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Searched refs:GetOrg (Results 1 – 25 of 191) sorted by relevance

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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/misc/discrepancy/
H A Dbiosource_tests.cpp124 …biosrc->GetOrg().IsSetOrgname() && biosrc->GetOrg().GetOrgname().IsSetMod() && biosrc->GetOrg().Is…
199 if (biosrc->GetOrg().IsSetOrgname() && biosrc->GetOrg().GetOrgname().IsSetMod()) {
241 …->GetOrg().IsSetTaxname() && NStr::StartsWith(biosrc->GetOrg().GetTaxname(), "Influenza A virus ")…
270 if (biosrc->GetOrg().IsSetOrgname() && biosrc->GetOrg().GetOrgname().IsSetMod()) {
450 if (!src.IsSetOrg() || !src.GetOrg().IsSetOrgMod() || !src.GetOrg().GetOrgname().IsSetMod()) { in SetCultureCollectionFromStrain()
878 if (src.IsSetOrg() && src.GetOrg().IsSetOrgname() && src.GetOrg().GetOrgname().IsSetMod()) { in HasAmplifiedWithSpeciesSpecificPrimerNote()
1374 GetOrgrefDifferences(first_biosrc.GetOrg(), second_biosrc.GetOrg(), diffs); in GetBiosourceDifferences()
1590 … if (biosrc->GetOrg().IsSetOrgname() && biosrc->GetOrg().GetOrgname().IsSetMod()) {
1821 …g() && biosrc->GetOrg().CanGetOrgname() && biosrc->GetOrg().GetOrgname().CanGetMod() && biosrc->Ge…
1879 if (bs.GetOrg().CanGetOrgname() && bs.GetOrg().GetOrgname().CanGetMod()) { in GetSrcQual()
[all …]
H A Ddivision_code_conflicts.cpp51 …g() && src->GetSource().GetOrg().IsSetOrgname() && src->GetSource().GetOrg().GetOrgname().IsSetDiv…
52 …m_Objs[kDivCodeConfl]["[n] bioseq[s] [has] division code " + src->GetSource().GetOrg().GetOrgname(…
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objects/seqfeat/
H A DBioSource.cpp625 if (IsSetOrg() && GetOrg().IsSetOrgname() && GetOrg().GetOrgname().IsSetAttrib()) { in SetDisableStrainForwarding()
636 if (IsSetOrg() && GetOrg().IsSetOrgname() && GetOrg().GetOrgname().IsSetAttrib()) { in SetDisableStrainForwarding()
650 if (IsSetOrg() && GetOrg().IsSetOrgname() && GetOrg().GetOrgname().IsSetAttrib() in GetDisableStrainForwarding()
718 if (GetOrg().IsSetOrgname() && GetOrg().GetOrgname().IsSetName()) { in UpdateWithBioSample()
1318 if (IsSetOrg() && GetOrg().IsSetOrgname() && GetOrg().GetOrgname().IsSetLineage() in x_ShouldIgnoreNoteForBiosample()
1401 if (IsSetOrg() && GetOrg().IsSetOrgname() && GetOrg().GetOrgname().IsSetMod()) { in AutoFix()
1631 if (IsSetOrg() && GetOrg().IsSetOrgname() && GetOrg().GetOrgname().IsSetMod()) { in RemoveOrgMod()
1653 if (IsSetOrg() && GetOrg().IsSetOrgname() && GetOrg().GetOrgname().IsSetMod()) { in RemoveOrgMod()
1852 if (!IsSetOrg() || !GetOrg().IsSetOrgname() || !GetOrg().GetOrgname().IsSetLineage()) { in AllowSexQualifier()
1884 if (!IsSetOrg() || !GetOrg().IsSetOrgname() || !GetOrg().GetOrgname().IsSetLineage()) { in AllowMatingTypeQualifier()
[all …]
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objects/seqfeat/
