data/diamond-aligner-2.0.5/docs/1 Tutorial.MD:23: accomodate ==> accommodate data/diamond-aligner-2.0.5/docs/1 Tutorial.MD:27: accross ==> across data/diamond-aligner-2.0.5/docs/3 Command line options.MD:24: DAA ==> DATA data/diamond-aligner-2.0.5/docs/3 Command line options.MD:128: DAA ==> DATA data/diamond-aligner-2.0.5/docs/3 Command line options.MD:403: DAA ==> DATA data/diamond-aligner-2.0.5/docs/3 Command line options.MD:403: DAA ==> DATA data/diamond-aligner-2.0.5/docs/3 Command line options.MD:439: DAA ==> DATA data/diamond-aligner-2.0.5/docs/3 Command line options.MD:440: DAA ==> DATA data/diamond-aligner-2.0.5/docs/3 Command line options.MD:445: DAA ==> DATA data/diamond-aligner-2.0.5/docs/3 Command line options.MD:598: DAA ==> DATA data/diamond-aligner-2.0.5/docs/3 Command line options.MD:608: DAA ==> DATA data/diamond-aligner-2.0.5/docs/4 Support.MD:17: ressources ==> resources data/diamond-aligner-2.0.5/src/ChangeLog:100: DAA ==> DATA data/diamond-aligner-2.0.5/src/ChangeLog:165: DAA ==> DATA data/diamond-aligner-2.0.5/src/ChangeLog:278: DAA ==> DATA data/diamond-aligner-2.0.5/src/ChangeLog:316: DAA ==> DATA data/diamond-aligner-2.0.5/src/ChangeLog:333: nonexistant ==> nonexistent data/diamond-aligner-2.0.5/src/ChangeLog:424: DAA ==> DATA data/diamond-aligner-2.0.5/src/ChangeLog:474: DAA ==> DATA data/diamond-aligner-2.0.5/src/ChangeLog:490: DAA ==> DATA data/diamond-aligner-2.0.5/src/ChangeLog:491: DAA ==> DATA data/diamond-aligner-2.0.5/src/ChangeLog:502: DAA ==> DATA data/diamond-aligner-2.0.5/src/align/align.cpp:82: daa ==> data data/diamond-aligner-2.0.5/src/align/output.cpp:44: daa ==> data data/diamond-aligner-2.0.5/src/align/output.cpp:58: daa ==> data data/diamond-aligner-2.0.5/src/align/output.cpp:79: daa ==> data data/diamond-aligner-2.0.5/src/align/legacy/query_mapper.cpp:64: treshold ==> threshold data/diamond-aligner-2.0.5/src/align/legacy/query_mapper.cpp:69: treshold ==> threshold data/diamond-aligner-2.0.5/src/align/legacy/query_mapper.cpp:251: daa ==> data data/diamond-aligner-2.0.5/src/align/legacy/query_mapper.cpp:256: daa ==> data data/diamond-aligner-2.0.5/src/align/legacy/query_mapper.cpp:280: daa ==> data data/diamond-aligner-2.0.5/src/align/legacy/query_mapper.cpp:288: daa ==> data data/diamond-aligner-2.0.5/src/align/legacy/query_mapper.h:132: treshold ==> threshold data/diamond-aligner-2.0.5/src/basic/basic.cpp:406: treshold ==> threshold data/diamond-aligner-2.0.5/src/basic/basic.cpp:413: treshold ==> threshold data/diamond-aligner-2.0.5/src/basic/basic.cpp:415: treshold ==> threshold data/diamond-aligner-2.0.5/src/basic/basic.cpp:423: treshold ==> threshold data/diamond-aligner-2.0.5/src/basic/basic.cpp:426: treshold ==> threshold data/diamond-aligner-2.0.5/src/basic/config.cpp:119: DAA ==> DATA data/diamond-aligner-2.0.5/src/basic/config.cpp:169: DAA ==> DATA data/diamond-aligner-2.0.5/src/basic/config.cpp:272: DAA ==> DATA data/diamond-aligner-2.0.5/src/basic/config.cpp:273: DAA ==> DATA data/diamond-aligner-2.0.5/src/basic/config.cpp:298: DAA ==> DATA data/diamond-aligner-2.0.5/src/basic/config.cpp:307: daa ==> data data/diamond-aligner-2.0.5/src/basic/config.cpp:307: DAA ==> DATA data/diamond-aligner-2.0.5/src/basic/config.cpp:509: daa ==> data data/diamond-aligner-2.0.5/src/basic/config.cpp:513: daa ==> data data/diamond-aligner-2.0.5/src/basic/config.cpp:515: DAA ==> DATA data/diamond-aligner-2.0.5/src/basic/config.cpp:517: daa ==> data data/diamond-aligner-2.0.5/src/basic/config.cpp:522: DAA ==> DATA data/diamond-aligner-2.0.5/src/basic/config.cpp:573: daa ==> data data/diamond-aligner-2.0.5/src/basic/seed.h:94: treshold ==> threshold data/diamond-aligner-2.0.5/src/basic/seed.h:96: treshold ==> threshold data/diamond-aligner-2.0.5/src/lib/Eigen/Core:345: everytime ==> every time data/diamond-aligner-2.0.5/src/lib/Eigen/Geometry:26: orthognal ==> orthogonal data/diamond-aligner-2.0.5/src/lib/Eigen/OrderingMethods:57: leat ==> lead, leak, least, leaf data/diamond-aligner-2.0.5/src/lib/Eigen/src/Cholesky/LDLT.h:250: succesful ==> successful data/diamond-aligner-2.0.5/src/lib/Eigen/src/Cholesky/LLT.h:183: succesful ==> successful data/diamond-aligner-2.0.5/src/lib/Eigen/src/CholmodSupport/CholmodSupport.h:222: succesful ==> successful data/diamond-aligner-2.0.5/src/lib/Eigen/src/CholmodSupport/CholmodSupport.h:365: blocs ==> blocks data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/AssignEvaluator.h:759: Assignement ==> Assignment data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/AssignEvaluator.h:902: instanciation ==> instantiation data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/CoreEvaluators.h:399: erros ==> errors