1660 lines
214 KiB
HTML
1660 lines
214 KiB
HTML
<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN" "https://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
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<head>
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<meta name="generator" content="Doxygen 1.9.0"/>
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<title>NCBI C++ ToolKit: CDense_seg Class Reference</title>
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<body>
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<div id="top"><!-- do not remove this div, it is closed by doxygen! -->
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<div id="titlearea">
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<table cellspacing="0" cellpadding="0">
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<tbody>
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<tr style="height: 56px;">
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<td id="projectalign" style="padding-left: 0.5em;">
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<div id="projectname">NCBI C++ ToolKit
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</div>
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</td>
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</tr>
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</tbody>
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</table>
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/* @license magnet:?xt=urn:btih:cf05388f2679ee054f2beb29a391d25f4e673ac3&dn=gpl-2.0.txt GPL-v2 */
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$(function() {
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initMenu('',true,true,'/toolkit/','Search');
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});
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/* @license-end */</script>
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<div id="main-nav"></div>
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</div><!-- top -->
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<div class="header">
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<div class="summary">
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<a href="#nested-classes">Classes</a> |
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<a href="#pub-types">Public Types</a> |
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<a href="#pub-methods">Public Member Functions</a> |
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<a href="#pub-static-methods">Static Public Member Functions</a> |
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<a href="#pro-methods">Protected Member Functions</a> |
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<a href="#pri-types">Private Types</a> |
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<a href="#pri-methods">Private Member Functions</a> |
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<a href="#pri-attribs">Private Attributes</a> |
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<a href="classCDense__seg-members.html">List of all members</a> </div>
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<div class="headertitle">
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<div class="title">CDense_seg Class Reference</div> </div>
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</div><!--header-->
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<div class="contents">
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<p>
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<a class="el" href = "https://www.ncbi.nlm.nih.gov/toolkitbookgh/?term=CDense_seg">Search Toolkit Book for <i>CDense_seg</i></a>
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</p>
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<p><code>#include <<a class="el" href="Dense__seg_8hpp_source.html">objects/seqalign/Dense_seg.hpp</a>></code></p>
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<div id="dynsection-0" onclick="return toggleVisibility(this)" class="dynheader closed" style="cursor:pointer;">
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<img id="dynsection-0-trigger" src="closed.png" alt="+"/> Inheritance diagram for CDense_seg:</div>
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<div id="dynsection-0-summary" class="dynsummary" style="display:block;">
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</div>
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<div id="dynsection-0-content" class="dyncontent" style="display:none;">
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<div class="center"><img src="img__inherit__graph/classCDense__seg__inherit__graph.png" border="0" usemap="#aCDense__seg_inherit__map" alt="Inheritance graph"/></div>
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<map name="aCDense__seg_inherit__map" id="aCDense__seg_inherit__map">
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<area shape="rect" title=" " alt="" coords="23,304,122,331"/>
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<area shape="rect" href="classCDense__seg__Base.html" title="Dense-seg: the densist packing for sequence alignments only." alt="" coords="5,229,140,256"/>
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||
<area shape="rect" href="classCSerialObject.html" title="Base class for all serializable objects." alt="" coords="21,155,124,181"/>
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<area shape="rect" href="classCObject.html" title="CObject –." alt="" coords="37,80,108,107"/>
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<area shape="rect" href="classCDebugDumpable.html" title=" " alt="" coords="8,5,137,32"/>
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</map>
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<center><span class="legend">[<a href="graph_legend.html">legend</a>]</span></center></div>
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<div id="dynsection-1" onclick="return toggleVisibility(this)" class="dynheader closed" style="cursor:pointer;">
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<img id="dynsection-1-trigger" src="closed.png" alt="+"/> Collaboration diagram for CDense_seg:</div>
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<div id="dynsection-1-summary" class="dynsummary" style="display:block;">
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</div>
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<div id="dynsection-1-content" class="dyncontent" style="display:none;">
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<div class="center"><img src="img__coll__graph/classCDense__seg__coll__graph.png" border="0" usemap="#aCDense__seg_coll__map" alt="Collaboration graph"/></div>
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<map name="aCDense__seg_coll__map" id="aCDense__seg_coll__map">
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<area shape="rect" title=" " alt="" coords="237,361,335,388"/>
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<area shape="rect" href="classCDense__seg__Base.html" title="Dense-seg: the densist packing for sequence alignments only." alt="" coords="160,285,295,312"/>
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<area shape="rect" href="classCSerialObject.html" title="Base class for all serializable objects." alt="" coords="19,184,121,211"/>
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<area shape="rect" href="classCObject.html" title="CObject –." alt="" coords="35,95,105,121"/>
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<area shape="rect" href="classCDebugDumpable.html" title=" " alt="" coords="5,5,135,32"/>
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<area shape="rect" title=" " alt="" coords="146,184,309,211"/>
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<area shape="rect" title=" " alt="" coords="231,95,347,121"/>
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<area shape="rect" title=" " alt="" coords="285,235,407,261"/>
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<area shape="rect" title=" " alt="" coords="269,5,308,32"/>
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</map>
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<center><span class="legend">[<a href="graph_legend.html">legend</a>]</span></center></div>
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<table class="memberdecls">
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<tr class="heading"><td colspan="2"><h2 class="groupheader"><a name="nested-classes"></a>
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Classes</h2></td></tr>
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<tr class="memitem:"><td class="memItemLeft" align="right" valign="top">class  </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg_1_1CReserveHook.html">CReserveHook</a></td></tr>
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<tr class="separator:"><td class="memSeparator" colspan="2"> </td></tr>
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</table><table class="memberdecls">
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<tr class="heading"><td colspan="2"><h2 class="groupheader"><a name="pub-types"></a>
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Public Types</h2></td></tr>
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<tr class="memitem:ad2c2226aa21b1df9e6fe562caf230953"><td class="memItemLeft" align="right" valign="top">typedef vector< <a class="el" href="group__mdb__copy.html#ga10cfb7d4996b006d5675b53b9c7f0fb5">int</a> > </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#ad2c2226aa21b1df9e6fe562caf230953">TWidths</a></td></tr>
