| /dports/biology/gatk/gatk-4.2.0.0/src/test/java/org/broadinstitute/hellbender/tools/walkers/annotator/allelespecific/ |
| H A D | ReducibleAnnotationBaseTest.java | 89 …public void testCombineAnnotationAgainstExpected(List<VariantContext> VCs, VariantContext result, … in testCombineAnnotationAgainstExpected()
97 …public void testFinalizeAnnotationAgainstExpected(List<VariantContext> VCs, VariantContext result,… in testFinalizeAnnotationAgainstExpected()
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| /dports/biology/bolt-lmm/BOLT-LMM_v2.3.4/src/ |
| H A D | BoltReml.cpp | 84 int VCs = vcXscale2s.size()-1; in multThetaMinusIs() local
207 int VCs = Vegs.size()-1; in updateVegs() local
325 const uchar snpVCnums[], int VCs, in computeMCgrad()
566 int VCs = Vegs.size()-1; in conjGradSolveVmulti() local
685 int VCs = Vegs.size()-1; in combineEnvGenMultiCovCompVecs() local
741 const uchar snpVCnums[], int VCs, const vector <double> &vcXscale2s, int MCtrials, int seed) in genUnscaledMultiCovCompVecs()
832 int VCs = Vegs.size()-1; in updateVegsAI() local
914 int VCs = Vegs.size()-1; in computeAI() local
976 int VCs = 0; vector <double> vcXscale2s(1, 1); in remlAI() local
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| H A D | BoltMain.cpp | 223 int VCs = snpData.getNumVCs(); in main() local
283 int VCs = snpData.getNumVCs(); in main() local
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| H A D | NonlinearOptMulti.cpp | 117 int VCs = Vegs.size()-1; in constrainedNR() local
|
| /dports/biology/gatk/gatk-4.2.0.0/src/main/java/org/broadinstitute/hellbender/tools/walkers/rnaseq/ |
| H A D | ASEReadCounter.java | 185 final List<VariantContext> VCs = featureContext.getValues(variants); in apply() local
|
| /dports/biology/gatk/gatk-4.2.0.0/src/main/java/org/broadinstitute/hellbender/tools/walkers/ |
| H A D | CombineGVCFs.java | 463 private static boolean containsTrueAltAllele(final List<VariantContext> VCs) { in containsTrueAltAllele()
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| H A D | ReferenceConfidenceVariantContextMerger.java | 369 …private static Allele determineReferenceAlleleGivenReferenceBase(final List<VariantContext> VCs, f… in determineReferenceAlleleGivenReferenceBase()
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| /dports/biology/gatk/gatk-4.2.0.0/src/main/java/org/broadinstitute/hellbender/utils/variant/ |
| H A D | GATKVariantContextUtils.java | 186 …public static Allele determineReferenceAllele(final List<VariantContext> VCs, final Locatable loc)… in determineReferenceAllele()
1062 List<VariantContext> VCs = preFilteredVCs.stream() in simpleMerge() local
1195 private static Allele determineReferenceAllele(final List<VariantContext> VCs) { in determineReferenceAllele()
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| /dports/devel/llvm10/llvm-10.0.1.src/lib/Bitcode/Writer/ |
| H A D | BitcodeWriter.cpp | 3541 ArrayRef<FunctionSummary::ConstVCall> VCs) { in writeFunctionTypeMetadataRecords()
3575 [&](ArrayRef<FunctionSummary::ConstVCall> VCs) { in getReferencedTypeIds()
|
| /dports/www/chromium-legacy/chromium-88.0.4324.182/third_party/swiftshader/third_party/llvm-10.0/llvm/lib/Bitcode/Writer/ |
| H A D | BitcodeWriter.cpp | 3541 ArrayRef<FunctionSummary::ConstVCall> VCs) { in writeFunctionTypeMetadataRecords()
3575 [&](ArrayRef<FunctionSummary::ConstVCall> VCs) { in getReferencedTypeIds()
|
| /dports/devel/tinygo/tinygo-0.14.1/llvm-project/llvm/lib/Bitcode/Writer/ |
| H A D | BitcodeWriter.cpp | 3541 ArrayRef<FunctionSummary::ConstVCall> VCs) { in writeFunctionTypeMetadataRecords()
3575 [&](ArrayRef<FunctionSummary::ConstVCall> VCs) { in getReferencedTypeIds()
|
| /dports/devel/llvm90/llvm-9.0.1.src/lib/Bitcode/Writer/ |
