Functions — github.com/ablab/spades

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Functions40,422 in github.com/ablab/spades

⨍ Functions 40,422◇ Types & classes 24,500↳ Endpoints 21

Rows function !\brief Returns the current number of rows of the matrix. // // \return The number of rows of the matrix. */

ext/include/blaze/blaze/math/expressions/DMatDeclUniLowExpr.h:270

↓ 44 callersMethodrows

Rows function !\brief Returns the current number of rows of the matrix. // // \return The number of rows of the matrix. */

ext/include/blaze/blaze/math/expressions/DMatDeclUppExpr.h:269

↓ 44 callersMethodrows

Rows function !\brief Returns the current number of rows of the matrix. // // \return The number of rows of the matrix. */

ext/include/blaze/blaze/math/expressions/DMatDeclHermExpr.h:269

↓ 44 callersFunctionswap

ext/include/parallel_hashmap/btree.h:3871

↓ 43 callersFunctionbgzf_write

ext/src/samtools/bgzf.c:552

↓ 43 callersMethodcanonical_edges

src/common/assembly_graph/core/graph_core.hpp:420

↓ 43 callersMethodcheck_token

(self, *choices)

ext/src/python_libs/pyyaml3/scanner.py:113

↓ 43 callersMethodcolumns

Columns function !\brief Returns the current number of columns of the matrix. // // \return The number of columns of the matrix. */

ext/include/blaze/blaze/math/expressions/DMatDeclLowExpr.h:279

↓ 43 callersMethodcolumns

Columns function !\brief Returns the current number of columns of the matrix. // // \return The number of columns of the matrix. */

ext/include/blaze/blaze/math/expressions/DMatDeclSymExpr.h:279

↓ 43 callersMethodcolumns

Columns function !\brief Returns the current number of columns of the matrix. // // \return The number of columns of the matrix. */

ext/include/blaze/blaze/math/expressions/DMatDeclUniUppExpr.h:281

↓ 43 callersMethodcolumns

Columns function !\brief Returns the current number of columns of the matrix. // // \return The number of columns of the matrix. */

ext/include/blaze/blaze/math/expressions/DMatDeclUniLowExpr.h:280

↓ 43 callersMethodcolumns

Columns function !\brief Returns the current number of columns of the matrix. // // \return The number of columns of the matrix. */

ext/include/blaze/blaze/math/expressions/SMatDeclStrUppExpr.h:242

↓ 43 callersMethodcolumns

Columns function !\brief Returns the current number of columns of the matrix. // // \return The number of columns of the matrix. */

ext/include/blaze/blaze/math/expressions/SMatDeclStrLowExpr.h:242

↓ 43 callersMethodcolumns

Columns function !\brief Returns the current number of columns of the matrix. // // \return The number of columns of the matrix. */

ext/include/blaze/blaze/math/expressions/DMatDeclDiagExpr.h:280

↓ 43 callersMethodcolumns

Columns function !\brief Returns the current number of columns of the matrix. // // \return The number of columns of the matrix. */

ext/include/blaze/blaze/math/expressions/DMatDeclUppExpr.h:279

↓ 43 callersMethodcolumns

Columns function !\brief Returns the current number of columns of the matrix. // // \return The number of columns of the matrix. */

ext/include/blaze/blaze/math/expressions/DMatDeclHermExpr.h:279

↓ 43 callersFunctionesl_randomness_GetSeed

Function: esl_randomness_GetSeed() * Synopsis: Returns the value of RNG's seed. * * Purpose: Return the value of the seed. */

ext/src/easel/esl_random.c:237

↓ 43 callersFunctionesl_stack_Destroy

Function: esl_stack_Destroy() * Synopsis: Free a stack. * Incept: SRE, Sun Dec 26 09:16:24 2004 [Zaragoza] * * Purpose: Destroys a created

ext/src/easel/esl_stack.c:169

↓ 43 callersFunctionesl_stack_IPush

Function: esl_stack_IPush() * Synopsis: Push an integer onto a stack. * Incept: SRE, Sun Dec 26 09:17:17 2004 [Zaragoza] * * Purpose: Push

ext/src/easel/esl_stack.c:204

↓ 43 callersMethodfirst

src/common/sequence/seq.hpp:461

↓ 43 callersFunctioninf

generic inflate() run, where hex is the hexadecimal input data, what is the text to include in an error message, step is how much input data to fee

ext/src/zlib-ng/test/infcover.c:280

↓ 43 callersFunctionmpi_failure

mpi_failure() * Generate an error message. If the clients rank is not 0, a * message is created with the error message and sent to the * master pr