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<tr class="separator:ad2c2226aa21b1df9e6fe562caf230953"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="inherit_header pub_types_classCDense__seg__Base"><td colspan="2" onclick="javascript:toggleInherit('pub_types_classCDense__seg__Base')"><img src="closed.png" alt="-"/> Public Types inherited from <a class="el" href="classCDense__seg__Base.html">CDense_seg_Base</a></td></tr>
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<tr class="memitem:gafcc4c13566c8545040a014833d9dacfe inherit pub_types_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top">enum class  </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gafcc4c13566c8545040a014833d9dacfe">E_memberIndex</a> { <br />
|
||
  <a class="el" href="group__dataspec__NCBI__Seqalign.html#ggafcc4c13566c8545040a014833d9dacfead2c4d82f7037e318e1aa6f58d06bd153">e__allMandatory</a> = 0
|
||
, <a class="el" href="group__dataspec__NCBI__Seqalign.html#ggafcc4c13566c8545040a014833d9dacfea45275be29706b9877c6a4ebff91ec126">e_dim</a>
|
||
, <a class="el" href="group__dataspec__NCBI__Seqalign.html#ggafcc4c13566c8545040a014833d9dacfeabe2b18c848569ed743321a0157418455">e_numseg</a>
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||
, <a class="el" href="group__dataspec__NCBI__Seqalign.html#ggafcc4c13566c8545040a014833d9dacfea2629f783bd7405f3bd90d91e4d8f003f">e_ids</a>
|
||
, <br />
|
||
  <a class="el" href="group__dataspec__NCBI__Seqalign.html#ggafcc4c13566c8545040a014833d9dacfea472e1d0625a46908a25dae26fa025271">e_starts</a>
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||
, <a class="el" href="group__dataspec__NCBI__Seqalign.html#ggafcc4c13566c8545040a014833d9dacfea1f3f43af2a113a4d8c48562485835214">e_lens</a>
|
||
, <a class="el" href="group__dataspec__NCBI__Seqalign.html#ggafcc4c13566c8545040a014833d9dacfeac95753a5dd5d84bef7ea1c1f3a05f6d1">e_strands</a>
|
||
, <a class="el" href="group__dataspec__NCBI__Seqalign.html#ggafcc4c13566c8545040a014833d9dacfea70ff524f05f8d90601b39ec2d13c9bf8">e_scores</a>
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||
<br />
|
||
}</td></tr>
|
||
<tr class="separator:gafcc4c13566c8545040a014833d9dacfe inherit pub_types_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
|
||
<tr class="memitem:gaef7c889da11be3e7fc9880239925b1ef inherit pub_types_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top">typedef <a class="el" href="group__mdb__copy.html#ga10cfb7d4996b006d5675b53b9c7f0fb5">int</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gaef7c889da11be3e7fc9880239925b1ef">TDim</a></td></tr>
|
||
<tr class="separator:gaef7c889da11be3e7fc9880239925b1ef inherit pub_types_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:ga062fd9f3065b6f90ac4cea1f6f0aa515 inherit pub_types_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top">typedef <a class="el" href="group__mdb__copy.html#ga10cfb7d4996b006d5675b53b9c7f0fb5">int</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga062fd9f3065b6f90ac4cea1f6f0aa515">TNumseg</a></td></tr>
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||
<tr class="separator:ga062fd9f3065b6f90ac4cea1f6f0aa515 inherit pub_types_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:ga7a3885d8dd36dd6a30c3fbfae8877b59 inherit pub_types_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top">typedef vector< <a class="el" href="classCRef.html">CRef</a>< <a class="el" href="classCSeq__id.html">CSeq_id</a> > > </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga7a3885d8dd36dd6a30c3fbfae8877b59">TIds</a></td></tr>
|
||
<tr class="separator:ga7a3885d8dd36dd6a30c3fbfae8877b59 inherit pub_types_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
|
||
<tr class="memitem:ga681d39669bb9aa7c23854c480683aed8 inherit pub_types_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top">typedef vector< <a class="el" href="group__AppFramework.html#ga92c3033316f74e84da312174e871d85c">TSignedSeqPos</a> > </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga681d39669bb9aa7c23854c480683aed8">TStarts</a></td></tr>
|
||
<tr class="separator:ga681d39669bb9aa7c23854c480683aed8 inherit pub_types_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
|
||
<tr class="memitem:ga4216ea024b4a7e825d1d380077ab1742 inherit pub_types_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top">typedef vector< <a class="el" href="group__AppFramework.html#ga7576cbabf7b457b1a66d0a1d985fe176">TSeqPos</a> > </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga4216ea024b4a7e825d1d380077ab1742">TLens</a></td></tr>
|
||
<tr class="separator:ga4216ea024b4a7e825d1d380077ab1742 inherit pub_types_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
|
||
<tr class="memitem:ga52f63e1c6013fb7ba2229f4c2ac9de86 inherit pub_types_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top">typedef vector< <a class="el" href="group__dataspec__NCBI__Seqloc.html#ga2d4d48fde1d3f62563eac193a3b5afae">ENa_strand</a> > </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga52f63e1c6013fb7ba2229f4c2ac9de86">TStrands</a></td></tr>
|
||
<tr class="separator:ga52f63e1c6013fb7ba2229f4c2ac9de86 inherit pub_types_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
|
||
<tr class="memitem:gad9ff6c3006c078b8ac9d544f23bfbefa inherit pub_types_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top">typedef vector< <a class="el" href="classCRef.html">CRef</a>< <a class="el" href="classCScore.html">CScore</a> > > </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gad9ff6c3006c078b8ac9d544f23bfbefa">TScores</a></td></tr>
|
||
<tr class="separator:gad9ff6c3006c078b8ac9d544f23bfbefa inherit pub_types_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
|
||
<tr class="memitem:gabedbd1bfdb4ebb957aab8d02a855b9b6 inherit pub_types_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top">typedef <a class="el" href="classCSerialObject_1_1CMemberIndex.html">Tparent::CMemberIndex</a>< <a class="el" href="group__dataspec__NCBI__Seqalign.html#gafcc4c13566c8545040a014833d9dacfe">E_memberIndex</a>, 8 > </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gabedbd1bfdb4ebb957aab8d02a855b9b6">TmemberIndex</a></td></tr>
|
||
<tr class="separator:gabedbd1bfdb4ebb957aab8d02a855b9b6 inherit pub_types_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
|
||
<tr class="inherit_header pub_types_classCObject"><td colspan="2" onclick="javascript:toggleInherit('pub_types_classCObject')"><img src="closed.png" alt="-"/> Public Types inherited from <a class="el" href="classCObject.html">CObject</a></td></tr>
|
||
<tr class="memitem:ga3cf5f3ac0aef32c4aab1fa66513588cc inherit pub_types_classCObject"><td class="memItemLeft" align="right" valign="top">enum  </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#ga3cf5f3ac0aef32c4aab1fa66513588cc">EAllocFillMode</a> { <a class="el" href="group__Object.html#gga3cf5f3ac0aef32c4aab1fa66513588cca2b8c59f649cc88eeb7eaeba939e2838d">eAllocFillNone</a> = 1
|
||
, <a class="el" href="group__Object.html#gga3cf5f3ac0aef32c4aab1fa66513588cca336d7ff658b673c2e8fe3aed9b155f04">eAllocFillZero</a>
|
||
, <a class="el" href="group__Object.html#gga3cf5f3ac0aef32c4aab1fa66513588ccab3631bf1c36b77f950d94372290deb76">eAllocFillPattern</a>
|
||
}</td></tr>
|
||
<tr class="memdesc:ga3cf5f3ac0aef32c4aab1fa66513588cc"><td class="mdescLeft"> </td><td class="mdescRight">Control filling of newly allocated memory. <a href="group__Object.html#ga3cf5f3ac0aef32c4aab1fa66513588cc">More...</a><br /></td></tr>
|
||
<tr class="separator:ga3cf5f3ac0aef32c4aab1fa66513588cc inherit pub_types_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
|
||
<tr class="memitem:ga2da943ea997324fcabb60e1a1ed1b71c inherit pub_types_classCObject"><td class="memItemLeft" align="right" valign="top">typedef <a class="el" href="classCObjectCounterLocker.html">CObjectCounterLocker</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#ga2da943ea997324fcabb60e1a1ed1b71c">TLockerType</a></td></tr>
|
||
<tr class="memdesc:ga2da943ea997324fcabb60e1a1ed1b71c inherit pub_types_classCObject"><td class="mdescLeft"> </td><td class="mdescRight">Default locker type for <a class="el" href="classCRef.html" title="CRef –.">CRef</a>. <a href="group__Object.html#ga2da943ea997324fcabb60e1a1ed1b71c">More...</a><br /></td></tr>
|
||
<tr class="separator:ga2da943ea997324fcabb60e1a1ed1b71c inherit pub_types_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
|
||
<tr class="memitem:gad6d6ac3cac6272609b70c101aaaeebf9 inherit pub_types_classCObject"><td class="memItemLeft" align="right" valign="top">typedef atomic< <a class="el" href="group__Portability.html#gacb8f7ba15b8bac46f42c33b22099a6de">Uint8</a> > </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#gad6d6ac3cac6272609b70c101aaaeebf9">TCounter</a></td></tr>
|
||
<tr class="memdesc:gad6d6ac3cac6272609b70c101aaaeebf9 inherit pub_types_classCObject"><td class="mdescLeft"> </td><td class="mdescRight">Counter type is CAtomiCounter. <a href="group__Object.html#gad6d6ac3cac6272609b70c101aaaeebf9">More...</a><br /></td></tr>
|
||
<tr class="separator:gad6d6ac3cac6272609b70c101aaaeebf9 inherit pub_types_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
|
||
<tr class="memitem:ga2e073b6c5b9c29648510bd99ebe00a5c inherit pub_types_classCObject"><td class="memItemLeft" align="right" valign="top">typedef <a class="el" href="group__Portability.html#gacb8f7ba15b8bac46f42c33b22099a6de">Uint8</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#ga2e073b6c5b9c29648510bd99ebe00a5c">TCount</a></td></tr>
