Utilities to develop and debug unit tests for BLAST. More...
#include <ncbi_pch.hpp>#include "blast_test_util.hpp"#include <corelib/ncbimisc.hpp>#include <corelib/ncbitype.h>#include <util/random_gen.hpp>#include <algo/blast/api/blast_aux.hpp>#include "blast_objmgr_priv.hpp"#include <serial/serial.hpp>#include <serial/objistr.hpp>#include <objmgr/bioseq_handle.hpp>#include <objmgr/seq_vector.hpp>#include <objtools/data_loaders/genbank/gbloader.hpp>#include <objects/seqalign/Seq_align_set.hpp>#include <objtools/align_format/showalign.hpp>#include <sstream>#include <corelib/test_boost.hpp>
Include dependency graph for blast_test_util.cpp:
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Namespaces | |
| TestUtil | |
Functions | |
| objects::CSeq_id * | TestUtil::GenerateRandomSeqid_Gi () |
| vector< EBlastProgramType > | TestUtil::GetAllBlastProgramTypes () |
| CRef< CSeq_align_set > | TestUtil::FlattenSeqAlignSet (const CSeq_align_set &sset) |
| void | TestUtil::PrintSequence (const Uint1 *seq, TSeqPos len, ostream &out, bool show_markers, TSeqPos chars_per_line) |
| void | TestUtil::PrintSequence (const CSeqVector svector, ostream &out, bool show_markers, TSeqPos chars_per_line) |
| char | TestUtil::GetResidue (unsigned int res) |
| Returns character representation of a residue from ncbistdaa. More... | |
| BlastQueryInfo * | TestUtil::CreateProtQueryInfo (unsigned int query_size) |
| Creates and initializes a BlastQueryInfo structure for a single protein sequence. More... | |
| void | TestUtil::CheckForBlastSeqSrcErrors (const BlastSeqSrc *seqsrc) |
| Uint4 | TestUtil::EndianIndependentBufferHash (const char *buffer, Uint4 byte_length, Uint4 swap_size=1, Uint4 hash_seed=1) |
| Endianness independent hash function. More... | |
Detailed Description
Utilities to develop and debug unit tests for BLAST.
Definition in file blast_test_util.cpp.