H A DBioSource.cpp625 if (IsSetOrg() && GetOrg().IsSetOrgname() && GetOrg().GetOrgname().IsSetAttrib()) { in SetDisableStrainForwarding()
636 if (IsSetOrg() && GetOrg().IsSetOrgname() && GetOrg().GetOrgname().IsSetAttrib()) { in SetDisableStrainForwarding()
650 if (IsSetOrg() && GetOrg().IsSetOrgname() && GetOrg().GetOrgname().IsSetAttrib() in GetDisableStrainForwarding()
718 if (GetOrg().IsSetOrgname() && GetOrg().GetOrgname().IsSetName()) { in UpdateWithBioSample()
1318 if (IsSetOrg() && GetOrg().IsSetOrgname() && GetOrg().GetOrgname().IsSetLineage() in x_ShouldIgnoreNoteForBiosample()
1401 if (IsSetOrg() && GetOrg().IsSetOrgname() && GetOrg().GetOrgname().IsSetMod()) { in AutoFix()
1631 if (IsSetOrg() && GetOrg().IsSetOrgname() && GetOrg().GetOrgname().IsSetMod()) { in RemoveOrgMod()
1653 if (IsSetOrg() && GetOrg().IsSetOrgname() && GetOrg().GetOrgname().IsSetMod()) { in RemoveOrgMod()
1852 if (!IsSetOrg() || !GetOrg().IsSetOrgname() || !GetOrg().GetOrgname().IsSetLineage()) { in AllowSexQualifier()
1884 if (!IsSetOrg() || !GetOrg().IsSetOrgname() || !GetOrg().GetOrgname().IsSetLineage()) { in AllowMatingTypeQualifier()
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/edit/unit_test/
H A Dunit_test_source_edit.cpp122 FOR_EACH_DBXREF_ON_ORGREF ( db, src.GetOrg() ) { in BOOST_AUTO_TEST_CASE()
152 FOR_EACH_DBXREF_ON_ORGREF ( db, src.GetOrg() ) { in BOOST_AUTO_TEST_CASE()
162 BOOST_CHECK_EQUAL(src.GetOrg().IsSetSyn(), false); in BOOST_AUTO_TEST_CASE()
207 BOOST_CHECK_EQUAL(common->GetOrg().GetTaxname(), "Pneumocystis carinii"); in BOOST_AUTO_TEST_CASE()
208 BOOST_CHECK_EQUAL(common->GetOrg().GetTaxId(), TAX_ID_CONST(4754)); in BOOST_AUTO_TEST_CASE()
228 BOOST_CHECK_EQUAL(common->GetOrg().GetTaxname(), "Eremothecium gossypii ATCC 10895"); in BOOST_AUTO_TEST_CASE()
229 BOOST_CHECK_EQUAL(common->GetOrg().GetTaxId(), TAX_ID_CONST(284811)); in BOOST_AUTO_TEST_CASE()
245 BOOST_CHECK_EQUAL(common->GetOrg().GetTaxId(), TAX_ID_CONST(99287)); in BOOST_AUTO_TEST_CASE()
247 BOOST_CHECK_EQUAL(s_HasOrgMod(common->GetOrg(), COrgMod::eSubtype_strain, "LT2"), true); in BOOST_AUTO_TEST_CASE()
257 BOOST_CHECK_EQUAL(common->GetOrg().GetTaxId(), TAX_ID_CONST(90371)); in BOOST_AUTO_TEST_CASE()
[all …]
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/edit/
H A Dsource_edit.cpp56 if (src.IsSetOrg() && src.GetOrg().IsSetCommon()) { in BEGIN_SCOPE()
60 if (src.IsSetOrg() && src.GetOrg().IsSetSyn()) { in BEGIN_SCOPE()
75 if (src.IsSetOrg() && src.GetOrg().IsSetOrgname() in RemoveMod()
76 && src.GetOrg().GetOrgname().IsSetMod()) { in RemoveMod()
86 if (src.GetOrg().GetOrgname().GetMod().empty()) { in RemoveMod()
96 if (src.IsSetOrg() && src.GetOrg().IsSetDb()) { in RemoveTaxId()
106 if (src.GetOrg().GetDb().empty()) { in RemoveTaxId()
117 org->Assign(reply.GetData().GetOrg()); in s_ProcessReply()
176 o1->Assign(src1.GetOrg()); in MakeCommonBioSource()
179 o2->Assign(src2.GetOrg()); in MakeCommonBioSource()