|
||
<tr class="memdesc:ga2e073b6c5b9c29648510bd99ebe00a5c inherit pub_types_classCObject"><td class="mdescLeft"> </td><td class="mdescRight">Alias for value type of counter. <a href="group__Object.html#ga2e073b6c5b9c29648510bd99ebe00a5c">More...</a><br /></td></tr>
|
||
<tr class="separator:ga2e073b6c5b9c29648510bd99ebe00a5c inherit pub_types_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
|
||
</table><table class="memberdecls">
|
||
<tr class="heading"><td colspan="2"><h2 class="groupheader"><a name="pub-methods"></a>
|
||
Public Member Functions</h2></td></tr>
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||
<tr class="memitem:a14821a3aedfb39ea2445314a72930768"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#a14821a3aedfb39ea2445314a72930768">CDense_seg</a> (void)</td></tr>
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<tr class="separator:a14821a3aedfb39ea2445314a72930768"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:a13531c2a5c140f2b1d106cdf0e0171b9"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#a13531c2a5c140f2b1d106cdf0e0171b9">~CDense_seg</a> (void)</td></tr>
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<tr class="separator:a13531c2a5c140f2b1d106cdf0e0171b9"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:ade524daba8e067557cdf0157f4e984d0"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#ade524daba8e067557cdf0157f4e984d0">Assign</a> (<a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="classCSerialObject.html">CSerialObject</a> &obj, <a class="el" href="group__GenClassSupport.html#ga059327d78b8d9e780d720f141674f241">ESerialRecursionMode</a> how=<a class="el" href="group__GenClassSupport.html#gga059327d78b8d9e780d720f141674f241abe759672df31c77b76afeea2cd4c0db7">eRecursive</a>)</td></tr>
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<tr class="memdesc:ade524daba8e067557cdf0157f4e984d0"><td class="mdescLeft"> </td><td class="mdescRight">overloaded <a class="el" href="classCDense__seg.html#ade524daba8e067557cdf0157f4e984d0" title="overloaded Assign()">Assign()</a> <a href="classCDense__seg.html#ade524daba8e067557cdf0157f4e984d0">More...</a><br /></td></tr>
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<tr class="memitem:a911e3476096ac09ec84352c4566a95b9"><td class="memItemLeft" align="right" valign="top"><a class="el" href="static__set_8hpp.html#af6a258d8f3ee5206d682d799316314b1">bool</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#a911e3476096ac09ec84352c4566a95b9">IsSetWidths</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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<tr class="memitem:aa33cc636d35b3b3e5e28f9d3f1d2da28"><td class="memItemLeft" align="right" valign="top"><a class="el" href="static__set_8hpp.html#af6a258d8f3ee5206d682d799316314b1">bool</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#aa33cc636d35b3b3e5e28f9d3f1d2da28">CanGetWidths</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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<tr class="memitem:a2661ae30add46469155964025af4a311"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#a2661ae30add46469155964025af4a311">ResetWidths</a> (void)</td></tr>
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<tr class="memitem:adf98ed583ef2a69f60cecd3174d6c397"><td class="memItemLeft" align="right" valign="top"><a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="classCDense__seg.html#ad2c2226aa21b1df9e6fe562caf230953">TWidths</a> & </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#adf98ed583ef2a69f60cecd3174d6c397">GetWidths</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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<tr class="memitem:a6ce3418c7d81df20604c21d7d3cfb0d9"><td class="memItemLeft" align="right" valign="top"><a class="el" href="classCDense__seg.html#ad2c2226aa21b1df9e6fe562caf230953">TWidths</a> & </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#a6ce3418c7d81df20604c21d7d3cfb0d9">SetWidths</a> (void)</td></tr>
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<tr class="memitem:aa4f43563ab853fe520ea1d6ca11db2d2"><td class="memItemLeft" align="right" valign="top"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gaef7c889da11be3e7fc9880239925b1ef">TDim</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#aa4f43563ab853fe520ea1d6ca11db2d2">CheckNumRows</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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<tr class="memitem:a73e0f3670c55588e70b9691a785801a8"><td class="memItemLeft" align="right" valign="top"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga062fd9f3065b6f90ac4cea1f6f0aa515">TNumseg</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#a73e0f3670c55588e70b9691a785801a8">CheckNumSegs</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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<tr class="memitem:ad4dc1577445721c5ce2584d2ef0572ed"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#ad4dc1577445721c5ce2584d2ef0572ed">Validate</a> (<a class="el" href="static__set_8hpp.html#af6a258d8f3ee5206d682d799316314b1">bool</a> full_test=<a class="el" href="ftds14_2freetds_2freetds_2bool_8h.html#a65e9886d74aaee76545e83dd09011727">false</a>) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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<tr class="memitem:ad3a50b06f4d1628ee7d02070e36f9cd5"><td class="memItemLeft" align="right" valign="top"><a class="el" href="classCRange.html">CRange</a>< <a class="el" href="group__AppFramework.html#ga7576cbabf7b457b1a66d0a1d985fe176">TSeqPos</a> > </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#ad3a50b06f4d1628ee7d02070e36f9cd5">GetSeqRange</a> (<a class="el" href="group__dataspec__NCBI__Seqalign.html#gaef7c889da11be3e7fc9880239925b1ef">TDim</a> <a class="el" href="string__bind_8c.html#a2715889d5feef62a0535c302cf093382">row</a>) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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<tr class="memitem:a8416e4feb21aa52d101240e9e93c20ba"><td class="memItemLeft" align="right" valign="top"><a class="el" href="group__AppFramework.html#ga7576cbabf7b457b1a66d0a1d985fe176">TSeqPos</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#a8416e4feb21aa52d101240e9e93c20ba">GetSeqStart</a> (<a class="el" href="group__dataspec__NCBI__Seqalign.html#gaef7c889da11be3e7fc9880239925b1ef">TDim</a> <a class="el" href="string__bind_8c.html#a2715889d5feef62a0535c302cf093382">row</a>) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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<tr class="memitem:a4c7f4d2c490d58dd24087a77fadad637"><td class="memItemLeft" align="right" valign="top"><a class="el" href="group__AppFramework.html#ga7576cbabf7b457b1a66d0a1d985fe176">TSeqPos</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#a4c7f4d2c490d58dd24087a77fadad637">GetSeqStop</a> (<a class="el" href="group__dataspec__NCBI__Seqalign.html#gaef7c889da11be3e7fc9880239925b1ef">TDim</a> <a class="el" href="string__bind_8c.html#a2715889d5feef62a0535c302cf093382">row</a>) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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<tr class="memitem:a0f429c637acc3382b407f1efd81b5800"><td class="memItemLeft" align="right" valign="top"><a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="classCSeq__id.html">CSeq_id</a> & </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#a0f429c637acc3382b407f1efd81b5800">GetSeq_id</a> (<a class="el" href="group__dataspec__NCBI__Seqalign.html#gaef7c889da11be3e7fc9880239925b1ef">TDim</a> <a class="el" href="string__bind_8c.html#a2715889d5feef62a0535c302cf093382">row</a>) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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<tr class="memitem:a2373b6815d5f802154fb2a47cbce17c2"><td class="memItemLeft" align="right" valign="top"><a class="el" href="group__dataspec__NCBI__Seqloc.html#ga2d4d48fde1d3f62563eac193a3b5afae">ENa_strand</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#a2373b6815d5f802154fb2a47cbce17c2">GetSeqStrand</a> (<a class="el" href="group__dataspec__NCBI__Seqalign.html#gaef7c889da11be3e7fc9880239925b1ef">TDim</a> <a class="el" href="string__bind_8c.html#a2715889d5feef62a0535c302cf093382">row</a>) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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<tr class="memitem:a5829a26c56c5563ec722acd438bb56bc"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#a5829a26c56c5563ec722acd438bb56bc">Reverse</a> (void)</td></tr>
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<tr class="memdesc:a5829a26c56c5563ec722acd438bb56bc"><td class="mdescLeft"> </td><td class="mdescRight">Reverse the segments' orientation. <a href="classCDense__seg.html#a5829a26c56c5563ec722acd438bb56bc">More...</a><br /></td></tr>
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<tr class="separator:a5829a26c56c5563ec722acd438bb56bc"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:a837001c1c9b68daf9f1b1439b9183c45"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#a837001c1c9b68daf9f1b1439b9183c45">SwapRows</a> (<a class="el" href="group__dataspec__NCBI__Seqalign.html#gaef7c889da11be3e7fc9880239925b1ef">TDim</a> row1, <a class="el" href="group__dataspec__NCBI__Seqalign.html#gaef7c889da11be3e7fc9880239925b1ef">TDim</a> row2)</td></tr>