ext/src/hmmer/src/hmmsearch.c:654

↓ 43 callersFunctionmpi_failure

mpi_failure() * Generate an error message. If the clients rank is not 0, a * message is created with the error message and sent to the * master pr

ext/src/hmmer/src/phmmer.c:713

↓ 43 callersFunctionp7_oprofile_ReconfigLength

Function: p7_oprofile_ReconfigLength() * Synopsis: Set the target sequence length of a model. * Incept: SRE, Thu Dec 20 09:56:40 2007 [Janelia]

ext/src/hmmer/src/impl_vmx/p7_oprofile.c:991

↓ 43 callersMethodpush

ext/src/lexy/include/lexy/dsl/context_counter.hpp:228

↓ 43 callersMethodrows

Rows function !\brief Returns the current number of rows of the matrix. // // \return The number of rows of the matrix. */

ext/include/blaze/blaze/math/expressions/SMatDeclSymExpr.h:231

↓ 43 callersMethodrows

Rows function !\brief Returns the current number of rows of the matrix. // // \return The number of rows of the matrix. */

ext/include/blaze/blaze/math/expressions/SMatDeclUniLowExpr.h:233

↓ 43 callersMethodrows

Rows function !\brief Returns the current number of rows of the matrix. // // \return The number of rows of the matrix. */

ext/include/blaze/blaze/math/expressions/SMatDeclLowExpr.h:231

↓ 43 callersMethodrows

Rows function !\brief Returns the current number of rows of the matrix. // // \return The number of rows of the matrix. */

ext/include/blaze/blaze/math/expressions/SMatDeclStrUppExpr.h:232

↓ 43 callersMethodrows

Rows function !\brief Returns the current number of rows of the matrix. // // \return The number of rows of the matrix. */

ext/include/blaze/blaze/math/expressions/SMatDeclStrLowExpr.h:232

↓ 43 callersMethodrows

Rows function !\brief Returns the current number of rows of the matrix. // // \return The number of rows of the matrix. */

ext/include/blaze/blaze/math/expressions/DMatDeclDiagExpr.h:270

↓ 43 callersMethodrows

Rows function !\brief Returns the current number of rows of the matrix. // // \return The number of rows of the matrix. */

ext/include/blaze/blaze/math/expressions/DMatDMatSchurExpr.h:547

↓ 43 callersMethodrows

Rows function !\brief Returns the current number of rows of the matrix. // // \return The number of rows of the matrix. */

ext/include/blaze/blaze/math/expressions/SMatDeclUniUppExpr.h:231

↓ 43 callersMethodrows

Rows function !\brief Returns the current number of rows of the matrix. // // \return The number of rows of the matrix. */

ext/include/blaze/blaze/math/expressions/SMatDeclHermExpr.h:231

↓ 43 callersMethodrows

Rows function !\brief Returns the current number of rows of the matrix. // // \return The number of rows of the matrix. */

ext/include/blaze/blaze/math/expressions/SMatDeclUppExpr.h:231

↓ 43 callersMethodsize

ext/src/googletest/googlemock/include/gmock/gmock-spec-builders.h:603

↓ 42 callersMethodbegin

src/common/modules/simplification/mf_ec_remover.hpp:144

↓ 42 callersMethodbegin

Type tag

ext/include/blaze/blaze/math/sparse/ZeroVector.h:469

↓ 42 callersMethodcend

src/projects/pathracer/superpath_index.hpp:63

↓ 42 callersMethodclose

src/projects/mts/annotation.hpp:36

↓ 42 callersMethodcolumns

Columns function !\brief Returns the current number of columns of the matrix. // // \return The number of columns of the matrix. */

ext/include/blaze/blaze/math/expressions/SMatDeclSymExpr.h:241

↓ 42 callersMethodcolumns

Columns function !\brief Returns the current number of columns of the matrix. // // \return The number of columns of the matrix. */

ext/include/blaze/blaze/math/expressions/SMatDeclUniLowExpr.h:243

↓ 42 callersMethodcolumns

Columns function !\brief Returns the current number of columns of the matrix. // // \return The number of columns of the matrix. */

ext/include/blaze/blaze/math/expressions/SMatDeclDiagExpr.h:242

↓ 42 callersMethodcolumns

Columns function !\brief Returns the current number of columns of the matrix. // // \return The number of columns of the matrix. */

ext/include/blaze/blaze/math/expressions/SMatEvalExpr.h:163

↓ 42 callersMethodcolumns

Columns function !\brief Returns the current number of columns of the matrix. // // \return The number of columns of the matrix. */

ext/include/blaze/blaze/math/expressions/DMatEvalExpr.h:167

↓ 42 callersMethodcolumns

Columns function !\brief Returns the current number of columns of the matrix. // // \return The number of columns of the matrix. */

