/dports/biology/gatk/gatk-4.2.0.0/src/test/java/org/broadinstitute/hellbender/tools/ |
H A D | CountReadsIntegrationTest.java | 84 countReads(interval_args, "count_reads_sorted.bam", null, count); in testCountBAMReadsWithIntervals() 89 countReads(interval_args, "count_reads_sorted.cram", "count_reads.fasta", count); in testCountCRAMReadsWithIntervals() 92 …private void countReads(final String interval_args, final String fileName, final String referenceN… in countReads() method in CountReadsIntegrationTest
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/dports/security/vault/vault-1.8.2/vendor/github.com/apple/foundationdb/flow/ |
H A D | SystemMonitor.h | 52 int64_t countReads; member 96 countReads = getValue(LiteralStringRef("Net2.CountReads")); in init()
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H A D | SystemMonitor.cpp | 130 .detail("ReadCalls", netData.countReads - statState->networkState.countReads) in customSystemMonitor()
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H A D | Net2.actor.cpp | 207 Int64MetricHandle countReads; member in N2::sealed 330 ++g_net2->countReads; in read() 539 countReads.init(LiteralStringRef("Net2.CountReads")); in initMetrics()
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/dports/biology/ugene/ugene-40.1/src/corelibs/U2Formats/src/mysql_dbi/ |
H A D | MysqlAssemblyDbi.cpp | 129 qint64 MysqlAssemblyDbi::countReads(const U2DataId &assemblyId, const U2Region &r, U2OpStatus &os) { in countReads() function in U2::MysqlAssemblyDbi 135 return a->countReads(r, os); in countReads() 353 stat.readsCount = a->countReads(U2_REGION_MAX, os); in pack()
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H A D | MysqlAssemblyDbi.h | 50 virtual qint64 countReads(const U2DataId &assemblyId, const U2Region &r, U2OpStatus &os);
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/dports/biology/ugene/ugene-40.1/src/plugins/workflow_designer/src/debug_messages_translation/ |
H A D | AssemblyMessageTranslator.cpp | 63 const qint64 countOfReads = dbi->countReads(assemblyId, wholeAssembly, os); in getTranslation()
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/dports/biology/ugene/ugene-40.1/src/corelibs/U2Formats/src/util/ |
H A D | AssemblyAdapter.h | 51 virtual qint64 countReads(const U2Region &r, U2OpStatus &os) = 0;
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/dports/biology/ugene/ugene-40.1/src/corelibs/U2Formats/src/sqlite_dbi/assembly/ |
H A D | RTreeAssemblyAdapter.h | 39 virtual qint64 countReads(const U2Region &r, U2OpStatus &os);
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H A D | SingleTableAssemblyAdapter.cpp | 109 qint64 SingleTableAssemblyAdapter::countReads(const U2Region &r, U2OpStatus &os) { in countReads() function in U2::SingleTableAssemblyAdapter 121 return countReads(r, os); in countReadsPrecise()
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H A D | SingleTableAssemblyAdapter.h | 39 virtual qint64 countReads(const U2Region &r, U2OpStatus &os);
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H A D | MultiTableAssemblyAdapter.h | 53 virtual qint64 countReads(const U2Region &r, U2OpStatus &os);
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H A D | MultiTableAssemblyAdapter.cpp | 251 qint64 MultiTableAssemblyAdapter::countReads(const U2Region &r, U2OpStatus &os) { in countReads() function in U2::MultiTableAssemblyAdapter 258 int n = a->singleTableAdapter->countReads(r, os); in countReads() 727 qint64 nReadsTotal = multiTableAdapter->countReads(U2_REGION_MAX, os); in migrateAll()
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/dports/biology/ugene/ugene-40.1/src/corelibs/U2Core/src/dbi/ |
H A D | U2AssemblyDbi.h | 115 virtual qint64 countReads(const U2DataId &assemblyId, const U2Region &r, U2OpStatus &os) = 0;
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/dports/biology/ugene/ugene-40.1/src/corelibs/U2Formats/src/mysql_dbi/util/ |
H A D | MysqlSingleTableAssemblyAdapter.h | 43 virtual qint64 countReads(const U2Region &r, U2OpStatus &os);
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H A D | MysqlSingleTableAssemblyAdapter.cpp | 118 qint64 MysqlSingleTableAssemblyAdapter::countReads(const U2Region &r, U2OpStatus &os) { in countReads() function in U2::MysqlSingleTableAssemblyAdapter 131 return countReads(r, os); in countReadsPrecise()
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H A D | MysqlMultiTableAssemblyAdapter.h | 54 virtual qint64 countReads(const U2Region ®ion, U2OpStatus &os);
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H A D | MysqlMultiTableAssemblyAdapter.cpp | 111 qint64 MysqlMultiTableAssemblyAdapter::countReads(const U2Region &r, U2OpStatus &os) { in countReads() function in U2::MysqlMultiTableAssemblyAdapter 119 int n = a->singleTableAdapter->countReads(r, os); in countReads() 722 qint64 nReadsTotal = multiTableAdapter->countReads(U2_REGION_MAX, os); in migrateAll()
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/dports/biology/ugene/ugene-40.1/src/plugins/api_tests/src/core/dbi/assembly/ |
H A D | AssemblyDbiUnitTests.cpp | 161 qint64 numReads = assemblyDbi->countReads(id, U2_REGION_MAX, os); in Test() 168 qint64 numReads = assemblyDbi->countReads(id, testRegion, os); in Test() 180 qint64 val = assemblyDbi->countReads(id, U2_REGION_MAX, os); in Test()
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/dports/biology/ugene/ugene-40.1/src/corelibs/U2Formats/src/sqlite_dbi/ |
H A D | SQLiteAssemblyDbi.h | 48 virtual qint64 countReads(const U2DataId &assemblyId, const U2Region &r, U2OpStatus &os);
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H A D | SQLiteAssemblyDbi.cpp | 125 qint64 SQLiteAssemblyDbi::countReads(const U2DataId &assemblyId, const U2Region &r, U2OpStatus &os)… in countReads() function in U2::SQLiteAssemblyDbi 131 return a->countReads(r, os); in countReads() 323 stat.readsCount = a->countReads(U2_REGION_MAX, os); in pack()
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/dports/biology/ugene/ugene-40.1/src/plugins/dbi_bam/src/ |
H A D | Dbi.h | 142 virtual qint64 countReads(const U2DataId &assemblyId, const U2Region &r, U2OpStatus &os);
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H A D | SamtoolsBasedDbi.h | 107 virtual qint64 countReads(const U2DataId &assemblyId, const U2Region &r, U2OpStatus &os);
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/dports/biology/ugene/ugene-40.1/src/plugins/genome_aligner/src/ |
H A D | GenomeAlignerIO.cpp | 166 readsInAssembly = rDbi->countReads(assembly.id, wholeAssembly, status); in GenomeAlignerDbiReader()
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/dports/biology/ugene/ugene-40.1/src/corelibs/U2Core/src/gobjects/ |
H A D | AssemblyObject.cpp | 159 qint64 readsCount = srcAssemblyDbi->countReads(srcObjId, desiredRegion, os); in dbi2dbiExtractRegion()
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