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<tr class="memdesc:a837001c1c9b68daf9f1b1439b9183c45"><td class="mdescLeft"> </td><td class="mdescRight">Swap two rows (changing *order*, not content) <a href="classCDense__seg.html#a837001c1c9b68daf9f1b1439b9183c45">More...</a><br /></td></tr>
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<tr class="separator:a837001c1c9b68daf9f1b1439b9183c45"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:abb2e576cc29012b618b88f11848018af"><td class="memItemLeft" align="right" valign="top"><a class="el" href="classCRef.html">CRef</a>< <a class="el" href="classCDense__seg.html">CDense_seg</a> > </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#abb2e576cc29012b618b88f11848018af">FillUnaligned</a> () <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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<tr class="memdesc:abb2e576cc29012b618b88f11848018af"><td class="mdescLeft"> </td><td class="mdescRight">Create a new dense-seg with added all unaligned pieces (implicit inserts), if any, between segments. <a href="classCDense__seg.html#abb2e576cc29012b618b88f11848018af">More...</a><br /></td></tr>
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<tr class="separator:abb2e576cc29012b618b88f11848018af"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:a93b847688e1f262744d2c7398389aa16"><td class="memItemLeft" align="right" valign="top"><a class="el" href="classCRef.html">CRef</a>< <a class="el" href="classCDense__seg.html">CDense_seg</a> > </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#a93b847688e1f262744d2c7398389aa16">ExtractSlice</a> (<a class="el" href="group__dataspec__NCBI__Seqalign.html#gaef7c889da11be3e7fc9880239925b1ef">TDim</a> <a class="el" href="string__bind_8c.html#a2715889d5feef62a0535c302cf093382">row</a>, <a class="el" href="group__AppFramework.html#ga7576cbabf7b457b1a66d0a1d985fe176">TSeqPos</a> from, <a class="el" href="group__AppFramework.html#ga7576cbabf7b457b1a66d0a1d985fe176">TSeqPos</a> to) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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<tr class="memdesc:a93b847688e1f262744d2c7398389aa16"><td class="mdescLeft"> </td><td class="mdescRight">Extract a slice of the alignment that includes the specified range. <a href="classCDense__seg.html#a93b847688e1f262744d2c7398389aa16">More...</a><br /></td></tr>
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<tr class="separator:a93b847688e1f262744d2c7398389aa16"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:a0aafeb368d6486774e29f2a04dd41484"><td class="memItemLeft" align="right" valign="top"><a class="el" href="classCRef.html">CRef</a>< <a class="el" href="classCDense__seg.html">CDense_seg</a> > </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#a0aafeb368d6486774e29f2a04dd41484">ExtractRows</a> (<a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> vector< <a class="el" href="group__dataspec__NCBI__Seqalign.html#gaef7c889da11be3e7fc9880239925b1ef">TDim</a> > &rows) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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<tr class="memdesc:a0aafeb368d6486774e29f2a04dd41484"><td class="mdescLeft"> </td><td class="mdescRight">Extract specified rows of the alignment, in specified order. <a href="classCDense__seg.html#a0aafeb368d6486774e29f2a04dd41484">More...</a><br /></td></tr>
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<tr class="separator:a0aafeb368d6486774e29f2a04dd41484"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:ac4facd4273942a5ab56af92b11515915"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#ac4facd4273942a5ab56af92b11515915">Compact</a> ()</td></tr>
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<tr class="memdesc:ac4facd4273942a5ab56af92b11515915"><td class="mdescLeft"> </td><td class="mdescRight">Join adjacent mergeable segments to create a more compact alignment. <a href="classCDense__seg.html#ac4facd4273942a5ab56af92b11515915">More...</a><br /></td></tr>
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<tr class="separator:ac4facd4273942a5ab56af92b11515915"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:a8cf11361681f781cee015d7a7345b40f"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#a8cf11361681f781cee015d7a7345b40f">OrderAdjacentGaps</a> ()</td></tr>
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<tr class="memdesc:a8cf11361681f781cee015d7a7345b40f"><td class="mdescLeft"> </td><td class="mdescRight">Order adjacent gaps, so that the side with sequence is in row-decending order. <a href="classCDense__seg.html#a8cf11361681f781cee015d7a7345b40f">More...</a><br /></td></tr>
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<tr class="separator:a8cf11361681f781cee015d7a7345b40f"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:a6c12d2bae223f1bcfd8524b9bcb2ecc2"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#a6c12d2bae223f1bcfd8524b9bcb2ecc2">RemovePureGapSegs</a> ()</td></tr>
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<tr class="memdesc:a6c12d2bae223f1bcfd8524b9bcb2ecc2"><td class="mdescLeft"> </td><td class="mdescRight">Remove any segments in which every row has a gap (these can arise when ExtractRows is used) <a href="classCDense__seg.html#a6c12d2bae223f1bcfd8524b9bcb2ecc2">More...</a><br /></td></tr>
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<tr class="separator:a6c12d2bae223f1bcfd8524b9bcb2ecc2"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:a0077c0fbc2f4553f37c2f7fb00df6965"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#a0077c0fbc2f4553f37c2f7fb00df6965">TrimEndGaps</a> ()</td></tr>
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<tr class="memdesc:a0077c0fbc2f4553f37c2f7fb00df6965"><td class="mdescLeft"> </td><td class="mdescRight">Trim leading/training gaps if possible. <a href="classCDense__seg.html#a0077c0fbc2f4553f37c2f7fb00df6965">More...</a><br /></td></tr>
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<tr class="separator:a0077c0fbc2f4553f37c2f7fb00df6965"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:a6b70349cf778d4ce13f79f477ce7dbc3"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#a6b70349cf778d4ce13f79f477ce7dbc3">OffsetRow</a> (<a class="el" href="group__dataspec__NCBI__Seqalign.html#gaef7c889da11be3e7fc9880239925b1ef">TDim</a> <a class="el" href="string__bind_8c.html#a2715889d5feef62a0535c302cf093382">row</a>, <a class="el" href="group__AppFramework.html#ga92c3033316f74e84da312174e871d85c">TSignedSeqPos</a> <a class="el" href="url__tooltip__handler_8cpp.html#af1a7c6ddf735b32939485fddbaec4e75">offset</a>)</td></tr>
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<tr class="memdesc:a6b70349cf778d4ce13f79f477ce7dbc3"><td class="mdescLeft"> </td><td class="mdescRight">Offset row's coords. <a href="classCDense__seg.html#a6b70349cf778d4ce13f79f477ce7dbc3">More...</a><br /></td></tr>
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<tr class="memitem:ad65e2b519061d8981550b49b01e7fa3c"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#ad65e2b519061d8981550b49b01e7fa3c">RemapToLoc</a> (<a class="el" href="group__dataspec__NCBI__Seqalign.html#gaef7c889da11be3e7fc9880239925b1ef">TDim</a> <a class="el" href="string__bind_8c.html#a2715889d5feef62a0535c302cf093382">row</a>, <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="classCSeq__loc.html">CSeq_loc</a> &loc, <a class="el" href="static__set_8hpp.html#af6a258d8f3ee5206d682d799316314b1">bool</a> ignore_strand=<a class="el" href="ftds14_2freetds_2freetds_2bool_8h.html#a65e9886d74aaee76545e83dd09011727">false</a>)</td></tr>
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<tr class="separator:ad65e2b519061d8981550b49b01e7fa3c"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:a8e65f2a059938b9bc0999bd1ef0d18eb"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#a8e65f2a059938b9bc0999bd1ef0d18eb">FromTranscript</a> (<a class="el" href="group__AppFramework.html#ga7576cbabf7b457b1a66d0a1d985fe176">TSeqPos</a> query_start, <a class="el" href="group__dataspec__NCBI__Seqloc.html#ga2d4d48fde1d3f62563eac193a3b5afae">ENa_strand</a> query_strand, <a class="el" href="group__AppFramework.html#ga7576cbabf7b457b1a66d0a1d985fe176">TSeqPos</a> subj_start, <a class="el" href="group__dataspec__NCBI__Seqloc.html#ga2d4d48fde1d3f62563eac193a3b5afae">ENa_strand</a> subj_strand, <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="group__CGIBase.html#ga338951b7e7607b65262fb051e7804d91">string</a> &transcript)</td></tr>
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<tr class="memdesc:a8e65f2a059938b9bc0999bd1ef0d18eb"><td class="mdescLeft"> </td><td class="mdescRight">Initialize from pairwise alignment transcript (a string representation produced by <a class="el" href="classCNWAligner.html">CNWAligner</a>) <a href="classCDense__seg.html#a8e65f2a059938b9bc0999bd1ef0d18eb">More...</a><br /></td></tr>
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<tr class="separator:a8e65f2a059938b9bc0999bd1ef0d18eb"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:a350a99f781b71bf0416d86d0b384eed0"><td class="memItemLeft" align="right" valign="top"><a class="el" href="classCRef.html">CRef</a>< <a class="el" href="classCSeq__interval.html">CSeq_interval</a> > </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#a350a99f781b71bf0416d86d0b384eed0">CreateRowSeq_interval</a> (<a class="el" href="group__dataspec__NCBI__Seqalign.html#gaef7c889da11be3e7fc9880239925b1ef">TDim</a> <a class="el" href="string__bind_8c.html#a2715889d5feef62a0535c302cf093382">row</a>) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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<tr class="separator:a350a99f781b71bf0416d86d0b384eed0"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="inherit_header pub_methods_classCDense__seg__Base"><td colspan="2" onclick="javascript:toggleInherit('pub_methods_classCDense__seg__Base')"><img src="closed.png" alt="-"/> Public Member Functions inherited from <a class="el" href="classCDense__seg__Base.html">CDense_seg_Base</a></td></tr>
