/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/cleanup/test/ |
H A D | test_fix_feature_ids.cpp | 71 auto orig_feat = fh_feat.first; in sx_RunTest_Unique_Feature_Ids() local 73 CSeq_feat_EditHandle feh(orig_feat); in sx_RunTest_Unique_Feature_Ids() 117 auto orig_feat = fh_feat.first; in sx_RunTest_Reassign_Feature_Ids() local 119 CSeq_feat_EditHandle feh(orig_feat); in sx_RunTest_Reassign_Feature_Ids()
|
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/objmgr/impl/ |
H A D | seq_loc_cvt.hpp | 121 const CSeq_feat& orig_feat, 124 const CSeq_feat& orig_feat, 127 const CSeq_feat& orig_feat, 378 const CSeq_feat& orig_feat, 381 const CSeq_feat& orig_feat, 384 const CSeq_feat& orig_feat,
|
H A D | annot_collector.hpp | 160 const CSeq_feat* orig_feat) const; 289 const CSeq_feat& orig_feat); 293 const CSeq_feat& orig_feat);
|
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/include/objmgr/impl/ |
H A D | seq_loc_cvt.hpp | 121 const CSeq_feat& orig_feat, 124 const CSeq_feat& orig_feat, 127 const CSeq_feat& orig_feat, 378 const CSeq_feat& orig_feat, 381 const CSeq_feat& orig_feat, 384 const CSeq_feat& orig_feat,
|
H A D | annot_collector.hpp | 160 const CSeq_feat* orig_feat) const; 289 const CSeq_feat& orig_feat); 293 const CSeq_feat& orig_feat);
|
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objmgr/ |
H A D | seq_loc_cvt.cpp | 1160 switch ( orig_feat.GetData().Which() ) { in ConvertFeature() 1162 ConvertCdregion(ref, orig_feat, mapped_feat); in ConvertFeature() 1165 ConvertRna(ref, orig_feat, mapped_feat); in ConvertFeature() 1182 CConstRef<CSeq_feat> orig_feat; in Convert() local 1184 orig_feat = obj.GetFeatFast(); in Convert() 1195 orig_feat = created_feat; in Convert() 1280 CConstRef<CSeq_feat> orig_feat; in Convert() local 1282 orig_feat = obj.GetFeatFast(); in Convert() 1293 orig_feat = created_feat; in Convert() 1683 switch ( orig_feat.GetData().Which() ) { in ConvertFeature() [all …]
|
H A D | annot_collector.cpp | 252 orig_feat->GetProduct(): orig_feat->GetLocation(); in UpdateMappedSeq_loc() 1532 CRef<CSeq_feat> orig_feat; in GetOriginalFeature() local 1536 snp_info.UpdateSeq_feat(orig_feat, in GetOriginalFeature() 1540 ret = orig_feat; in GetOriginalFeature() 1549 CRef<CSeq_feat> orig_feat; in GetOriginalFeature() local 1554 orig_feat, in GetOriginalFeature() 1557 ret = orig_feat; in GetOriginalFeature() 1602 &orig_feat); in GetMappedLocation() 1644 const CSeq_feat& orig_feat) in GetMappedFeature() argument 1651 ret = &orig_feat; in GetMappedFeature() [all …]
|
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objmgr/ |
H A D | seq_loc_cvt.cpp | 1160 switch ( orig_feat.GetData().Which() ) { in ConvertFeature() 1162 ConvertCdregion(ref, orig_feat, mapped_feat); in ConvertFeature() 1165 ConvertRna(ref, orig_feat, mapped_feat); in ConvertFeature() 1182 CConstRef<CSeq_feat> orig_feat; in Convert() local 1184 orig_feat = obj.GetFeatFast(); in Convert() 1195 orig_feat = created_feat; in Convert() 1280 CConstRef<CSeq_feat> orig_feat; in Convert() local 1282 orig_feat = obj.GetFeatFast(); in Convert() 1293 orig_feat = created_feat; in Convert() 1683 switch ( orig_feat.GetData().Which() ) { in ConvertFeature() [all …]
|