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H A Dmail_report.cpp71 if (di && di->GetSource().IsSetOrg() && di->GetSource().GetOrg().IsSetTaxname()) { in BEGIN_SCOPE()
72 taxname = di->GetSource().GetOrg().GetTaxname(); in BEGIN_SCOPE()
106 if (di->GetSource().GetOrg().IsSetTaxname()) { in MakeMailReportPostReport()
107 taxname = di->GetSource().GetOrg().GetTaxname(); in MakeMailReportPostReport()
109 org->Assign(di->GetSource().GetOrg()); in MakeMailReportPostReport()
138 … if ((*reply_it)->GetData().IsSetOrg() && (*reply_it)->GetData().GetOrg().IsSetDb()) { in MakeMailReportPostReport()
139 ITERATE(COrg_ref::TDb, db_it, (*reply_it)->GetData().GetOrg().GetDb()) { in MakeMailReportPostReport()
H A Dautodef_with_tax.cpp119 TTaxId taxid = desc_ci->GetSource().GetOrg().GetTaxId(); in GetDocsumOrgDescription()
136 && (*reply_it)->GetData().GetOrg().IsSetTaxname()) { in GetDocsumOrgDescription()
137 joined_org = (*reply_it)->GetData().GetOrg().GetTaxname(); in GetDocsumOrgDescription()
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objtools/edit/
H A Dsource_edit.cpp56 if (src.IsSetOrg() && src.GetOrg().IsSetCommon()) { in BEGIN_SCOPE()
60 if (src.IsSetOrg() && src.GetOrg().IsSetSyn()) { in BEGIN_SCOPE()
75 if (src.IsSetOrg() && src.GetOrg().IsSetOrgname() in RemoveMod()
76 && src.GetOrg().GetOrgname().IsSetMod()) { in RemoveMod()
86 if (src.GetOrg().GetOrgname().GetMod().empty()) { in RemoveMod()
96 if (src.IsSetOrg() && src.GetOrg().IsSetDb()) { in RemoveTaxId()
106 if (src.GetOrg().GetDb().empty()) { in RemoveTaxId()
117 org->Assign(reply.GetData().GetOrg()); in s_ProcessReply()
176 o1->Assign(src1.GetOrg()); in MakeCommonBioSource()
179 o2->Assign(src2.GetOrg()); in MakeCommonBioSource()
[all …]
H A Dmail_report.cpp71 if (di && di->GetSource().IsSetOrg() && di->GetSource().GetOrg().IsSetTaxname()) { in BEGIN_SCOPE()
72 taxname = di->GetSource().GetOrg().GetTaxname(); in BEGIN_SCOPE()
106 if (di->GetSource().GetOrg().IsSetTaxname()) { in MakeMailReportPostReport()
107 taxname = di->GetSource().GetOrg().GetTaxname(); in MakeMailReportPostReport()
109 org->Assign(di->GetSource().GetOrg()); in MakeMailReportPostReport()
138 … if ((*reply_it)->GetData().IsSetOrg() && (*reply_it)->GetData().GetOrg().IsSetDb()) { in MakeMailReportPostReport()
139 ITERATE(COrg_ref::TDb, db_it, (*reply_it)->GetData().GetOrg().GetDb()) { in MakeMailReportPostReport()
H A Dautodef_with_tax.cpp119 TTaxId taxid = desc_ci->GetSource().GetOrg().GetTaxId(); in GetDocsumOrgDescription()
136 && (*reply_it)->GetData().GetOrg().IsSetTaxname()) { in GetDocsumOrgDescription()
137 joined_org = (*reply_it)->GetData().GetOrg().GetTaxname(); in GetDocsumOrgDescription()
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objmgr/util/
H A Dautodef_source_desc.cpp55 if (bs.CanGetOrg() && bs.GetOrg().CanGetTaxname()) { in BEGIN_SCOPE()