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<tr class="memitem:ga0841ffae5524659215e2d2bab2fa463e inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga0841ffae5524659215e2d2bab2fa463e">CDense_seg_Base</a> (void)</td></tr>
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<tr class="separator:ga0841ffae5524659215e2d2bab2fa463e inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:gacb6f7dfede1ae27dd24cb8f2ea1fcc03 inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top">virtual </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gacb6f7dfede1ae27dd24cb8f2ea1fcc03">~CDense_seg_Base</a> (void)</td></tr>
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<tr class="separator:gacb6f7dfede1ae27dd24cb8f2ea1fcc03 inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:gae5baae4da56c7986b04936f452ba8ad4 inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gae5baae4da56c7986b04936f452ba8ad4">DECLARE_INTERNAL_TYPE_INFO</a> ()</td></tr>
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<tr class="separator:gae5baae4da56c7986b04936f452ba8ad4 inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:ga21ee73210f286fe79d4a057cfdeeb46f inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top"><a class="el" href="static__set_8hpp.html#af6a258d8f3ee5206d682d799316314b1">bool</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga21ee73210f286fe79d4a057cfdeeb46f">IsSetDim</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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<tr class="memdesc:ga21ee73210f286fe79d4a057cfdeeb46f inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight">dimensionality <a class="el" href="structCheck.html">Check</a> if a value has been assigned to Dim data member. <a href="group__dataspec__NCBI__Seqalign.html#ga21ee73210f286fe79d4a057cfdeeb46f">More...</a><br /></td></tr>
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<tr class="separator:ga21ee73210f286fe79d4a057cfdeeb46f inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:ga016a8d5eb3d8319b76b85a737998b79b inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top"><a class="el" href="static__set_8hpp.html#af6a258d8f3ee5206d682d799316314b1">bool</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga016a8d5eb3d8319b76b85a737998b79b">CanGetDim</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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<tr class="memdesc:ga016a8d5eb3d8319b76b85a737998b79b inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight"><a class="el" href="structCheck.html">Check</a> if it is safe to call GetDim method. <a href="group__dataspec__NCBI__Seqalign.html#ga016a8d5eb3d8319b76b85a737998b79b">More...</a><br /></td></tr>
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||
<tr class="separator:ga016a8d5eb3d8319b76b85a737998b79b inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:gaf27c0a0115f767e575da7201b645dedd inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gaf27c0a0115f767e575da7201b645dedd">ResetDim</a> (void)</td></tr>
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<tr class="memdesc:gaf27c0a0115f767e575da7201b645dedd inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight">Reset Dim data member. <a href="group__dataspec__NCBI__Seqalign.html#gaf27c0a0115f767e575da7201b645dedd">More...</a><br /></td></tr>
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<tr class="separator:gaf27c0a0115f767e575da7201b645dedd inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:gafbd77543d55ed0fd17d9c9d5edd5d351 inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gafbd77543d55ed0fd17d9c9d5edd5d351">SetDefaultDim</a> (void)</td></tr>
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<tr class="memdesc:gafbd77543d55ed0fd17d9c9d5edd5d351 inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight">Assign default value to Dim data member. <a href="group__dataspec__NCBI__Seqalign.html#gafbd77543d55ed0fd17d9c9d5edd5d351">More...</a><br /></td></tr>
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<tr class="separator:gafbd77543d55ed0fd17d9c9d5edd5d351 inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:ga871ee54404b619af0b4ec7dae87e073d inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gaef7c889da11be3e7fc9880239925b1ef">TDim</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga871ee54404b619af0b4ec7dae87e073d">GetDim</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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<tr class="memdesc:ga871ee54404b619af0b4ec7dae87e073d inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight">Get the Dim member data. <a href="group__dataspec__NCBI__Seqalign.html#ga871ee54404b619af0b4ec7dae87e073d">More...</a><br /></td></tr>
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<tr class="separator:ga871ee54404b619af0b4ec7dae87e073d inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:ga70779d396aa691ecd2265a81ccc99cbe inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga70779d396aa691ecd2265a81ccc99cbe">SetDim</a> (<a class="el" href="group__dataspec__NCBI__Seqalign.html#gaef7c889da11be3e7fc9880239925b1ef">TDim</a> <a class="el" href="ftds14_2freetds_2tds_2config_8c.html#ac6de4458dc999b0ad86cfcbaaf37222a">value</a>)</td></tr>
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<tr class="memdesc:ga70779d396aa691ecd2265a81ccc99cbe inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight">Assign a value to Dim data member. <a href="group__dataspec__NCBI__Seqalign.html#ga70779d396aa691ecd2265a81ccc99cbe">More...</a><br /></td></tr>
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<tr class="separator:ga70779d396aa691ecd2265a81ccc99cbe inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:ga53ccbf2e648ddc837b6255635aa53949 inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gaef7c889da11be3e7fc9880239925b1ef">TDim</a> & </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga53ccbf2e648ddc837b6255635aa53949">SetDim</a> (void)</td></tr>
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<tr class="memdesc:ga53ccbf2e648ddc837b6255635aa53949 inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight">Assign a value to Dim data member. <a href="group__dataspec__NCBI__Seqalign.html#ga53ccbf2e648ddc837b6255635aa53949">More...</a><br /></td></tr>
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<tr class="separator:ga53ccbf2e648ddc837b6255635aa53949 inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:ga2a1f32e521ba7d08b5622890f4437b7e inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top"><a class="el" href="static__set_8hpp.html#af6a258d8f3ee5206d682d799316314b1">bool</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga2a1f32e521ba7d08b5622890f4437b7e">IsSetNumseg</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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<tr class="memdesc:ga2a1f32e521ba7d08b5622890f4437b7e inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight">number of segments here <a class="el" href="structCheck.html">Check</a> if a value has been assigned to Numseg data member. <a href="group__dataspec__NCBI__Seqalign.html#ga2a1f32e521ba7d08b5622890f4437b7e">More...</a><br /></td></tr>
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<tr class="separator:ga2a1f32e521ba7d08b5622890f4437b7e inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:ga5ed5613dec3ec4074cfd2c730375d28f inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top"><a class="el" href="static__set_8hpp.html#af6a258d8f3ee5206d682d799316314b1">bool</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga5ed5613dec3ec4074cfd2c730375d28f">CanGetNumseg</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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<tr class="memdesc:ga5ed5613dec3ec4074cfd2c730375d28f inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight"><a class="el" href="structCheck.html">Check</a> if it is safe to call GetNumseg method. <a href="group__dataspec__NCBI__Seqalign.html#ga5ed5613dec3ec4074cfd2c730375d28f">More...</a><br /></td></tr>
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<tr class="separator:ga5ed5613dec3ec4074cfd2c730375d28f inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:ga97ea777297406bff577a308740b812ab inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga97ea777297406bff577a308740b812ab">ResetNumseg</a> (void)</td></tr>
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<tr class="memdesc:ga97ea777297406bff577a308740b812ab inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight">Reset Numseg data member. <a href="group__dataspec__NCBI__Seqalign.html#ga97ea777297406bff577a308740b812ab">More...</a><br /></td></tr>
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<tr class="separator:ga97ea777297406bff577a308740b812ab inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:gadb727c64f18636d709e11f0d71906ee4 inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga062fd9f3065b6f90ac4cea1f6f0aa515">TNumseg</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gadb727c64f18636d709e11f0d71906ee4">GetNumseg</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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<tr class="memdesc:gadb727c64f18636d709e11f0d71906ee4 inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight">Get the Numseg member data. <a href="group__dataspec__NCBI__Seqalign.html#gadb727c64f18636d709e11f0d71906ee4">More...</a><br /></td></tr>
