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Searched refs:m_HitSaveOpts (Results 1 – 14 of 14) sorted by relevance

/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/api/
H A Dblast_options_local_priv.hpp437 return m_HitSaveOpts; in GetHitSaveOpts()
1262 m_HitSaveOpts->hitlist_size = s; in SetHitlistSize()
1286 m_HitSaveOpts->hsp_num_max = m; in SetMaxNumHspPerSequence()
1325 m_HitSaveOpts->culling_limit = s; in SetCullingLimit()
1437 m_HitSaveOpts->cutoff_score = s; in SetCutoffScore()
1513 m_HitSaveOpts->do_sum_stats = m; in SetSumStatisticsMode()
1551 m_HitSaveOpts->mask_level = s; in SetMaskLevel()
1569 return m_HitSaveOpts->paired; in GetPaired()
1575 m_HitSaveOpts->paired = p; in SetPaired()
1581 return m_HitSaveOpts->splice; in GetSplice()
[all …]
H A Dtraceback_stage.cpp215 int hitlist_size_backup = m_OptsMemento->m_HitSaveOpts->hitlist_size; in Run()
218 SBlastHitsParametersNew(m_OptsMemento->m_HitSaveOpts, in Run()
222 m_OptsMemento->m_HitSaveOpts->hitlist_size = bhp->prelim_hitlist_size; in Run()
239 m_OptsMemento->m_HitSaveOpts, in Run()
262 m_OptsMemento->m_HitSaveOpts->hitlist_size = hitlist_size_backup; in Run()
321 SBlastHitsParametersNew(m_OptsMemento->m_HitSaveOpts, in RunSimple()
325 m_OptsMemento->m_HitSaveOpts->hitlist_size = bhp->prelim_hitlist_size; in RunSimple()
342 m_OptsMemento->m_HitSaveOpts, in RunSimple()
H A Dsetup_factory.cpp304 opts_memento->m_HitSaveOpts->hsp_filt_opt; in CreateHspWriter()
313 BlastHSPMapperParamsNew(opts_memento->m_HitSaveOpts, in CreateHspWriter()
322 BlastHSPBestHitParamsNew(opts_memento->m_HitSaveOpts, in CreateHspWriter()
334 BlastHSPCullingParamsNew(opts_memento->m_HitSaveOpts, in CreateHspWriter()
345 BlastHSPCollectorParamsNew(opts_memento->m_HitSaveOpts, in CreateHspWriter()
354 BlastHSPCollectorParamsNew(opts_memento->m_HitSaveOpts, in CreateHspWriter()
375 opts_memento->m_HitSaveOpts->hsp_filt_opt; in CreateHspPipe()
380 BlastHSPBestHitParamsNew(opts_memento->m_HitSaveOpts, in CreateHspPipe()
389 BlastHSPCullingParamsNew(opts_memento->m_HitSaveOpts, in CreateHspPipe()
H A Dblast_memento_priv.hpp71 m_HitSaveOpts = local_opts->m_HitSaveOpts.Get(); in CBlastOptionsMemento()
95 BlastHitSavingOptions* m_HitSaveOpts; member in CBlastOptionsMemento
H A Dblast_options_local_priv.cpp57 m_HitSaveOpts.Reset((BlastHitSavingOptions*)calloc(1, sizeof(BlastHitSavingOptions))); in BEGIN_SCOPE()
98 x_Copy_CBlastHitSavingOptions(m_HitSaveOpts, in x_DoDeepCopy()
99 optsLocal.m_HitSaveOpts); in x_DoDeepCopy()
382 m_HitSaveOpts, in Validate()
407 m_HitSaveOpts.DebugDump(ddc, depth); in DebugDump()
533 a = static_cast<void*>( (BlastHitSavingOptions*) m_HitSaveOpts); in operator ==()
534 b = static_cast<void*>( (BlastHitSavingOptions*) rhs.m_HitSaveOpts); in operator ==()
H A Dprelim_search_runner.hpp80 m_OptsMemento->m_HitSaveOpts, in operator ()()