ext/include/blaze/blaze/math/expressions/SMatDeclLowExpr.h:241

↓ 42 callersMethodcolumns

Columns function !\brief Returns the current number of columns of the matrix. // // \return The number of columns of the matrix. */

ext/include/blaze/blaze/math/expressions/DMatSerialExpr.h:167

↓ 42 callersMethodcolumns

Columns function !\brief Returns the current number of columns of the matrix. // // \return The number of columns of the matrix. */

ext/include/blaze/blaze/math/expressions/SMatSerialExpr.h:163

↓ 42 callersMethodcolumns

Columns function !\brief Returns the current number of columns of the matrix. // // \return The number of columns of the matrix. */

ext/include/blaze/blaze/math/expressions/DMatDMatSchurExpr.h:557

↓ 42 callersMethodcolumns

Columns function !\brief Returns the current number of columns of the matrix. // // \return The number of columns of the matrix. */

ext/include/blaze/blaze/math/expressions/SMatDeclUniUppExpr.h:241

↓ 42 callersMethodcolumns

Columns function !\brief Returns the current number of columns of the matrix. // // \return The number of columns of the matrix. */

ext/include/blaze/blaze/math/expressions/SMatDeclHermExpr.h:241

↓ 42 callersMethodcolumns

Columns function !\brief Returns the current number of columns of the matrix. // // \return The number of columns of the matrix. */

ext/include/blaze/blaze/math/expressions/SMatDeclUppExpr.h:241

↓ 42 callersMethoddata

src/projects/hpcspades/mpi/pipeline/partask_mpi.hpp:527

↓ 42 callersFunctionesl_DCompare_old

Function: esl_{DF}Compare_old() * OBSOLETE. Use esl_{DF}Compare() instead. * * Purpose: Compare two floating point scalars <a> and <b> for appro

ext/src/easel/easel.c:2387

↓ 42 callersFunctionesl_vec_FNorm

ext/src/easel/esl_vectorops.c:1151

↓ 42 callersMethodfinalize

Finalize function !\brief Finalizing the element insertion of a row/column. // // \param i The index of the row/column to be finalized \f$[0..M-

ext/include/blaze/blaze/math/expressions/SMatTransposer.h:405

↓ 42 callersFunctionge

src/common/math/xmath.h:323

↓ 42 callersMethodgetPointer

ext/include/llvm/Support/SMLoc.h:34

↓ 42 callersFunctionisfinite

ext/include/boost/core/cmath.hpp:43

↓ 42 callersFunctionksprintf

ext/src/samtools/kstring.c:8

↓ 42 callersMethodload

src/projects/spades/repeat_resolving.cpp:46

↓ 42 callersMethodmap

src/common/io/utils/id_mapper.hpp:19

↓ 42 callersFunctionp7_oprofile_Destroy

Function: p7_oprofile_Destroy() * Synopsis: Frees an optimized profile structure. * Incept: SRE, Sun Nov 25 12:22:21 2007 [Casa de Gatos] */

ext/src/hmmer/src/impl_neon/p7_oprofile.c:171

↓ 42 callersFunctionp7_trace_Append

Function: p7_trace_Append() * Synopsis: Add an element (state/residue) to a growing trace. * * Purpose: Adds an element to a trace <tr> that is

ext/src/hmmer/src/p7_trace.c:1007

↓ 42 callersMethodread

(filepath, sep="\t", headers=False)

src/projects/mts/scripts/common.py:140

↓ 42 callersMethodrows

Rows function !\brief Returns the current number of rows of the matrix. // // \return The number of rows of the matrix. */

ext/include/blaze/blaze/math/expressions/SMatDeclDiagExpr.h:232

↓ 42 callersMethodrows

Rows function !\brief Returns the current number of rows of the matrix. // // \return The number of rows of the matrix. */

ext/include/blaze/blaze/math/expressions/SMatEvalExpr.h:153

↓ 42 callersMethodrows

Rows function !\brief Returns the current number of rows of the matrix. // // \return The number of rows of the matrix. */

ext/include/blaze/blaze/math/expressions/DMatEvalExpr.h:157

↓ 42 callersMethodrows

Rows function !\brief Returns the current number of rows of the matrix. // // \return The number of rows of the matrix. */

ext/include/blaze/blaze/math/expressions/DMatSerialExpr.h:157

↓ 42 callersMethodrows

Rows function !\brief Returns the current number of rows of the matrix. // // \return The number of rows of the matrix. */

ext/include/blaze/blaze/math/expressions/SMatSerialExpr.h:153

↓ 42 callersMethodsecond

src/common/paired_info/paired_info_helpers.hpp:84

↓ 42 callersMethodsize

Size function !\brief Returns the current size/dimension of the vector. // // \return The size of the vector. */