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<tr class="separator:gadb727c64f18636d709e11f0d71906ee4 inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:gabf9ff41f0f1376886c18cb99d31e813d inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gabf9ff41f0f1376886c18cb99d31e813d">SetNumseg</a> (<a class="el" href="group__dataspec__NCBI__Seqalign.html#ga062fd9f3065b6f90ac4cea1f6f0aa515">TNumseg</a> <a class="el" href="ftds14_2freetds_2tds_2config_8c.html#ac6de4458dc999b0ad86cfcbaaf37222a">value</a>)</td></tr>
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<tr class="memdesc:gabf9ff41f0f1376886c18cb99d31e813d inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight">Assign a value to Numseg data member. <a href="group__dataspec__NCBI__Seqalign.html#gabf9ff41f0f1376886c18cb99d31e813d">More...</a><br /></td></tr>
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<tr class="separator:gabf9ff41f0f1376886c18cb99d31e813d inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:ga8b8ce5c776d57bcd2c185df3afbecd52 inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga062fd9f3065b6f90ac4cea1f6f0aa515">TNumseg</a> & </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga8b8ce5c776d57bcd2c185df3afbecd52">SetNumseg</a> (void)</td></tr>
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||
<tr class="memdesc:ga8b8ce5c776d57bcd2c185df3afbecd52 inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight">Assign a value to Numseg data member. <a href="group__dataspec__NCBI__Seqalign.html#ga8b8ce5c776d57bcd2c185df3afbecd52">More...</a><br /></td></tr>
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<tr class="separator:ga8b8ce5c776d57bcd2c185df3afbecd52 inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:gafd0daec0ef3605b789bdcabd7c4b5fdf inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top"><a class="el" href="static__set_8hpp.html#af6a258d8f3ee5206d682d799316314b1">bool</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gafd0daec0ef3605b789bdcabd7c4b5fdf">IsSetIds</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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<tr class="memdesc:gafd0daec0ef3605b789bdcabd7c4b5fdf inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight">sequences in order <a class="el" href="structCheck.html">Check</a> if a value has been assigned to Ids data member. <a href="group__dataspec__NCBI__Seqalign.html#gafd0daec0ef3605b789bdcabd7c4b5fdf">More...</a><br /></td></tr>
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<tr class="separator:gafd0daec0ef3605b789bdcabd7c4b5fdf inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:ga71d820aad6f2dfe6ce6bb548dc475be9 inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top"><a class="el" href="static__set_8hpp.html#af6a258d8f3ee5206d682d799316314b1">bool</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga71d820aad6f2dfe6ce6bb548dc475be9">CanGetIds</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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<tr class="memdesc:ga71d820aad6f2dfe6ce6bb548dc475be9 inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight"><a class="el" href="structCheck.html">Check</a> if it is safe to call GetIds method. <a href="group__dataspec__NCBI__Seqalign.html#ga71d820aad6f2dfe6ce6bb548dc475be9">More...</a><br /></td></tr>
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<tr class="separator:ga71d820aad6f2dfe6ce6bb548dc475be9 inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:ga9c8f7dc6c6483207e6146f0b4c03dd0f inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga9c8f7dc6c6483207e6146f0b4c03dd0f">ResetIds</a> (void)</td></tr>
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<tr class="memdesc:ga9c8f7dc6c6483207e6146f0b4c03dd0f inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight">Reset Ids data member. <a href="group__dataspec__NCBI__Seqalign.html#ga9c8f7dc6c6483207e6146f0b4c03dd0f">More...</a><br /></td></tr>
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<tr class="separator:ga9c8f7dc6c6483207e6146f0b4c03dd0f inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:gac2dd48633a7bd921fa79d10d138faf01 inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top"><a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="group__dataspec__NCBI__Seqalign.html#ga7a3885d8dd36dd6a30c3fbfae8877b59">TIds</a> & </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gac2dd48633a7bd921fa79d10d138faf01">GetIds</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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||
<tr class="memdesc:gac2dd48633a7bd921fa79d10d138faf01 inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight">Get the Ids member data. <a href="group__dataspec__NCBI__Seqalign.html#gac2dd48633a7bd921fa79d10d138faf01">More...</a><br /></td></tr>
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||
<tr class="separator:gac2dd48633a7bd921fa79d10d138faf01 inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:gae0d920d1495aac682088cd59353281d9 inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga7a3885d8dd36dd6a30c3fbfae8877b59">TIds</a> & </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gae0d920d1495aac682088cd59353281d9">SetIds</a> (void)</td></tr>
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<tr class="memdesc:gae0d920d1495aac682088cd59353281d9 inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight">Assign a value to Ids data member. <a href="group__dataspec__NCBI__Seqalign.html#gae0d920d1495aac682088cd59353281d9">More...</a><br /></td></tr>
|
||
<tr class="separator:gae0d920d1495aac682088cd59353281d9 inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:gab462fea068276747802f9b401d2a47da inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top"><a class="el" href="static__set_8hpp.html#af6a258d8f3ee5206d682d799316314b1">bool</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gab462fea068276747802f9b401d2a47da">IsSetStarts</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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<tr class="memdesc:gab462fea068276747802f9b401d2a47da inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight">start OFFSETS in ids order within segs <a class="el" href="structCheck.html">Check</a> if a value has been assigned to Starts data member. <a href="group__dataspec__NCBI__Seqalign.html#gab462fea068276747802f9b401d2a47da">More...</a><br /></td></tr>
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<tr class="separator:gab462fea068276747802f9b401d2a47da inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:gadacaf92fbb8f5b9bf60cf12b4b26ab25 inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top"><a class="el" href="static__set_8hpp.html#af6a258d8f3ee5206d682d799316314b1">bool</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gadacaf92fbb8f5b9bf60cf12b4b26ab25">CanGetStarts</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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<tr class="memdesc:gadacaf92fbb8f5b9bf60cf12b4b26ab25 inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight"><a class="el" href="structCheck.html">Check</a> if it is safe to call GetStarts method. <a href="group__dataspec__NCBI__Seqalign.html#gadacaf92fbb8f5b9bf60cf12b4b26ab25">More...</a><br /></td></tr>
|
||
<tr class="separator:gadacaf92fbb8f5b9bf60cf12b4b26ab25 inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:ga1c0a756aa507c99bed069768b73ffb10 inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga1c0a756aa507c99bed069768b73ffb10">ResetStarts</a> (void)</td></tr>
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||
<tr class="memdesc:ga1c0a756aa507c99bed069768b73ffb10 inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight">Reset Starts data member. <a href="group__dataspec__NCBI__Seqalign.html#ga1c0a756aa507c99bed069768b73ffb10">More...</a><br /></td></tr>
|
||
<tr class="separator:ga1c0a756aa507c99bed069768b73ffb10 inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:ga430c89287cd42915f93e48663ca5b010 inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top"><a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="group__dataspec__NCBI__Seqalign.html#ga681d39669bb9aa7c23854c480683aed8">TStarts</a> & </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga430c89287cd42915f93e48663ca5b010">GetStarts</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
|
||
<tr class="memdesc:ga430c89287cd42915f93e48663ca5b010 inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight">Get the Starts member data. <a href="group__dataspec__NCBI__Seqalign.html#ga430c89287cd42915f93e48663ca5b010">More...</a><br /></td></tr>
|
||
<tr class="separator:ga430c89287cd42915f93e48663ca5b010 inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:ga96e7c31c5ee636b704794ca336e5bada inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga681d39669bb9aa7c23854c480683aed8">TStarts</a> & </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga96e7c31c5ee636b704794ca336e5bada">SetStarts</a> (void)</td></tr>
|
||
<tr class="memdesc:ga96e7c31c5ee636b704794ca336e5bada inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight">Assign a value to Starts data member. <a href="group__dataspec__NCBI__Seqalign.html#ga96e7c31c5ee636b704794ca336e5bada">More...</a><br /></td></tr>
