#include <corelib/ncbistd.hpp>#include <corelib/ncbidiag.hpp>#include <serial/objectinfo.hpp>#include <serial/serialbase.hpp>#include <objects/general/Name_std.hpp>#include <objects/biblio/Author.hpp>#include <objects/valerr/ValidErrItem.hpp>#include <objects/valerr/ValidError.hpp>#include <objects/taxon3/itaxon3.hpp>#include <objmgr/scope.hpp>#include <map>
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Classes | |
| struct | SBarcode |
Typedefs | |
| typedef vector< SBarcode > | TBarcodeResults |
Functions | |
| string | GetSeqTitle (CBioseq_Handle bsh) |
| string | GetBarcodeId (CBioseq_Handle bsh) |
| void | BarcodeTestBioseq (CBioseq_Handle bsh, SBarcode &b) |
| bool | BarcodeTestFails (const SBarcode &b) |
| bool | IsTechBarcode (CBioseq_Handle bsh) |
| TBarcodeResults | GetBarcodeValues (CSeq_entry_Handle seh) |
Typedef Documentation
◆ TBarcodeResults
| typedef vector<SBarcode> TBarcodeResults |
Definition at line 86 of file validator_barcode.hpp.
Function Documentation
◆ BarcodeTestBioseq()
| void BarcodeTestBioseq | ( | CBioseq_Handle | bsh, |
| SBarcode & | b | ||
| ) |
Definition at line 392 of file validator_barcode.cpp.
References b, GetBarcodeId(), GetHasCollectionDate(), GetHasFrameShift(), GetHasKeyword(), GetHasOrderAssignment(), GetIsCountry(), GetIsLength(), GetIsPrimers(), GetIsStructuredVoucher(), GetIsVoucher(), GetLowTrace(), GetPercentN(), and GetSeqTitle().
Referenced by CBarcodeTool::FindBarcodeFeats(), and GetBarcodeValues().
◆ BarcodeTestFails()
Definition at line 314 of file validator_barcode.cpp.
References b.
Referenced by CBarcodeTool::FindBarcodeFeats(), GetBarcodeValues(), and CValidError_imp::x_DoBarcodeTests().
◆ GetBarcodeId()
| string GetBarcodeId | ( | CBioseq_Handle | bsh | ) |
Definition at line 78 of file validator_barcode.cpp.
References CSeq_id::eContent, NStr::EqualNocase(), CBioseq_Handle::GetId(), CSeq_id::GetLabel(), kEmptyStr, local, and NStr::ReplaceInPlace().
Referenced by BarcodeTestBioseq().
◆ GetBarcodeValues()
| TBarcodeResults GetBarcodeValues | ( | CSeq_entry_Handle | seh | ) |
Definition at line 411 of file validator_barcode.cpp.
References b, BarcodeTestBioseq(), BarcodeTestFails(), and IsTechBarcode().
Referenced by CValidError_imp::x_DoBarcodeTests().
◆ GetSeqTitle()
| string GetSeqTitle | ( | CBioseq_Handle | bsh | ) |
Definition at line 56 of file validator_barcode.cpp.
References CBioseq::eContent, label, and local.
Referenced by BarcodeTestBioseq().
◆ IsTechBarcode()
| bool IsTechBarcode | ( | CBioseq_Handle | bsh | ) |
Definition at line 378 of file validator_barcode.cpp.
References CSeqdesc_Base::e_Molinfo, and CMolInfo_Base::eTech_barcode.
Referenced by CBarcodeTool::FindBarcodeFeats(), GetBarcodeValues(), and CBarcodeTool::OnAddKeyword().