H A D | annot_collector.cpp | 252 orig_feat->GetProduct(): orig_feat->GetLocation(); in UpdateMappedSeq_loc() 1532 CRef<CSeq_feat> orig_feat; in GetOriginalFeature() local 1536 snp_info.UpdateSeq_feat(orig_feat, in GetOriginalFeature() 1540 ret = orig_feat; in GetOriginalFeature() 1549 CRef<CSeq_feat> orig_feat; in GetOriginalFeature() local 1554 orig_feat, in GetOriginalFeature() 1557 ret = orig_feat; in GetOriginalFeature() 1602 &orig_feat); in GetMappedLocation() 1644 const CSeq_feat& orig_feat) in GetMappedFeature() argument 1651 ret = &orig_feat; in GetMappedFeature() [all …]
|
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/edit/ |
H A D | loc_edit.cpp | 301 (const CSeq_feat& orig_feat, in Interpret5Policy() argument 308 const CSeq_loc& loc = orig_feat.GetLocation(); in Interpret5Policy() 335 && orig_feat.GetData().IsCdregion()) { in Interpret5Policy() 353 && orig_feat.GetData().IsCdregion() in Interpret5Policy() 354 && orig_feat.GetData().GetCdregion().IsSetFrame() in Interpret5Policy() 375 && orig_feat.GetData().IsCdregion() in Interpret5Policy() 400 (const CSeq_feat& orig_feat, in Interpret3Policy() argument 407 const CSeq_loc& loc = orig_feat.GetLocation(); in Interpret3Policy() 435 && orig_feat.GetData().IsCdregion()) { in Interpret3Policy() 470 && orig_feat.GetData().IsCdregion()) { in Interpret3Policy() [all …]
|
H A D | apply_object.cpp | 124 const CSeq_feat* orig_feat = dynamic_cast<const CSeq_feat * >(m_Original.GetPointer()); in ApplyChange() local 133 } else if (orig_feat) { in ApplyChange() 134 CSeq_feat_Handle oh = m_SEH.GetScope().GetSeq_featHandle(*orig_feat); in ApplyChange()
|
H A D | feature_propagate.cpp | 129 CRef<CSeq_feat> CFeaturePropagator::Propagate(const CSeq_feat& orig_feat) in Propagate() argument 132 rval->Assign(orig_feat); in Propagate() 136 m_FeatIdMap.emplace(orig_feat.GetId().GetLocal().GetId(), rval->GetId().GetLocal().GetId()); in Propagate() 142 CRef<CSeq_loc> new_loc = x_MapLocation(orig_feat.GetLocation(), *pTargetId); in Propagate() 146 orig_feat.GetLocation().GetLabel(&loc_label); in Propagate() 165 const CSeq_loc& location = orig_feat.GetLocation(); in Propagate() 169 switch(orig_feat.GetData().GetSubtype()) { in Propagate()
|
H A D | cds_fix.cpp | 977 bool DemoteCDSToNucSeq(objects::CSeq_feat_Handle& orig_feat) in DemoteCDSToNucSeq() argument 979 CSeq_feat_EditHandle feh(orig_feat); in DemoteCDSToNucSeq() 996 const CSeq_annot_Handle& annot_handle = orig_feat.GetAnnot(); in DemoteCDSToNucSeq() 1018 orig_feat = new_annot.TakeFeat(feh); in DemoteCDSToNucSeq()
|
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objtools/edit/ |
H A D | loc_edit.cpp | 301 (const CSeq_feat& orig_feat, in Interpret5Policy() argument 308 const CSeq_loc& loc = orig_feat.GetLocation(); in Interpret5Policy() 335 && orig_feat.GetData().IsCdregion()) { in Interpret5Policy() 353 && orig_feat.GetData().IsCdregion() in Interpret5Policy() 354 && orig_feat.GetData().GetCdregion().IsSetFrame() in Interpret5Policy() 375 && orig_feat.GetData().IsCdregion() in Interpret5Policy() 400 (const CSeq_feat& orig_feat, in Interpret3Policy() argument 407 const CSeq_loc& loc = orig_feat.GetLocation(); in Interpret3Policy() 435 && orig_feat.GetData().IsCdregion()) { in Interpret3Policy() 470 && orig_feat.GetData().IsCdregion()) { in Interpret3Policy() [all …]