|
||
<tr class="separator:ga96e7c31c5ee636b704794ca336e5bada inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:ga0915483c42501a8d7682c557a5d04458 inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top"><a class="el" href="static__set_8hpp.html#af6a258d8f3ee5206d682d799316314b1">bool</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga0915483c42501a8d7682c557a5d04458">IsSetLens</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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||
<tr class="memdesc:ga0915483c42501a8d7682c557a5d04458 inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight">lengths in ids order within segs <a class="el" href="structCheck.html">Check</a> if a value has been assigned to Lens data member. <a href="group__dataspec__NCBI__Seqalign.html#ga0915483c42501a8d7682c557a5d04458">More...</a><br /></td></tr>
|
||
<tr class="separator:ga0915483c42501a8d7682c557a5d04458 inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:gaf9bc260d6a8b7be96ca151d0215f979b inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top"><a class="el" href="static__set_8hpp.html#af6a258d8f3ee5206d682d799316314b1">bool</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gaf9bc260d6a8b7be96ca151d0215f979b">CanGetLens</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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||
<tr class="memdesc:gaf9bc260d6a8b7be96ca151d0215f979b inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight"><a class="el" href="structCheck.html">Check</a> if it is safe to call GetLens method. <a href="group__dataspec__NCBI__Seqalign.html#gaf9bc260d6a8b7be96ca151d0215f979b">More...</a><br /></td></tr>
|
||
<tr class="separator:gaf9bc260d6a8b7be96ca151d0215f979b inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:ga800402682c26854ea327d5411d0d58f3 inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga800402682c26854ea327d5411d0d58f3">ResetLens</a> (void)</td></tr>
|
||
<tr class="memdesc:ga800402682c26854ea327d5411d0d58f3 inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight">Reset Lens data member. <a href="group__dataspec__NCBI__Seqalign.html#ga800402682c26854ea327d5411d0d58f3">More...</a><br /></td></tr>
|
||
<tr class="separator:ga800402682c26854ea327d5411d0d58f3 inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
|
||
<tr class="memitem:ga5411b4604b6d71b0dfe3d2c4b31e6a47 inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top"><a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="group__dataspec__NCBI__Seqalign.html#ga4216ea024b4a7e825d1d380077ab1742">TLens</a> & </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga5411b4604b6d71b0dfe3d2c4b31e6a47">GetLens</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
|
||
<tr class="memdesc:ga5411b4604b6d71b0dfe3d2c4b31e6a47 inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight">Get the Lens member data. <a href="group__dataspec__NCBI__Seqalign.html#ga5411b4604b6d71b0dfe3d2c4b31e6a47">More...</a><br /></td></tr>
|
||
<tr class="separator:ga5411b4604b6d71b0dfe3d2c4b31e6a47 inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:ga234388d321b8957fa5c1c2a45e8f816c inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga4216ea024b4a7e825d1d380077ab1742">TLens</a> & </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga234388d321b8957fa5c1c2a45e8f816c">SetLens</a> (void)</td></tr>
|
||
<tr class="memdesc:ga234388d321b8957fa5c1c2a45e8f816c inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight">Assign a value to Lens data member. <a href="group__dataspec__NCBI__Seqalign.html#ga234388d321b8957fa5c1c2a45e8f816c">More...</a><br /></td></tr>
|
||
<tr class="separator:ga234388d321b8957fa5c1c2a45e8f816c inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:ga3ac9d5c81e3cee60df4ad8790dbdd08d inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top"><a class="el" href="static__set_8hpp.html#af6a258d8f3ee5206d682d799316314b1">bool</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga3ac9d5c81e3cee60df4ad8790dbdd08d">IsSetStrands</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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||
<tr class="memdesc:ga3ac9d5c81e3cee60df4ad8790dbdd08d inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight"><a class="el" href="structCheck.html">Check</a> if a value has been assigned to Strands data member. <a href="group__dataspec__NCBI__Seqalign.html#ga3ac9d5c81e3cee60df4ad8790dbdd08d">More...</a><br /></td></tr>
|
||
<tr class="separator:ga3ac9d5c81e3cee60df4ad8790dbdd08d inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:gac5bab3c730cffe39977368bd749a1cf7 inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top"><a class="el" href="static__set_8hpp.html#af6a258d8f3ee5206d682d799316314b1">bool</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gac5bab3c730cffe39977368bd749a1cf7">CanGetStrands</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
|
||
<tr class="memdesc:gac5bab3c730cffe39977368bd749a1cf7 inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight"><a class="el" href="structCheck.html">Check</a> if it is safe to call GetStrands method. <a href="group__dataspec__NCBI__Seqalign.html#gac5bab3c730cffe39977368bd749a1cf7">More...</a><br /></td></tr>
|
||
<tr class="separator:gac5bab3c730cffe39977368bd749a1cf7 inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:ga640ceb6c9ea288bd58189bcfb922d4f7 inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga640ceb6c9ea288bd58189bcfb922d4f7">ResetStrands</a> (void)</td></tr>
|
||
<tr class="memdesc:ga640ceb6c9ea288bd58189bcfb922d4f7 inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight">Reset Strands data member. <a href="group__dataspec__NCBI__Seqalign.html#ga640ceb6c9ea288bd58189bcfb922d4f7">More...</a><br /></td></tr>
|
||
<tr class="separator:ga640ceb6c9ea288bd58189bcfb922d4f7 inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:gaf39fe082fd66e148db85f47fd6cb9fc6 inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top"><a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="group__dataspec__NCBI__Seqalign.html#ga52f63e1c6013fb7ba2229f4c2ac9de86">TStrands</a> & </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gaf39fe082fd66e148db85f47fd6cb9fc6">GetStrands</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
|
||
<tr class="memdesc:gaf39fe082fd66e148db85f47fd6cb9fc6 inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight">Get the Strands member data. <a href="group__dataspec__NCBI__Seqalign.html#gaf39fe082fd66e148db85f47fd6cb9fc6">More...</a><br /></td></tr>
|
||
<tr class="separator:gaf39fe082fd66e148db85f47fd6cb9fc6 inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:ga9bb12b2f5d7380c38b31810f45388af9 inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga52f63e1c6013fb7ba2229f4c2ac9de86">TStrands</a> & </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga9bb12b2f5d7380c38b31810f45388af9">SetStrands</a> (void)</td></tr>
|
||
<tr class="memdesc:ga9bb12b2f5d7380c38b31810f45388af9 inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight">Assign a value to Strands data member. <a href="group__dataspec__NCBI__Seqalign.html#ga9bb12b2f5d7380c38b31810f45388af9">More...</a><br /></td></tr>
|
||
<tr class="separator:ga9bb12b2f5d7380c38b31810f45388af9 inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
|
||
<tr class="memitem:ga48925bc4b2899e419fdeefc35b50bdb3 inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top"><a class="el" href="static__set_8hpp.html#af6a258d8f3ee5206d682d799316314b1">bool</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga48925bc4b2899e419fdeefc35b50bdb3">IsSetScores</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
|
||
<tr class="memdesc:ga48925bc4b2899e419fdeefc35b50bdb3 inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight">score for each seg <a class="el" href="structCheck.html">Check</a> if a value has been assigned to Scores data member. <a href="group__dataspec__NCBI__Seqalign.html#ga48925bc4b2899e419fdeefc35b50bdb3">More...</a><br /></td></tr>
|
||
<tr class="separator:ga48925bc4b2899e419fdeefc35b50bdb3 inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:ga19a60a99c75371f5fcbcf961d7739c83 inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top"><a class="el" href="static__set_8hpp.html#af6a258d8f3ee5206d682d799316314b1">bool</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga19a60a99c75371f5fcbcf961d7739c83">CanGetScores</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
|
||
<tr class="memdesc:ga19a60a99c75371f5fcbcf961d7739c83 inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight"><a class="el" href="structCheck.html">Check</a> if it is safe to call GetScores method. <a href="group__dataspec__NCBI__Seqalign.html#ga19a60a99c75371f5fcbcf961d7739c83">More...</a><br /></td></tr>
|
||
<tr class="separator:ga19a60a99c75371f5fcbcf961d7739c83 inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
|
||
<tr class="memitem:ga053ff0feacd66b8e20b4ba2daa59eff6 inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga053ff0feacd66b8e20b4ba2daa59eff6">ResetScores</a> (void)</td></tr>
|
||
<tr class="memdesc:ga053ff0feacd66b8e20b4ba2daa59eff6 inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight">Reset Scores data member. <a href="group__dataspec__NCBI__Seqalign.html#ga053ff0feacd66b8e20b4ba2daa59eff6">More...</a><br /></td></tr>
|
||