56 m_DescStrings.push_back (bs.GetOrg().GetTaxname()); in BEGIN_SCOPE()
58 if (bs.CanGetOrg() && bs.GetOrg().CanGetOrgname() && bs.GetOrg().GetOrgname().CanGetMod()) { in BEGIN_SCOPE()
59 ITERATE (COrgName::TMod, modI, bs.GetOrg().GetOrgname().GetMod()) { in BEGIN_SCOPE()
201 return m_BS.GetOrg().GetTaxname(); in GetComboDescription()
213 … if (m_BS.CanGetOrg() && m_BS.GetOrg().CanGetOrgname() && m_BS.GetOrg().GetOrgname().IsSetMod()) { in GetAvailableModifiers()
214 ITERATE (COrgName::TMod, modI, m_BS.GetOrg().GetOrgname().GetMod()) { in GetAvailableModifiers()
241 string tax_name = m_BS.GetOrg().GetTaxname(); in IsTrickyHIV()
260 … if (m_BS.CanGetOrg() && m_BS.GetOrg().CanGetOrgname() && m_BS.GetOrg().GetOrgname().IsSetMod()) { in IsTrickyHIV()
261 ITERATE (COrgName::TMod, modI, m_BS.GetOrg().GetOrgname().GetMod()) { in IsTrickyHIV()
H A Dautodef_mod_combo.cpp328 if (!src.IsSetOrg() || !src.GetOrg().IsSetOrgname() || !src.GetOrg().GetOrgname().IsSetMod()) { in x_BioSourceHasOrgMod()
331 ITERATE(COrgName::TMod, it, src.GetOrg().GetOrgname().GetMod()) { in x_BioSourceHasOrgMod()
419 … if (!bsrc.IsSetOrg() || !bsrc.GetOrg().IsSetOrgname() || !bsrc.GetOrg().GetOrgname().IsSetMod()) { in x_AddOrgModString()
481 if (!bsrc.IsSetOrg() || !bsrc.GetOrg().IsSetTaxname()) { in x_AddHIVModifiers()
484 string source_description = bsrc.GetOrg().GetTaxname(); in x_AddHIVModifiers()
638 …bsrc.IsSetOrg() && bsrc.GetOrg().IsSetTaxname() && NStr::StartsWith(bsrc.GetOrg().GetTaxname(), "I… in x_AddRequiredSubSourceModifiers()
646 … if (!bsrc.IsSetOrg() || !bsrc.GetOrg().IsSetOrgname() || !bsrc.GetOrg().GetOrgname().IsSetMod()) { in x_HasTypeStrainComment()
650 ITERATE(COrgName::TMod, it, bsrc.GetOrg().GetOrgname().GetMod()) { in x_HasTypeStrainComment()
791 source_description += bsrc.GetOrg().GetTaxname(); in GetSourceDescriptionString()
858 for (auto& it : bsrc.GetOrg().GetOrgname().GetMod()) { in GetSourceDescriptionString()
[all …]
H A Dseqtitle.cpp329 && source->GetOrg().IsSetTaxname()) { in GetTitle()
530 org = &source->GetOrg(); in GetTitle()
534 org = &it->GetOrg(); in GetTitle()
713 && source->GetOrg().IsSetTaxname()) { in GetTitle()
853 org = &source->GetOrg(); in GetTitle()
857 org = &desc->GetOrg(); in GetTitle()
925 const COrg_ref& org = source.GetOrg(); in s_TitleFromBioSource()
1082 if (source.GetOrg().IsSetTaxname()) { in x_TitleFromChromosome()
1083 name = source.GetOrg().GetTaxname(); in x_TitleFromChromosome()
1280 org = &it->GetSource().GetOrg(); in s_TitleFromProtein()
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H A Dautodef_source_group.cpp343 if (bsrc.CanGetOrg() && bsrc.GetOrg().CanGetTaxname()) { in GetDefaultExcludeSp()
344 string taxname1 = bsrc.GetOrg().GetTaxname(); in GetDefaultExcludeSp()
348 if (bsrc2.CanGetOrg() && bsrc2.GetOrg().CanGetTaxname()) { in GetDefaultExcludeSp()
349 string taxname2 = bsrc.GetOrg().GetTaxname(); in GetDefaultExcludeSp()
