Std_seg.cpp
上传用户:yhdzpy8989
上传日期:2007-06-13
资源大小:13604k
文件大小:5k
- /*
- * ===========================================================================
- * PRODUCTION $Log: Std_seg.cpp,v $
- * PRODUCTION Revision 1000.1 2004/06/01 19:33:42 gouriano
- * PRODUCTION PRODUCTION: UPGRADED [GCC34_MSVC7] Dev-tree R1.2
- * PRODUCTION
- * ===========================================================================
- */
- /* $Id: Std_seg.cpp,v 1000.1 2004/06/01 19:33:42 gouriano Exp $
- * ===========================================================================
- *
- * PUBLIC DOMAIN NOTICE
- * National Center for Biotechnology Information
- *
- * This software/database is a "United States Government Work" under the
- * terms of the United States Copyright Act. It was written as part of
- * the author's official duties as a United States Government employee and
- * thus cannot be copyrighted. This software/database is freely available
- * to the public for use. The National Library of Medicine and the U.S.
- * Government have not placed any restriction on its use or reproduction.
- *
- * Although all reasonable efforts have been taken to ensure the accuracy
- * and reliability of the software and data, the NLM and the U.S.
- * Government do not and cannot warrant the performance or results that
- * may be obtained by using this software or data. The NLM and the U.S.
- * Government disclaim all warranties, express or implied, including
- * warranties of performance, merchantability or fitness for any particular
- * purpose.
- *
- * Please cite the author in any work or product based on this material.
- *
- * ===========================================================================
- *
- * Author: .......
- *
- * File Description:
- * .......
- *
- * Remark:
- * This code was originally generated by application DATATOOL
- * using specifications from the data definition file
- * 'seqalign.asn'.
- */
- // standard includes
- // generated includes
- #include <ncbi_pch.hpp>
- #include <objects/seqalign/Std_seg.hpp>
- // generated classes
- BEGIN_NCBI_SCOPE
- BEGIN_objects_SCOPE // namespace ncbi::objects::
- // destructor
- CStd_seg::~CStd_seg(void)
- {
- }
- CStd_seg::TDim CStd_seg::CheckNumRows() const
- {
- const size_t& dim = GetDim();
- if (dim != GetLoc().size()) {
- NCBI_THROW(CSeqalignException, eInvalidAlignment,
- "CStd_seg::CheckNumRows():"
- " loc.size is inconsistent with dim");
- }
- if (IsSetIds() && dim != GetIds().size()) {
- NCBI_THROW(CSeqalignException, eInvalidAlignment,
- "CStd_seg::CheckNumRows():"
- " ids.size is inconsistent with dim");
- }
- return dim;
- }
- TSignedSeqPos CStd_seg::GetSeqStart(TDim row) const
- {
- TDim row_i = 0;
- ITERATE (CStd_seg::TLoc, i, GetLoc()) {
- if (row_i++ == row) {
- if ((*i)->IsInt()) {
- return (*i)->GetInt().GetFrom();
- } else {
- return -1;
- }
- }
- }
- if (row < 0 || row >= GetDim()) {
- NCBI_THROW(CSeqalignException, eInvalidRowNumber,
- "CStd_seg::GetSeqStart():"
- " Invalid row number");
- }
- NCBI_THROW(CSeqalignException, eInvalidAlignment,
- "CStd_seg::GetSeqStart():"
- " loc.size is inconsistent with dim");
- }
- TSignedSeqPos CStd_seg::GetSeqStop(TDim row) const
- {
- TDim dim = 0;
- ITERATE (CStd_seg::TLoc, i, GetLoc()) {
- if (dim++ == row) {
- if ((*i)->IsInt()) {
- return (*i)->GetInt().GetTo();
- } else {
- return -1;
- }
- }
- }
- if (row < 0 || row >= GetDim()) {
- NCBI_THROW(CSeqalignException, eInvalidRowNumber,
- "CStd_seg::GetSeqStop():"
- " Invalid row number");
- }
- NCBI_THROW(CSeqalignException, eInvalidAlignment,
- "CStd_seg::GetSeqStop():"
- " loc.size is inconsistent with dim");
- }
- void CStd_seg::Validate(bool full_test) const
- {
- CheckNumRows();
- }
- CRange<TSignedSeqPos> CStd_seg::GetSeqRange(TDim row) const
- {
- TDim dim = 0;
- ITERATE (CStd_seg::TLoc, i, GetLoc()) {
- if (dim++ == row) {
- if ((*i)->IsInt()) {
- const CSeq_interval& interval = (*i)->GetInt();
- return CRange<TSignedSeqPos>
- (interval.GetFrom(), interval.GetTo());
- } else {
- return CRange<TSignedSeqPos>(-1, -1);
- }
- }
- }
- if (row < 0 || row >= GetDim()) {
- NCBI_THROW(CSeqalignException, eInvalidRowNumber,
- "CStd_seg::GetSeqRange():"
- " Invalid row number");
- }
- NCBI_THROW(CSeqalignException, eInvalidAlignment,
- "CStd_seg::GetSeqRange():"
- " loc.size is inconsistent with dim");
- }
- END_objects_SCOPE // namespace ncbi::objects::
- END_NCBI_SCOPE
- /*
- * ===========================================================================
- *
- * $Log: Std_seg.cpp,v $
- * Revision 1000.1 2004/06/01 19:33:42 gouriano
- * PRODUCTION: UPGRADED [GCC34_MSVC7] Dev-tree R1.2
- *
- * Revision 1.2 2004/05/19 17:25:43 gorelenk
- * Added include of PCH - ncbi_pch.hpp
- *
- * Revision 1.1 2003/09/16 16:17:12 todorov
- * Added validation methods. Added seq range methods
- *
- *
- * ===========================================================================
- */
- /* Original file checksum: lines: 64, chars: 1879, CRC32: d01e569e */