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NCBI C++ ToolKit: src/algo/blast/unit_tests/api/mockseqsrc1_unit_test.cpp Source File

blast;

BOOST_REQUIRE(m_SeqSrc !=

);

BOOST_REQUIRE(rv ==

);

BOOST_REQUIRE(rv ==

);

*

= (

*) &m_SeqSrc;

BOOST_REQUIRE(rv ==

);

BOOST_REQUIRE(itr !=

);

BOOST_REQUIRE(itr ==

);

memset((

*) &seq_arg, 0,

(seq_arg));

BOOST_REQUIRE(

== 0);

BOOST_REQUIRE(seqsrc.

() !=

);

BOOST_REQUIRE(error_str !=

);

Contains C++ wrapper classes to structures in algo/blast/core as well as some auxiliary functions to ...

#define sfree(x)

Safe free a pointer: belongs to a higher level header.

#define BLAST_SEQSRC_ERROR

Error while retrieving sequence.

Int4 BlastSeqSrcIteratorNext(const BlastSeqSrc *seq_src, BlastSeqSrcIterator *itr)

Increments the BlastSeqSrcIterator.

BlastSeqSrcIterator * BlastSeqSrcIteratorFree(BlastSeqSrcIterator *itr)

Frees the BlastSeqSrcIterator structure.

Int4 BlastSeqSrcGetSeqLen(const BlastSeqSrc *seq_src, void *oid)

Retrieve sequence length (number of residues/bases)

Boolean BlastSeqSrcGetIsProt(const BlastSeqSrc *seq_src)

Find if the Blast Sequence Source contains protein or nucleotide sequences.

BlastSeqSrcIterator * BlastSeqSrcIteratorNew(void)

Allocate and initialize an iterator over a BlastSeqSrc with a default chunk size for MT-safe iteratio...

Int4 BlastSeqSrcGetAvgSeqLen(const BlastSeqSrc *seq_src)

Get the average length of all sequences in the sequence source.

char * BlastSeqSrcGetInitError(const BlastSeqSrc *seq_src)

Function to retrieve NULL terminated string containing the description of an initialization error or ...

Int4 BlastSeqSrcGetNumSeqs(const BlastSeqSrc *seq_src)

Get the number of sequences contained in the sequence source.

Int8 BlastSeqSrcGetTotLen(const BlastSeqSrc *seq_src)

Get the total length of all sequences in the sequence source.

BlastSeqSrc * BlastSeqSrcFree(BlastSeqSrc *seq_src)

Frees the BlastSeqSrc structure by invoking the destructor function set by the user-defined construct...

Int4 BlastSeqSrcGetMaxSeqLen(const BlastSeqSrc *seq_src)

Get the length of the longest sequence in the sequence source.

const char * BlastSeqSrcGetName(const BlastSeqSrc *seq_src)

Get the Blast Sequence source name (e.g.

Int2 BlastSeqSrcGetSequence(const BlastSeqSrc *seq_src, BlastSeqSrcGetSeqArg *getseq_arg)

Retrieve an individual sequence.

#define BLAST_SEQSRC_EOF

No more sequences available.

BOOST_AUTO_TEST_SUITE_END() static int s_GetSegmentFlags(const CBioseq &bioseq)

Wrapper class for BlastSeqSrcIterator .

Wrapper class for BlastSeqSrc .

static const char * str(char *buf, int n)

BlastSeqSrc * Get() const

int64_t Int8

8-byte (64-bit) signed integer

BOOST_AUTO_TEST_CASE(TestCreation)

constexpr bool empty(list< Ts... >) noexcept

Uint1 Boolean

bool replacment for C

#define FALSE

bool replacment for C indicating false.

BlastSeqSrc * MockBlastSeqSrcInit(EMockBlastSeqSrcMode mode)

Mock BlastSeqSrc initialization function.

Mock object which implements the BlastSeqSrc interface for testing purposes.

@ eMBSS_Invalid

Sets a limit on the number of valid mock modes.

@ eMBSS_AlwaysFail

returns failure on all operations

Structure used as the second argument to functions satisfying the GetSeqBlkFnPtr signature,...

Int4 oid

Oid in BLAST database, index in an array of sequences, etc [in].

Complete type definition of Blast Sequence Source Iterator.

Complete type definition of Blast Sequence Source ADT.

Initializes m_SeqSrc with a BlastSeqSrc that always fails.

~FailingMockSeqSrcTestFixture()

FailingMockSeqSrcTestFixture()

Utility stuff for more convenient using of Boost.Test library.

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