data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/CoreEvaluators.h:1515: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/CoreEvaluators.h:1541: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/DenseBase.h:398: carefull ==> careful, carefully data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/DenseStorage.h:64: alignement ==> alignment data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/GenericPacketMath.h:348: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/GenericPacketMath.h:442: coeficient ==> coefficient data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/MathFunctions.h:687: Implementatin ==> Implementation, implementing data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/NoAlias.h:77: usefull ==> useful data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/NoAlias.h:80: usefull ==> useful data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/PlainObjectBase.h:708: internall ==> internal, internally data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/PlainObjectBase.h:783: implicitely ==> implicitly data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/Product.h:119: Convertion ==> Conversion data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/ProductEvaluators.h:23: deffer ==> differ, defer data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/ProductEvaluators.h:131: excatly ==> exactly data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/Reverse.h:39: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/Solve.h:22: decomposion ==> decomposition data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/Solve.h:184: namepsace ==> namespace data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/StableNorm.h:69: overfl ==> overflow data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/StableNorm.h:207: undeflow ==> underflow data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/Transpositions.h:87: usefull ==> useful data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/TriangularMatrix.h:473: ommitted ==> omitted data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/TriangularMatrix.h:500: ommitted ==> omitted data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/VectorwiseOp.h:516: Substracts ==> Subtracts data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/AVX/Complex.h:124: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/AVX/Complex.h:127: lowd ==> load, low, loud data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/AVX/Complex.h:129: lowd ==> load, low, loud data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/AVX/Complex.h:129: lowd ==> load, low, loud data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/AVX/Complex.h:319: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/AVX/PacketMath.h:328: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/AVX/PacketMath.h:333: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/AVX512/MathFunctions.h:318: diretly ==> directly data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/AVX512/PacketMath.h:638: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/AVX512/PacketMath.h:643: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/AltiVec/Complex.h:137: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/AltiVec/Complex.h:354: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/AltiVec/Complex.h:416: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/AltiVec/PacketMath.h:455: ot ==> to, of, or data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/AltiVec/PacketMath.h:521: ot ==> to, of, or data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/AltiVec/PacketMath.h:540: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/AltiVec/PacketMath.h:544: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/AltiVec/PacketMath.h:981: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/NEON/Complex.h:154: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/NEON/Complex.h:359: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/NEON/Complex.h:410: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/NEON/Complex.h:468: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/NEON/Complex.h:475: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/NEON/MathFunctions.h:49: substract ==> subtract data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/NEON/PacketMath.h:345: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/NEON/PacketMath.h:354: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/NEON/PacketMath.h:692: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/SSE/Complex.h:148: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/SSE/Complex.h:148: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/SSE/Complex.h:336: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/SSE/Complex.h:429: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/SSE/MathFunctions.h:143: substract ==> subtract data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/SSE/MathFunctions.h:211: substract ==> subtract data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/SSE/MathFunctions.h:245: onces ==> ounces, once, ones data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/SSE/PacketMath.h:441: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/SSE/PacketMath.h:443: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/SSE/PacketMath.h:445: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/ZVector/Complex.h:204: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/ZVector/Complex.h:205: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/ZVector/Complex.h:361: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/ZVector/PacketMath.h:688: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/ZVector/PacketMath.h:693: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/ZVector/PacketMath.h:698: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/ZVector/PacketMath.h:701: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/arch/ZVector/PacketMath.h:702: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/products/GeneralBlockPanelKernel.h:1533: wont ==> won't data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/products/GeneralBlockPanelKernel.h:1934: enbale ==> enable data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/products/GeneralMatrixMatrixTriangular_BLAS.h:136: hanlde ==> handle data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/products/GeneralMatrixVector.h:18: onces ==> ounces, once, ones data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/products/GeneralMatrixVector.h:171: skiped ==> skipped, skyped data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/products/GeneralMatrixVector.h:325: onces ==> ounces, once, ones data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/products/GeneralMatrixVector.h:445: skiped ==> skipped, skyped data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/products/GeneralMatrixVector.h:506: proccess ==> process data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/products/GeneralMatrixVector.h:509: overlaping ==> overlapping data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/products/Parallelizer.h:120: explicitely ==> explicitly data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/products/SelfadjointMatrixVector.h:18: onces ==> ounces, once, ones data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/products/TriangularSolverVector.h:61: slighlty ==> slightly data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/products/TriangularSolverVector.h:130: slighlty ==> slightly data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/util/Macros.h:687: deprectated ==> deprecated data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/util/Macros.h:746: settting ==> setting data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/util/Memory.h:161: alignd ==> aligned data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/util/Memory.h:706: controled ==> controlled data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/util/Meta.h:292: assignement ==> assignment data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/util/ReenableStupidWarnings.h:16: reenable ==> re-enable data/diamond-aligner-2.0.5/src/lib/Eigen/src/Core/util/XprHelper.h:441: tempory ==> temporary data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/ComplexEigenSolver.h:217: succesful ==> successful data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/ComplexSchur.h:215: succesful ==> successful data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/EigenSolver.h:280: occured ==> occurred data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/EigenSolver.h:485: lastr ==> last data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/EigenSolver.h:497: lastr ==> last data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/EigenSolver.h:514: lastr ==> last data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:82: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:91: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:106: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:108: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:110: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:115: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:124: Accoring ==> According, occurring data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:129: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:153: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:163: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:165: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:165: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:165: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:184: matC ==> match data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:184: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:185: matC ==> match data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:186: matC ==> match data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:188: matC ==> match data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:197: matC ==> match data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:197: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:198: matC ==> match data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:198: matC ==> match data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:199: matC ==> match data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:199: matC ==> match data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:201: matC ==> match data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:210: matC ==> match data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:210: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:211: matC ==> match data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:211: matC ==> match data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:212: matC ==> match data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:212: matC ==> match data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h:214: matC ==> match data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/HessenbergDecomposition.h:272: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/HessenbergDecomposition.h:282: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/HessenbergDecomposition.h:284: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/HessenbergDecomposition.h:287: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/HessenbergDecomposition.h:294: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/HessenbergDecomposition.h:296: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/HessenbergDecomposition.h:296: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/HessenbergDecomposition.h:297: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/HessenbergDecomposition.h:305: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/HessenbergDecomposition.h:306: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/HessenbergDecomposition.h:313: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/HessenbergDecomposition.h:314: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/HessenbergDecomposition.h:317: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/HessenbergDecomposition.h:318: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/RealQZ.h:164: succesful ==> successful data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/RealSchur.h:193: succesful ==> successful data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h:340: succesful ==> successful data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/Tridiagonalization.h:28: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/Tridiagonalization.h:324: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/Tridiagonalization.h:326: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/Tridiagonalization.h:332: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/Tridiagonalization.h:340: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/Tridiagonalization.h:340: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/Tridiagonalization.h:347: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/Tridiagonalization.h:352: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/Tridiagonalization.h:353: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/Tridiagonalization.h:361: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/Tridiagonalization.h:364: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/Tridiagonalization.h:365: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/Tridiagonalization.h:367: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/Tridiagonalization.h:368: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/Tridiagonalization.h:370: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/Tridiagonalization.h:370: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/Tridiagonalization.h:372: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/Tridiagonalization.h:373: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Eigenvalues/Tridiagonalization.h:375: matA ==> meta, mater data/diamond-aligner-2.0.5/src/lib/Eigen/src/Geometry/Hyperplane.h:122: consitent ==> consistent data/diamond-aligner-2.0.5/src/lib/Eigen/src/Geometry/Rotation2D.h:64: wihtout ==> without