| H A D | BitcodeWriter.cpp | 3530 ArrayRef<FunctionSummary::ConstVCall> VCs) { in writeFunctionTypeMetadataRecords()
3564 [&](ArrayRef<FunctionSummary::ConstVCall> VCs) { in getReferencedTypeIds()
|
| /dports/devel/llvm80/llvm-8.0.1.src/lib/Bitcode/Writer/ |
| H A D | BitcodeWriter.cpp | 3443 ArrayRef<FunctionSummary::ConstVCall> VCs) { in writeFunctionTypeMetadataRecords()
3477 [&](ArrayRef<FunctionSummary::ConstVCall> VCs) { in getReferencedTypeIds()
|
| /dports/www/chromium-legacy/chromium-88.0.4324.182/third_party/llvm/llvm/lib/Bitcode/Writer/ |
| H A D | BitcodeWriter.cpp | 3621 ArrayRef<FunctionSummary::ConstVCall> VCs) { in writeFunctionTypeMetadataRecords()
3687 [&](ArrayRef<FunctionSummary::ConstVCall> VCs) { in getReferencedTypeIds()
|
| /dports/devel/llvm-cheri/llvm-project-37c49ff00e3eadce5d8703fdc4497f28458c64a8/llvm/lib/Bitcode/Writer/ |
| H A D | BitcodeWriter.cpp | 3571 ArrayRef<FunctionSummary::ConstVCall> VCs) { in writeFunctionTypeMetadataRecords()
3628 [&](ArrayRef<FunctionSummary::ConstVCall> VCs) { in getReferencedTypeIds()
|
| /dports/devel/wasi-libcxx/llvm-project-13.0.1.src/llvm/lib/Bitcode/Writer/ |
| H A D | BitcodeWriter.cpp | 3674 ArrayRef<FunctionSummary::ConstVCall> VCs) { in writeFunctionTypeMetadataRecords()
3740 [&](ArrayRef<FunctionSummary::ConstVCall> VCs) { in getReferencedTypeIds()
|
| /dports/graphics/llvm-mesa/llvm-13.0.1.src/lib/Bitcode/Writer/ |
| H A D | BitcodeWriter.cpp | 3674 ArrayRef<FunctionSummary::ConstVCall> VCs) { in writeFunctionTypeMetadataRecords()
3740 [&](ArrayRef<FunctionSummary::ConstVCall> VCs) { in getReferencedTypeIds()
|
| /dports/devel/llvm12/llvm-project-12.0.1.src/llvm/lib/Bitcode/Writer/ |
| H A D | BitcodeWriter.cpp | 3629 ArrayRef<FunctionSummary::ConstVCall> VCs) { in writeFunctionTypeMetadataRecords()
3695 [&](ArrayRef<FunctionSummary::ConstVCall> VCs) { in getReferencedTypeIds()
|
| /dports/devel/llvm11/llvm-11.0.1.src/lib/Bitcode/Writer/ |
| H A D | BitcodeWriter.cpp | 3567 ArrayRef<FunctionSummary::ConstVCall> VCs) { in writeFunctionTypeMetadataRecords()
3624 [&](ArrayRef<FunctionSummary::ConstVCall> VCs) { in getReferencedTypeIds()
|
| /dports/lang/rust/rustc-1.58.1-src/src/llvm-project/llvm/lib/Bitcode/Writer/ |
| H A D | BitcodeWriter.cpp | 3674 ArrayRef<FunctionSummary::ConstVCall> VCs) { in writeFunctionTypeMetadataRecords()
3740 [&](ArrayRef<FunctionSummary::ConstVCall> VCs) { in getReferencedTypeIds()
|
| /dports/devel/llvm-devel/llvm-project-f05c95f10fc1d8171071735af8ad3a9e87633120/llvm/lib/Bitcode/Writer/ |
| H A D | BitcodeWriter.cpp | 3685 ArrayRef<FunctionSummary::ConstVCall> VCs) { in writeFunctionTypeMetadataRecords()
3751 [&](ArrayRef<FunctionSummary::ConstVCall> VCs) { in getReferencedTypeIds()
|
| /dports/devel/wasi-compiler-rt13/llvm-project-13.0.1.src/llvm/lib/Bitcode/Writer/ |
| H A D | BitcodeWriter.cpp | 3674 ArrayRef<FunctionSummary::ConstVCall> VCs) { in writeFunctionTypeMetadataRecords()
3740 [&](ArrayRef<FunctionSummary::ConstVCall> VCs) { in getReferencedTypeIds()
|
| /dports/devel/wasi-compiler-rt12/llvm-project-12.0.1.src/llvm/lib/Bitcode/Writer/ |
| H A D | BitcodeWriter.cpp | 3629 ArrayRef<FunctionSummary::ConstVCall> VCs) { in writeFunctionTypeMetadataRecords()
3695 [&](ArrayRef<FunctionSummary::ConstVCall> VCs) { in getReferencedTypeIds()
|
| /dports/devel/llvm13/llvm-project-13.0.1.src/llvm/lib/Bitcode/Writer/ |
| H A D | BitcodeWriter.cpp | 3674 ArrayRef<FunctionSummary::ConstVCall> VCs) { in writeFunctionTypeMetadataRecords()
3740 [&](ArrayRef<FunctionSummary::ConstVCall> VCs) { in getReferencedTypeIds()
|
| /dports/devel/llvm70/llvm-7.0.1.src/lib/Bitcode/Writer/ |
| H A D | BitcodeWriter.cpp | 3386 ArrayRef<FunctionSummary::ConstVCall> VCs) { in writeFunctionTypeMetadataRecords()
|