ext/include/blaze/blaze/math/expressions/DVecEvalExpr.h:151

↓ 42 callersMethodsize

Size function !\brief Returns the current size/dimension of the vector. // // \return The size of the vector. */

ext/include/blaze/blaze/math/expressions/DVecSerialExpr.h:151

↓ 41 callersMethodGet

* @brief Returns a whole proxy map to the neighbourhood of some edge. * @param e ID of starting edge */

src/common/paired_info/paired_info.hpp:478

↓ 41 callersFunctionInitGoogleTest

Initializes Google Test. This must be called before calling RUN_ALL_TESTS(). In particular, it parses a command line for the flags that Google Test

ext/src/googletest/googletest/src/gtest.cc:6971

↓ 41 callersMethodbegin

src/projects/spades/series_analysis.cpp:114

↓ 41 callersMethodbegin

Compile time row arguments

ext/include/blaze/blaze/math/views/row/Dense.h:595

↓ 41 callersMethodclear

src/common/adt/hll.hpp:70

↓ 41 callersMethodcount

src/common/adt/pack.hpp:104

↓ 41 callersFunctionepsilon

ext/include/boost/math/tools/precision.hpp:141

↓ 41 callersFunctionesl_abc_DecodeType

Function: esl_abc_DecodeType() * Synopsis: Returns descriptive string for alphabet type code. * * Purpose: For diagnostics and other output: gi

ext/src/easel/esl_alphabet.c:1703

↓ 41 callersFunctionesl_buffer_GetLine

Function: esl_buffer_GetLine() * Synopsis: Get ptr to next line in buffer. * * Purpose: Get a pointer <*opt_p> to the next line in buffer <bf>,

ext/src/easel/esl_buffer.c:987

↓ 41 callersFunctionesl_buffer_RaiseAnchor

Function: esl_buffer_RaiseAnchor() * Synopsis: Raise an anchor. * * Purpose: Declare that an anchor previously set at <offset> * in

ext/src/easel/esl_buffer.c:811

↓ 41 callersFunctionesl_vec_DSet

Function: esl_vec_{DFIL}Set() * Synopsis: Set all items in vector to scalar value. * * Purpose: Sets all <n> items in <vec> to <val

ext/src/easel/esl_vectorops.c:30

↓ 41 callersFunctionforward_as_tuple

ext/src/lexy/include/lexy/_detail/tuple.hpp:112

↓ 41 callersMethodlength

ext/src/lexy/include/lexy/error.hpp:122

↓ 41 callersFunctionlgamma

ext/include/blaze/blaze/math/proxy/Proxy.h:1680

↓ 41 callersFunctionlog

()

src/tools/webvis/index.py:80

↓ 41 callersFunctionnext

ext/include/boost/next_prior.hpp:135

↓ 41 callersFunctionp7_oprofile_Destroy

Function: p7_oprofile_Destroy() * Synopsis: Frees an optimized profile structure. * Incept: SRE, Sun Nov 25 12:22:21 2007 [Casa de Gatos] */

ext/src/hmmer/src/impl_sse/p7_oprofile.c:174

↓ 41 callersFunctionregc

- regc - emit (if appropriate) a byte of code */

ext/src/easel/esl_regexp.c:1063

↓ 41 callersMethodsize

Size function !\brief Returns the current size/dimension of the vector. // // \return The size of the vector. */

ext/include/blaze/blaze/math/expressions/TSVecSMatMultExpr.h:234

↓ 41 callersMethodsize

Size function !\brief Returns the current size/dimension of the vector. // // \return The size of the vector. */

ext/include/blaze/blaze/math/expressions/TSMatSVecMultExpr.h:236

↓ 41 callersMethodstream

Returns the underlying ostream.

ext/src/googletest/googletest/include/gtest/gtest-matchers.h:95

↓ 41 callersFunctiont

(t,s)

src/tools/webvis/static/jquery-ui.min.js:6

↓ 41 callersMethodwrite

src/common/io/reads/read_stream.hpp:28

↓ 40 callersFunctionAssert

(condition)

ext/src/googletest/googletest/test/gtest_testbridge_test.py:41

↓ 40 callersMethodCall

Implementation detail: the expansion of the MOCK_METHOD macro.

ext/src/googletest/googlemock/include/gmock/gmock-spec-builders.h:1918

↓ 40 callersMethodGetId

src/common/assembly_graph/core/order_and_law.hpp:57

↓ 40 callersMethodappend

Compile time row arguments

ext/include/blaze/blaze/math/views/row/Sparse.h:1469

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