data/diamond-aligner-2.0.5/src/lib/Eigen/src/Geometry/Scaling.h:113: defiend ==> defined data/diamond-aligner-2.0.5/src/lib/Eigen/src/Geometry/Transform.h:118: sightly ==> slightly data/diamond-aligner-2.0.5/src/lib/Eigen/src/Geometry/Translation.h:73: Retruns ==> Returns data/diamond-aligner-2.0.5/src/lib/Eigen/src/Geometry/Translation.h:75: Retruns ==> Returns data/diamond-aligner-2.0.5/src/lib/Eigen/src/Geometry/Translation.h:77: Retruns ==> Returns data/diamond-aligner-2.0.5/src/lib/Eigen/src/Geometry/Translation.h:80: Retruns ==> Returns data/diamond-aligner-2.0.5/src/lib/Eigen/src/Geometry/Translation.h:82: Retruns ==> Returns data/diamond-aligner-2.0.5/src/lib/Eigen/src/Geometry/Translation.h:84: Retruns ==> Returns data/diamond-aligner-2.0.5/src/lib/Eigen/src/Geometry/arch/Geometry_SSE.h:117: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Geometry/arch/Geometry_SSE.h:119: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Geometry/arch/Geometry_SSE.h:131: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Geometry/arch/Geometry_SSE.h:131: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Geometry/arch/Geometry_SSE.h:133: preverse ==> perverse data/diamond-aligner-2.0.5/src/lib/Eigen/src/Householder/BlockHouseholder.h:34: trough ==> through data/diamond-aligner-2.0.5/src/lib/Eigen/src/IterativeLinearSolvers/IncompleteLUT.h:139: succesful ==> successful data/diamond-aligner-2.0.5/src/lib/Eigen/src/IterativeLinearSolvers/IncompleteLUT.h:233: prefered ==> preferred data/diamond-aligner-2.0.5/src/lib/Eigen/src/IterativeLinearSolvers/IterativeSolverBase.h:278: setted ==> set data/diamond-aligner-2.0.5/src/lib/Eigen/src/IterativeLinearSolvers/SolveWithGuess.h:22: decomposion ==> decomposition data/diamond-aligner-2.0.5/src/lib/Eigen/src/IterativeLinearSolvers/SolveWithGuess.h:111: namepsace ==> namespace data/diamond-aligner-2.0.5/src/lib/Eigen/src/Jacobi/Jacobi.h:260: cordinates ==> coordinates data/diamond-aligner-2.0.5/src/lib/Eigen/src/LU/FullPivLU.h:51: exemple ==> example data/diamond-aligner-2.0.5/src/lib/Eigen/src/LU/PartialPivLU.h:423: instanciations ==> instantiations data/diamond-aligner-2.0.5/src/lib/Eigen/src/LU/PartialPivLU.h:424: instanciations ==> instantiations data/diamond-aligner-2.0.5/src/lib/Eigen/src/LU/arch/Inverse_SSE.h:20: Permition ==> Permission data/diamond-aligner-2.0.5/src/lib/Eigen/src/OrderingMethods/Eigen_Colamd.h:1496: guarranteed ==> guaranteed data/diamond-aligner-2.0.5/src/lib/Eigen/src/OrderingMethods/Eigen_Colamd.h:1641: nessasary ==> necessary data/diamond-aligner-2.0.5/src/lib/Eigen/src/OrderingMethods/Eigen_Colamd.h:1691: avaliable ==> available data/diamond-aligner-2.0.5/src/lib/Eigen/src/PaStiXSupport/PaStiXSupport.h:206: succesful ==> successful data/diamond-aligner-2.0.5/src/lib/Eigen/src/PardisoSupport/PardisoSupport.h:143: succesful ==> successful data/diamond-aligner-2.0.5/src/lib/Eigen/src/QR/ColPivHouseholderQR.h:405: succesful ==> successful data/diamond-aligner-2.0.5/src/lib/Eigen/src/QR/CompleteOrthogonalDecomposition.h:356: succesful ==> successful data/diamond-aligner-2.0.5/src/lib/Eigen/src/SPQRSupport/SuiteSparseQRSupport.h:223: succesful ==> successful data/diamond-aligner-2.0.5/src/lib/Eigen/src/SVD/BDCSVD.h:60: perfroms ==> performs data/diamond-aligner-2.0.5/src/lib/Eigen/src/SVD/UpperBidiagonalization.h:205: begining ==> beginning data/diamond-aligner-2.0.5/src/lib/Eigen/src/SVD/UpperBidiagonalization.h:234: begining ==> beginning data/diamond-aligner-2.0.5/src/lib/Eigen/src/SparseCholesky/SimplicialCholesky.h:104: succesful ==> successful data/diamond-aligner-2.0.5/src/lib/Eigen/src/SparseCholesky/SimplicialCholesky_impl.h:8: thes ==> this, these data/diamond-aligner-2.0.5/src/lib/Eigen/src/SparseCholesky/SimplicialCholesky_impl.h:8: vave ==> have, valve data/diamond-aligner-2.0.5/src/lib/Eigen/src/SparseCore/SparseMatrix.h:24: inbetween ==> between, in between data/diamond-aligner-2.0.5/src/lib/Eigen/src/SparseCore/SparseMatrix.h:506: tolerence ==> tolerance data/diamond-aligner-2.0.5/src/lib/Eigen/src/SparseCore/SparseMatrix.h:989: explicitely ==> explicitly data/diamond-aligner-2.0.5/src/lib/Eigen/src/SparseCore/SparseProduct.h:20: supress ==> suppress data/diamond-aligner-2.0.5/src/lib/Eigen/src/SparseCore/SparseVector.h:284: swaping ==> swapping data/diamond-aligner-2.0.5/src/lib/Eigen/src/SparseLU/SparseLU.h:29: arithmetics ==> arithmetic data/diamond-aligner-2.0.5/src/lib/Eigen/src/SparseLU/SparseLU.h:196: succesful ==> successful data/diamond-aligner-2.0.5/src/lib/Eigen/src/SparseLU/SparseLU_Memory.h:54: accomodate ==> accommodate data/diamond-aligner-2.0.5/src/lib/Eigen/src/SparseLU/SparseLU_column_dfs.h:154: intialize ==> initialize data/diamond-aligner-2.0.5/src/lib/Eigen/src/SparseLU/SparseLU_column_dfs.h:169: Intialize ==> Initialize data/diamond-aligner-2.0.5/src/lib/Eigen/src/SparseLU/SparseLU_gemm_kernel.h:218: agressive ==> aggressive data/diamond-aligner-2.0.5/src/lib/Eigen/src/SuperLUSupport/SuperLUSupport.h:355: succesful ==> successful data/diamond-aligner-2.0.5/src/lib/Eigen/src/UmfPackSupport/UmfPackSupport.h:204: succesful ==> successful data/diamond-aligner-2.0.5/src/lib/Eigen/src/plugins/ArrayCwiseBinaryOps.h:90: rasied ==> raised data/diamond-aligner-2.0.5/src/lib/Eigen/src/plugins/CommonCwiseBinaryOps.h:15: substract ==> subtract data/diamond-aligner-2.0.5/src/lib/alp/njn_approx.hpp:12: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/njn_doubletype.hpp:12: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/njn_dynprogprob.cpp:9: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/njn_dynprogprob.hpp:12: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/njn_dynprogproblim.cpp:9: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/njn_dynprogproblim.hpp:12: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/njn_dynprogprobproto.cpp:9: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/njn_dynprogprobproto.hpp:12: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/njn_function.hpp:12: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/njn_integer.hpp:12: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/njn_ioutil.cpp:9: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/njn_ioutil.hpp:12: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/njn_localmaxstat.cpp:9: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/njn_localmaxstat.hpp:12: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/njn_localmaxstatmatrix.cpp:9: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/njn_localmaxstatmatrix.hpp:12: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/njn_localmaxstatutil.cpp:9: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/njn_localmaxstatutil.hpp:12: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/njn_matrix.hpp:12: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/njn_memutil.hpp:12: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/njn_random.cpp:9: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/njn_random.hpp:12: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/njn_root.hpp:12: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/njn_uniform.hpp:12: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/njn_vector.hpp:12: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/sls_alignment_evaluer.cpp:9: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/sls_alignment_evaluer.hpp:12: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/sls_alp.cpp:9: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/sls_alp.cpp:934: weigths ==> weights data/diamond-aligner-2.0.5/src/lib/alp/sls_alp.cpp:2191: weigths ==> weights data/diamond-aligner-2.0.5/src/lib/alp/sls_alp.cpp:2338: upto ==> up to data/diamond-aligner-2.0.5/src/lib/alp/sls_alp.cpp:2352: upto ==> up to data/diamond-aligner-2.0.5/src/lib/alp/sls_alp.hpp:12: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/sls_alp.hpp:114: weigths ==> weights data/diamond-aligner-2.0.5/src/lib/alp/sls_alp.hpp:142: upto ==> up to data/diamond-aligner-2.0.5/src/lib/alp/sls_alp.hpp:145: upto ==> up to data/diamond-aligner-2.0.5/src/lib/alp/sls_alp.hpp:168: weigths ==> weights data/diamond-aligner-2.0.5/src/lib/alp/sls_alp_data.cpp:9: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/sls_alp_data.cpp:1076: ot ==> to, of, or data/diamond-aligner-2.0.5/src/lib/alp/sls_alp_data.cpp:1112: ot ==> to, of, or data/diamond-aligner-2.0.5/src/lib/alp/sls_alp_data.hpp:12: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/sls_alp_data.hpp:84: calclation ==> calculation data/diamond-aligner-2.0.5/src/lib/alp/sls_alp_data.hpp:401: ot ==> to, of, or data/diamond-aligner-2.0.5/src/lib/alp/sls_alp_data.hpp:404: ot ==> to, of, or data/diamond-aligner-2.0.5/src/lib/alp/sls_alp_regression.cpp:9: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/sls_alp_regression.hpp:12: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/sls_alp_sim.cpp:9: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/sls_alp_sim.hpp:12: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/sls_basic.cpp:9: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/sls_basic.hpp:12: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/sls_normal_distr_array.hpp:12: offical ==> official data/diamond-aligner-2.0.5/src/lib/alp/sls_pvalues.cpp:9: offical ==> official data/diamond-aligner-2.0.5/src/output/daa_file.h:111: DAA ==> DATA data/diamond-aligner-2.0.5/src/output/daa_file.h:113: DAA ==> DATA data/diamond-aligner-2.0.5/src/output/daa_file.h:117: DAA ==> DATA