H A Dprelim_stage.cpp335 SBlastHitsParametersNew(opts_memento->m_HitSaveOpts, in ComputeBlastHSPResults()
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/algo/blast/api/
H A Dblast_options_local_priv.hpp437 return m_HitSaveOpts; in GetHitSaveOpts()
1262 m_HitSaveOpts->hitlist_size = s; in SetHitlistSize()
1286 m_HitSaveOpts->hsp_num_max = m; in SetMaxNumHspPerSequence()
1325 m_HitSaveOpts->culling_limit = s; in SetCullingLimit()
1437 m_HitSaveOpts->cutoff_score = s; in SetCutoffScore()
1513 m_HitSaveOpts->do_sum_stats = m; in SetSumStatisticsMode()
1551 m_HitSaveOpts->mask_level = s; in SetMaskLevel()
1569 return m_HitSaveOpts->paired; in GetPaired()
1575 m_HitSaveOpts->paired = p; in SetPaired()
1581 return m_HitSaveOpts->splice; in GetSplice()
[all …]
H A Dtraceback_stage.cpp215 int hitlist_size_backup = m_OptsMemento->m_HitSaveOpts->hitlist_size; in Run()
218 SBlastHitsParametersNew(m_OptsMemento->m_HitSaveOpts, in Run()
222 m_OptsMemento->m_HitSaveOpts->hitlist_size = bhp->prelim_hitlist_size; in Run()
239 m_OptsMemento->m_HitSaveOpts, in Run()
262 m_OptsMemento->m_HitSaveOpts->hitlist_size = hitlist_size_backup; in Run()
321 SBlastHitsParametersNew(m_OptsMemento->m_HitSaveOpts, in RunSimple()
325 m_OptsMemento->m_HitSaveOpts->hitlist_size = bhp->prelim_hitlist_size; in RunSimple()
342 m_OptsMemento->m_HitSaveOpts, in RunSimple()
H A Dsetup_factory.cpp304 opts_memento->m_HitSaveOpts->hsp_filt_opt; in CreateHspWriter()
313 BlastHSPMapperParamsNew(opts_memento->m_HitSaveOpts, in CreateHspWriter()
322 BlastHSPBestHitParamsNew(opts_memento->m_HitSaveOpts, in CreateHspWriter()
334 BlastHSPCullingParamsNew(opts_memento->m_HitSaveOpts, in CreateHspWriter()
345 BlastHSPCollectorParamsNew(opts_memento->m_HitSaveOpts, in CreateHspWriter()
354 BlastHSPCollectorParamsNew(opts_memento->m_HitSaveOpts, in CreateHspWriter()
375 opts_memento->m_HitSaveOpts->hsp_filt_opt; in CreateHspPipe()
380 BlastHSPBestHitParamsNew(opts_memento->m_HitSaveOpts, in CreateHspPipe()
389 BlastHSPCullingParamsNew(opts_memento->m_HitSaveOpts, in CreateHspPipe()
H A Dblast_memento_priv.hpp71 m_HitSaveOpts = local_opts->m_HitSaveOpts.Get(); in CBlastOptionsMemento()
95 BlastHitSavingOptions* m_HitSaveOpts; member in CBlastOptionsMemento
H A Dblast_options_local_priv.cpp57 m_HitSaveOpts.Reset((BlastHitSavingOptions*)calloc(1, sizeof(BlastHitSavingOptions))); in BEGIN_SCOPE()
98 x_Copy_CBlastHitSavingOptions(m_HitSaveOpts, in x_DoDeepCopy()
99 optsLocal.m_HitSaveOpts); in x_DoDeepCopy()
382 m_HitSaveOpts, in Validate()
407 m_HitSaveOpts.DebugDump(ddc, depth); in DebugDump()
533 a = static_cast<void*>( (BlastHitSavingOptions*) m_HitSaveOpts); in operator ==()
534 b = static_cast<void*>( (BlastHitSavingOptions*) rhs.m_HitSaveOpts); in operator ==()
H A Dprelim_search_runner.hpp80 m_OptsMemento->m_HitSaveOpts, in operator ()()
H A Dprelim_stage.cpp335 SBlastHitsParametersNew(opts_memento->m_HitSaveOpts, in ComputeBlastHSPResults()