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objmgr/util/
H A Dautodef_source_desc.cpp55 if (bs.CanGetOrg() && bs.GetOrg().CanGetTaxname()) { in BEGIN_SCOPE()
56 m_DescStrings.push_back (bs.GetOrg().GetTaxname()); in BEGIN_SCOPE()
58 if (bs.CanGetOrg() && bs.GetOrg().CanGetOrgname() && bs.GetOrg().GetOrgname().CanGetMod()) { in BEGIN_SCOPE()
59 ITERATE (COrgName::TMod, modI, bs.GetOrg().GetOrgname().GetMod()) { in BEGIN_SCOPE()
201 return m_BS.GetOrg().GetTaxname(); in GetComboDescription()
213 … if (m_BS.CanGetOrg() && m_BS.GetOrg().CanGetOrgname() && m_BS.GetOrg().GetOrgname().IsSetMod()) { in GetAvailableModifiers()
214 ITERATE (COrgName::TMod, modI, m_BS.GetOrg().GetOrgname().GetMod()) { in GetAvailableModifiers()
241 string tax_name = m_BS.GetOrg().GetTaxname(); in IsTrickyHIV()
260 … if (m_BS.CanGetOrg() && m_BS.GetOrg().CanGetOrgname() && m_BS.GetOrg().GetOrgname().IsSetMod()) { in IsTrickyHIV()
261 ITERATE (COrgName::TMod, modI, m_BS.GetOrg().GetOrgname().GetMod()) { in IsTrickyHIV()
H A Dautodef_mod_combo.cpp328 if (!src.IsSetOrg() || !src.GetOrg().IsSetOrgname() || !src.GetOrg().GetOrgname().IsSetMod()) { in x_BioSourceHasOrgMod()
331 ITERATE(COrgName::TMod, it, src.GetOrg().GetOrgname().GetMod()) { in x_BioSourceHasOrgMod()
419 … if (!bsrc.IsSetOrg() || !bsrc.GetOrg().IsSetOrgname() || !bsrc.GetOrg().GetOrgname().IsSetMod()) { in x_AddOrgModString()
481 if (!bsrc.IsSetOrg() || !bsrc.GetOrg().IsSetTaxname()) { in x_AddHIVModifiers()
484 string source_description = bsrc.GetOrg().GetTaxname(); in x_AddHIVModifiers()
638 …bsrc.IsSetOrg() && bsrc.GetOrg().IsSetTaxname() && NStr::StartsWith(bsrc.GetOrg().GetTaxname(), "I… in x_AddRequiredSubSourceModifiers()
646 … if (!bsrc.IsSetOrg() || !bsrc.GetOrg().IsSetOrgname() || !bsrc.GetOrg().GetOrgname().IsSetMod()) { in x_HasTypeStrainComment()
650 ITERATE(COrgName::TMod, it, bsrc.GetOrg().GetOrgname().GetMod()) { in x_HasTypeStrainComment()
791 source_description += bsrc.GetOrg().GetTaxname(); in GetSourceDescriptionString()
858 for (auto& it : bsrc.GetOrg().GetOrgname().GetMod()) { in GetSourceDescriptionString()
[all …]
H A Dseqtitle.cpp329 && source->GetOrg().IsSetTaxname()) { in GetTitle()
530 org = &source->GetOrg(); in GetTitle()
534 org = &it->GetOrg(); in GetTitle()
713 && source->GetOrg().IsSetTaxname()) { in GetTitle()
853 org = &source->GetOrg(); in GetTitle()
857 org = &desc->GetOrg(); in GetTitle()
925 const COrg_ref& org = source.GetOrg(); in s_TitleFromBioSource()
1082 if (source.GetOrg().IsSetTaxname()) { in x_TitleFromChromosome()
1083 name = source.GetOrg().GetTaxname(); in x_TitleFromChromosome()
1280 org = &it->GetSource().GetOrg(); in s_TitleFromProtein()
[all …]
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/validator/
H A Dtax_validation_and_cleanup.cpp166 …m_HostLineage = reply.GetData().GetOrg().IsSetLineage() ? reply.GetData().GetOrg().GetLineage() : … in AddReply()