data/diamond-aligner-2.0.5/src/output/join_blocks.cpp:227: daa ==> data data/diamond-aligner-2.0.5/src/output/join_blocks.cpp:275: daa ==> data data/diamond-aligner-2.0.5/src/output/join_blocks.cpp:284: daa ==> data data/diamond-aligner-2.0.5/src/output/join_blocks.cpp:293: daa ==> data data/diamond-aligner-2.0.5/src/output/join_blocks.cpp:336: daa ==> data data/diamond-aligner-2.0.5/src/output/output_format.cpp:82: daa ==> data data/diamond-aligner-2.0.5/src/output/output_format.cpp:97: daa ==> data data/diamond-aligner-2.0.5/src/output/output_format.cpp:104: DAA ==> DATA data/diamond-aligner-2.0.5/src/output/output_format.cpp:111: daa ==> data data/diamond-aligner-2.0.5/src/output/output_format.cpp:112: DAA ==> DATA data/diamond-aligner-2.0.5/src/output/output_format.h:67: daa ==> data data/diamond-aligner-2.0.5/src/output/output_format.h:86: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:56: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:57: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:57: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:63: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:75: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:82: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:94: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:99: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:106: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:111: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:115: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:130: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:131: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:131: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:131: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:131: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:131: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:135: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:136: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:137: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:138: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:140: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:140: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:148: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:153: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:154: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:158: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:158: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:158: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:158: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:158: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:164: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:170: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:170: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:170: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:170: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:170: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:174: daa ==> data data/diamond-aligner-2.0.5/src/output/view.cpp:175: daa ==> data data/diamond-aligner-2.0.5/src/run/double_indexed.cpp:331: daa ==> data data/diamond-aligner-2.0.5/src/run/double_indexed.cpp:337: daa ==> data data/diamond-aligner-2.0.5/src/run/double_indexed.cpp:339: daa ==> data data/diamond-aligner-2.0.5/src/run/double_indexed.cpp:372: daa ==> data data/diamond-aligner-2.0.5/src/run/double_indexed.cpp:444: daa ==> data data/diamond-aligner-2.0.5/src/run/double_indexed.cpp:476: daa ==> data data/diamond-aligner-2.0.5/src/run/double_indexed.cpp:502: daa ==> data data/diamond-aligner-2.0.5/src/test/data.cpp:81: ake ==> ache data/diamond-aligner-2.0.5/src/tools/roc.cpp:250: hist ==> heist, his data/diamond-aligner-2.0.5/src/tools/roc.cpp:254: hist ==> heist, his data/diamond-aligner-2.0.5/src/tools/roc.cpp:264: hist ==> heist, his data/diamond-aligner-2.0.5/src/tools/roc.cpp:280: hist ==> heist, his data/diamond-aligner-2.0.5/src/tools/roc.cpp:302: hist ==> heist, his data/diamond-aligner-2.0.5/src/tools/roc.cpp:317: hist ==> heist, his data/diamond-aligner-2.0.5/src/tools/roc.cpp:324: hist ==> heist, his data/diamond-aligner-2.0.5/src/tools/roc.cpp:330: hist ==> heist, his data/diamond-aligner-2.0.5/src/tools/roc.cpp:335: hist ==> heist, his data/diamond-aligner-2.0.5/src/util/memory/alignment.h:71: adress ==> address data/diamond-aligner-2.0.5/src/util/memory/alignment.h:75: adress ==> address data/diamond-aligner-2.0.5/debian/diamond.1:25: DAA ==> DATA data/diamond-aligner-2.0.5/debian/diamond.1:56: DAA ==> DATA data/diamond-aligner-2.0.5/debian/diamond.1:271: DAA ==> DATA data/diamond-aligner-2.0.5/debian/diamond.1:278: DAA ==> DATA