/BamRecordView.cpp [new file with mode: 0644] blob
src/BamTagCodec.cpp [new file with mode: 0644] blob
src/BamWriter.cpp [new file with mode: 0644] blob
src/BarcodeQuery.cpp [new file with mode: 0644] blob
src/ChemistryTable.cpp [new file with mode: 0644] blob
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src/Cigar.cpp [new file with mode: 0644] blob
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src/Compare.cpp [new file with mode: 0644] blob
src/CompositeFastaReader.cpp [new file with mode: 0644] blob
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tools/pbbamify/src/main.cpp [new file with mode: 0644] blob
tools/pbindex/src/PbIndex.cpp [new file with mode: 0644] blob
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tools/pbindex/src/PbIndexVersion.h.in [new file with mode: 0644] blob
tools/pbindex/src/main.cpp [new file with mode: 0644] blob
tools/pbindexdump/src/CppFormatter.cpp [new file with mode: 0644] blob
tools/pbindexdump/src/CppFormatter.h [new file with mode: 0644] blob
tools/pbindexdump/src/IFormatter.h [new file with mode: 0644] blob
tools/pbindexdump/src/JsonFormatter.cpp [new file with mode: 0644] blob
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tools/pbindexdump/src/PbIndexDump.cpp [new file with mode: 0644] blob
tools/pbindexdump/src/PbIndexDump.h [new file with mode: 0644] blob
tools/pbindexdump/src/PbIndexDumpVersion.h.in [new file with mode: 0644] blob
tools/pbindexdump/src/Settings.h [new file with mode: 0644] blob
tools/pbindexdump/src/json.hpp [new file with mode: 0644] blob
tools/pbindexdump/src/main.cpp [new file with mode: 0644] blob
tools/pbmerge/src/PbMergeVersion.h.in [new file with mode: 0644] blob
tools/pbmerge/src/main.cpp [new file with mode: 0644] blob
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