|
H A D | apply_object.cpp | 124 const CSeq_feat* orig_feat = dynamic_cast<const CSeq_feat * >(m_Original.GetPointer()); in ApplyChange() local 133 } else if (orig_feat) { in ApplyChange() 134 CSeq_feat_Handle oh = m_SEH.GetScope().GetSeq_featHandle(*orig_feat); in ApplyChange()
|
H A D | feature_propagate.cpp | 129 CRef<CSeq_feat> CFeaturePropagator::Propagate(const CSeq_feat& orig_feat) in Propagate() argument 132 rval->Assign(orig_feat); in Propagate() 136 m_FeatIdMap.emplace(orig_feat.GetId().GetLocal().GetId(), rval->GetId().GetLocal().GetId()); in Propagate() 142 CRef<CSeq_loc> new_loc = x_MapLocation(orig_feat.GetLocation(), *pTargetId); in Propagate() 146 orig_feat.GetLocation().GetLabel(&loc_label); in Propagate() 165 const CSeq_loc& location = orig_feat.GetLocation(); in Propagate() 169 switch(orig_feat.GetData().GetSubtype()) { in Propagate()
|
H A D | cds_fix.cpp | 977 bool DemoteCDSToNucSeq(objects::CSeq_feat_Handle& orig_feat) in DemoteCDSToNucSeq() argument 979 CSeq_feat_EditHandle feh(orig_feat); in DemoteCDSToNucSeq() 996 const CSeq_annot_Handle& annot_handle = orig_feat.GetAnnot(); in DemoteCDSToNucSeq() 1018 orig_feat = new_annot.TakeFeat(feh); in DemoteCDSToNucSeq()
|
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/include/objtools/edit/ |
H A D | loc_edit.hpp | 97 …bool Interpret5Policy(const CSeq_feat& orig_feat, CScope& scope, bool& do_set_5_partial, bool& do_… 98 …bool Interpret3Policy(const CSeq_feat& orig_feat, CScope& scope, bool& do_set_3_partial, bool& do_… 127 const CSeq_feat& orig_feat,
|
H A D | cds_fix.hpp | 58 NCBI_XOBJEDIT_EXPORT bool DemoteCDSToNucSeq(objects::CSeq_feat_Handle& orig_feat);
|
H A D | feature_propagate.hpp | 64 CRef<CSeq_feat> Propagate(const objects::CSeq_feat& orig_feat);
|
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/objtools/edit/ |
H A D | loc_edit.hpp | 97 …bool Interpret5Policy(const CSeq_feat& orig_feat, CScope& scope, bool& do_set_5_partial, bool& do_… 98 …bool Interpret3Policy(const CSeq_feat& orig_feat, CScope& scope, bool& do_set_3_partial, bool& do_… 127 const CSeq_feat& orig_feat,
|
H A D | cds_fix.hpp | 58 NCBI_XOBJEDIT_EXPORT bool DemoteCDSToNucSeq(objects::CSeq_feat_Handle& orig_feat);
|
H A D | feature_propagate.hpp | 64 CRef<CSeq_feat> Propagate(const objects::CSeq_feat& orig_feat);
|
/dports/games/stonesoup/crawl-0.27.1/crawl-ref/source/ |
H A D | terrain.cc | 1324 const dungeon_feature_type orig_feat = env.grid(dest_pos); in _announce_swap_real() local 1330 string prep = feat_preposition(orig_feat, false); in _announce_swap_real() 1610 const dungeon_feature_type orig_feat, in _ok_dest_cell() argument 1615 if (orig_feat == dest_feat) in _ok_dest_cell() 1628 if (dest_actor && !dest_actor->is_habitable_feat(orig_feat)) in _ok_dest_cell() 1639 const dungeon_feature_type orig_feat = env.grid(src); in slide_feature_over() local 1643 && _ok_dest_cell(orig_actor, orig_feat, preferred_dest)) in slide_feature_over() 1652 if (_ok_dest_cell(orig_actor, orig_feat, *ai) in slide_feature_over()
|
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/cleanup/ |
H A D | fix_feature_id.cpp | 327 auto orig_feat = entry.first; in s_ApplyToSeqInSet() local 329 CSeq_feat_EditHandle feh(orig_feat); in s_ApplyToSeqInSet()
|