174 …m_HostLineage = reply.GetData().GetOrg().IsSetLineage() ? reply.GetData().GetOrg().GetLineage() : … in AddReply()
183 …m_HostLineage = reply.GetData().GetOrg().IsSetLineage() ? reply.GetData().GetOrg().GetLineage() : … in AddReply()
189 …m_HostLineage = reply.GetData().GetOrg().IsSetLineage() ? reply.GetData().GetOrg().GetLineage() : … in AddReply()
193 …m_HostLineage = reply.GetData().GetOrg().IsSetLineage() ? reply.GetData().GetOrg().GetLineage() : … in AddReply()
386 const COrg_ref& org = desc->GetSource().GetOrg(); in AddDesc()
418 const COrg_ref& org = feat->GetData().GetBiosrc().GetOrg(); in AddFeat()
719 const COrg_ref& org = (*desc_it)->GetSource().GetOrg(); in GetTaxonomyLookupRequest()
952 cpy->Assign((*reply_it)->GetData().GetOrg()); in AdjustOrgRefsWithTaxLookupReply()
956 (*reply_it)->GetError().GetOrg().IsSetTaxname() && in AdjustOrgRefsWithTaxLookupReply()
[all …]
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/app/biosample_chk/
H A Dsrc_table_column.cpp80 if (in_out_bioSource.IsSetOrg() && in_out_bioSource.GetOrg().IsSetTaxname()) { in GetFromBioSource()
81 val = in_out_bioSource.GetOrg().GetTaxname(); in GetFromBioSource()
101 if (in_out_bioSource.IsSetOrg() && in_out_bioSource.GetOrg().IsSetDb()) { in ClearInBioSource()
120 int taxid = in_out_bioSource.GetOrg().GetTaxId(); in GetFromBioSource()
227 …f (in_out_bioSource.IsSetOrg() && in_out_bioSource.GetOrg().IsSetOrgname() && in_out_bioSource.Get… in ClearInBioSource()
244 …f (in_out_bioSource.IsSetOrg() && in_out_bioSource.GetOrg().IsSetOrgname() && in_out_bioSource.Get… in GetFromBioSource()
246 while (it != in_out_bioSource.GetOrg().GetOrgname().GetMod().end()) { in GetFromBioSource()
594 if (src.GetOrg().IsSetTaxname()) { in GetSourceFields()
597 src.GetOrg().GetTaxId(); in GetSourceFields()
602 if (src.GetOrg().IsSetOrgname() && src.GetOrg().GetOrgname().IsSetMod()) { in GetSourceFields()
[all …]
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objects/taxon1/unit_test/
H A Dtaxon1_unit_test.cpp137 BOOST_REQUIRE( p->GetOrg().IsSetTaxname() != false ); in BOOST_AUTO_TEST_CASE()
349 BOOST_CHECK( t1p->GetOrg().IsSetOrgname() != false ); in BOOST_AUTO_TEST_CASE()
350 string s = s_OrgRef2String( t1p->GetOrg() ); in BOOST_AUTO_TEST_CASE()
368 BOOST_CHECK( t1p->GetOrg().IsSetOrgname() != false ); in BOOST_AUTO_TEST_CASE()
402 BOOST_CHECK( t2p->GetOrg().IsSetOrgname() != false ); in BOOST_AUTO_TEST_CASE()
406 string s = s_OrgRef2String( t2p->GetOrg() ); in BOOST_AUTO_TEST_CASE()
416 BOOST_CHECK( t2p->GetOrg().IsSetOrgname() != false ); in BOOST_AUTO_TEST_CASE()
420 s = s_OrgRef2String( t2p->GetOrg() ); in BOOST_AUTO_TEST_CASE()
435 BOOST_CHECK( ct2p->GetOrg().IsSetOrgname() != false ); in BOOST_AUTO_TEST_CASE()
439 string s = s_OrgRef2String( ct2p->GetOrg() ); in BOOST_AUTO_TEST_CASE()
[all …]
