/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/api/ |
H A D | blast_options_local_priv.hpp | 437 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 D | traceback_stage.cpp | 215 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 D | setup_factory.cpp | 304 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 D | blast_memento_priv.hpp | 71 m_HitSaveOpts = local_opts->m_HitSaveOpts.Get(); in CBlastOptionsMemento() 95 BlastHitSavingOptions* m_HitSaveOpts; member in CBlastOptionsMemento
|
H A D | blast_options_local_priv.cpp | 57 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 D | prelim_search_runner.hpp | 80 m_OptsMemento->m_HitSaveOpts, in operator ()()
|
H A D | prelim_stage.cpp | 335 SBlastHitsParametersNew(opts_memento->m_HitSaveOpts, in ComputeBlastHSPResults()
|
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/algo/blast/api/ |
H A D | blast_options_local_priv.hpp | 437 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 D | traceback_stage.cpp | 215 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 D | setup_factory.cpp | 304 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 D | blast_memento_priv.hpp | 71 m_HitSaveOpts = local_opts->m_HitSaveOpts.Get(); in CBlastOptionsMemento() 95 BlastHitSavingOptions* m_HitSaveOpts; member in CBlastOptionsMemento
|
H A D | blast_options_local_priv.cpp | 57 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 D | prelim_search_runner.hpp | 80 m_OptsMemento->m_HitSaveOpts, in operator ()()
|
H A D | prelim_stage.cpp | 335 SBlastHitsParametersNew(opts_memento->m_HitSaveOpts, in ComputeBlastHSPResults()
|