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/app/biosample_chk/unit_test/
H A Dunit_test_biosample_chk.cpp142 BOOST_CHECK_EQUAL(test_src->GetOrg().GetTaxname(), "B"); in BOOST_AUTO_TEST_CASE()
156 BOOST_CHECK_EQUAL(test_src->GetOrg().IsSetOrgMod(), false); in BOOST_AUTO_TEST_CASE()
337 BOOST_CHECK_EQUAL(src.GetOrg().GetDb().front()->GetTag().GetId(), 123); in BOOST_AUTO_TEST_CASE()
379 BOOST_CHECK_EQUAL(src->GetOrg().GetDb().size(), 2); in BOOST_AUTO_TEST_CASE()
402 BOOST_CHECK_EQUAL(src->GetOrg().IsSetOrgMod(), false); in BOOST_AUTO_TEST_CASE()
415 BOOST_CHECK_EQUAL(src->GetOrg().IsSetOrgMod(), false); in BOOST_AUTO_TEST_CASE()
434 smpl->SetOrg().SetTaxname(src->GetOrg().GetTaxname()); in BOOST_AUTO_TEST_CASE()
469 BOOST_CHECK_EQUAL(src->GetOrg().GetOrgname().GetMod().size(), 2); in BOOST_AUTO_TEST_CASE()
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/structure/cd_utils/
H A DcuTaxClient.cpp156 org = &((*j)->GetOrg()); in GetTaxIDFromBioseq()
158 org = &((*j)->GetSource().GetOrg()); in GetTaxIDFromBioseq()
218 if (data->IsSetOrg() && data->GetOrg().IsSetTaxname()) { in GetTaxNameForTaxID()
219 taxName = data->GetOrg().GetTaxname(); in GetTaxNameForTaxID()
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/misc/biosample_util/unit_test/
H A Dunit_test_biosample_util.cpp164 BOOST_CHECK_EQUAL(test_src->GetOrg().GetTaxname(), "B"); in BOOST_AUTO_TEST_CASE()
178 BOOST_CHECK_EQUAL(test_src->GetOrg().IsSetOrgMod(), false); in BOOST_AUTO_TEST_CASE()
364 BOOST_CHECK_EQUAL(src.GetOrg().GetDb().front()->GetTag().GetId(), 123); in BOOST_AUTO_TEST_CASE()
406 BOOST_CHECK_EQUAL(src->GetOrg().GetDb().size(), 2); in BOOST_AUTO_TEST_CASE()
429 BOOST_CHECK_EQUAL(src->GetOrg().IsSetOrgMod(), false); in BOOST_AUTO_TEST_CASE()
442 BOOST_CHECK_EQUAL(src->GetOrg().IsSetOrgMod(), false); in BOOST_AUTO_TEST_CASE()
461 smpl->SetOrg().SetTaxname(src->GetOrg().GetTaxname()); in BOOST_AUTO_TEST_CASE()
496 BOOST_CHECK_EQUAL(src->GetOrg().GetOrgname().GetMod().size(), 2); in BOOST_AUTO_TEST_CASE()
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/flatfile/
H A Dfta_src.cpp1939 if (bio.GetOrg().CanGetOrgname() && bio.GetOrg().GetOrgname().CanGetMod()) in CheckQualsInSourceFeat()
2184 bio.GetOrg().GetOrgname().CanGetDiv() && in UpdateRawBioSource()
2191 if (bio.GetOrg().CanGetTaxname() && in UpdateRawBioSource()
2192 !bio.GetOrg().GetTaxname().empty()) in UpdateRawBioSource()
2365 bio_src.GetOrg().GetTaxname().empty()) in CompareDescrFeatSources()
2373 if (bio_src.GetOrg().IsSetCommon()) in CompareDescrFeatSources()
2426 if (sfbp->bio_src->GetOrg().IsSetOrgname() && in CheckSourceLineage()
2464 sfbp->bio_src->GetOrg().GetTaxname().empty()) in PropogateSuppliedLineage()
2489 !bio_src.GetOrg().IsSetTaxname() || bio_src.GetOrg().GetTaxname().empty() || in PropogateSuppliedLineage()
3449 if (bio.GetOrg().IsSetTaxname() && in CheckMetagenome()
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