<tr class="separator:ga053ff0feacd66b8e20b4ba2daa59eff6 inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:gae90026d3a16737387f9d69d07f9f2be5 inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top"><a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="group__dataspec__NCBI__Seqalign.html#gad9ff6c3006c078b8ac9d544f23bfbefa">TScores</a> & </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gae90026d3a16737387f9d69d07f9f2be5">GetScores</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
|
||
<tr class="memdesc:gae90026d3a16737387f9d69d07f9f2be5 inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight">Get the Scores member data. <a href="group__dataspec__NCBI__Seqalign.html#gae90026d3a16737387f9d69d07f9f2be5">More...</a><br /></td></tr>
|
||
<tr class="separator:gae90026d3a16737387f9d69d07f9f2be5 inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:ga5b57c3a45a88a24061f533ba21c51753 inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gad9ff6c3006c078b8ac9d544f23bfbefa">TScores</a> & </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga5b57c3a45a88a24061f533ba21c51753">SetScores</a> (void)</td></tr>
|
||
<tr class="memdesc:ga5b57c3a45a88a24061f533ba21c51753 inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight">Assign a value to Scores data member. <a href="group__dataspec__NCBI__Seqalign.html#ga5b57c3a45a88a24061f533ba21c51753">More...</a><br /></td></tr>
|
||
<tr class="separator:ga5b57c3a45a88a24061f533ba21c51753 inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:gaca63fe02114d947cb6712286e26a2a23 inherit pub_methods_classCDense__seg__Base"><td class="memItemLeft" align="right" valign="top">virtual void </td><td class="memItemRight" valign="bottom"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gaca63fe02114d947cb6712286e26a2a23">Reset</a> (void)</td></tr>
|
||
<tr class="memdesc:gaca63fe02114d947cb6712286e26a2a23 inherit pub_methods_classCDense__seg__Base"><td class="mdescLeft"> </td><td class="mdescRight">Reset the whole object. <a href="group__dataspec__NCBI__Seqalign.html#gaca63fe02114d947cb6712286e26a2a23">More...</a><br /></td></tr>
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||
<tr class="separator:gaca63fe02114d947cb6712286e26a2a23 inherit pub_methods_classCDense__seg__Base"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="inherit_header pub_methods_classCSerialObject"><td colspan="2" onclick="javascript:toggleInherit('pub_methods_classCSerialObject')"><img src="closed.png" alt="-"/> Public Member Functions inherited from <a class="el" href="classCSerialObject.html">CSerialObject</a></td></tr>
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||
<tr class="memitem:ga8575b1015c4a4f3336b6e1c0a4324b71 inherit pub_methods_classCSerialObject"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__GenClassSupport.html#ga8575b1015c4a4f3336b6e1c0a4324b71">CSerialObject</a> (void)</td></tr>
|
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<tr class="separator:ga8575b1015c4a4f3336b6e1c0a4324b71 inherit pub_methods_classCSerialObject"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:gaf278b96157abad20b5d944fb83d32fb1 inherit pub_methods_classCSerialObject"><td class="memItemLeft" align="right" valign="top">virtual </td><td class="memItemRight" valign="bottom"><a class="el" href="group__GenClassSupport.html#gaf278b96157abad20b5d944fb83d32fb1">~CSerialObject</a> (void)</td></tr>
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<tr class="separator:gaf278b96157abad20b5d944fb83d32fb1 inherit pub_methods_classCSerialObject"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:gacb5d8a2e6878e58aeaeaf342081f0b7f inherit pub_methods_classCSerialObject"><td class="memItemLeft" align="right" valign="top">virtual <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="classCTypeInfo.html">CTypeInfo</a> * </td><td class="memItemRight" valign="bottom"><a class="el" href="group__GenClassSupport.html#gacb5d8a2e6878e58aeaeaf342081f0b7f">GetThisTypeInfo</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> =0</td></tr>
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||
<tr class="separator:gacb5d8a2e6878e58aeaeaf342081f0b7f inherit pub_methods_classCSerialObject"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:gae694abd95a4753598c398540f3467d99 inherit pub_methods_classCSerialObject"><td class="memItemLeft" align="right" valign="top">virtual <a class="el" href="static__set_8hpp.html#af6a258d8f3ee5206d682d799316314b1">bool</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__GenClassSupport.html#gae694abd95a4753598c398540f3467d99">Equals</a> (<a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="classCSerialObject.html">CSerialObject</a> &object, <a class="el" href="group__GenClassSupport.html#ga059327d78b8d9e780d720f141674f241">ESerialRecursionMode</a> how=<a class="el" href="group__GenClassSupport.html#gga059327d78b8d9e780d720f141674f241abe759672df31c77b76afeea2cd4c0db7">eRecursive</a>) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
|
||
<tr class="memdesc:gae694abd95a4753598c398540f3467d99 inherit pub_methods_classCSerialObject"><td class="mdescLeft"> </td><td class="mdescRight"><a class="el" href="structCheck.html">Check</a> if both objects contain the same values. <a href="group__GenClassSupport.html#gae694abd95a4753598c398540f3467d99">More...</a><br /></td></tr>
|
||
<tr class="separator:gae694abd95a4753598c398540f3467d99 inherit pub_methods_classCSerialObject"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:ga0daf4906b8f2e6382118c4a018491761 inherit pub_methods_classCSerialObject"><td class="memItemLeft" align="right" valign="top">virtual void </td><td class="memItemRight" valign="bottom"><a class="el" href="group__GenClassSupport.html#ga0daf4906b8f2e6382118c4a018491761">DebugDump</a> (<a class="el" href="classCDebugDumpContext.html">CDebugDumpContext</a> ddc, unsigned <a class="el" href="group__mdb__copy.html#ga10cfb7d4996b006d5675b53b9c7f0fb5">int</a> <a class="el" href="ct__nlmzip__trees_8cpp.html#a431c74c4b26732a3a7de689109eb6b65">depth</a>) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
|
||
<tr class="memdesc:ga0daf4906b8f2e6382118c4a018491761 inherit pub_methods_classCSerialObject"><td class="mdescLeft"> </td><td class="mdescRight">Define method for dumping debug information. <a href="group__GenClassSupport.html#ga0daf4906b8f2e6382118c4a018491761">More...</a><br /></td></tr>
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||
<tr class="separator:ga0daf4906b8f2e6382118c4a018491761 inherit pub_methods_classCSerialObject"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:ga7382b4cd30306d9444f85abd912ff61e inherit pub_methods_classCSerialObject"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="group__GenClassSupport.html#ga7382b4cd30306d9444f85abd912ff61e">ThrowUnassigned</a> (<a class="el" href="group__GenClassSupport.html#ga4045c609bd35431331d0055309404111">TMemberIndex</a> index) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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||
<tr class="separator:ga7382b4cd30306d9444f85abd912ff61e inherit pub_methods_classCSerialObject"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:gab5506012856f3627d88368a24e1eb254 inherit pub_methods_classCSerialObject"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="group__GenClassSupport.html#gab5506012856f3627d88368a24e1eb254">ThrowUnassigned</a> (<a class="el" href="group__GenClassSupport.html#ga4045c609bd35431331d0055309404111">TMemberIndex</a> index, <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> char *<a class="el" href="dbapi__sample__base_8hpp.html#a8334353b550f5c3b6d2ea57d716ab2e2">file_name</a>, <a class="el" href="group__mdb__copy.html#ga10cfb7d4996b006d5675b53b9c7f0fb5">int</a> file_line) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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||
<tr class="separator:gab5506012856f3627d88368a24e1eb254 inherit pub_methods_classCSerialObject"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:ga937551d0a9c61c7ff537ac19ec37904d inherit pub_methods_classCSerialObject"><td class="memItemLeft" align="right" valign="top"><a class="el" href="static__set_8hpp.html#af6a258d8f3ee5206d682d799316314b1">bool</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__GenClassSupport.html#ga937551d0a9c61c7ff537ac19ec37904d">HasNamespaceName</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
|
||
<tr class="memdesc:ga937551d0a9c61c7ff537ac19ec37904d inherit pub_methods_classCSerialObject"><td class="mdescLeft"> </td><td class="mdescRight"><a class="el" href="structCheck.html">Check</a> if object data type has namespace name. <a href="group__GenClassSupport.html#ga937551d0a9c61c7ff537ac19ec37904d">More...</a><br /></td></tr>
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||
<tr class="separator:ga937551d0a9c61c7ff537ac19ec37904d inherit pub_methods_classCSerialObject"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:ga901688404844d3c9be43320e1d51c485 inherit pub_methods_classCSerialObject"><td class="memItemLeft" align="right" valign="top"><a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="group__CGIBase.html#ga338951b7e7607b65262fb051e7804d91">string</a> & </td><td class="memItemRight" valign="bottom"><a class="el" href="group__GenClassSupport.html#ga901688404844d3c9be43320e1d51c485">GetNamespaceName</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
|
||
<tr class="memdesc:ga901688404844d3c9be43320e1d51c485 inherit pub_methods_classCSerialObject"><td class="mdescLeft"> </td><td class="mdescRight">Get namespace name. <a href="group__GenClassSupport.html#ga901688404844d3c9be43320e1d51c485">More...</a><br /></td></tr>
|
||
<tr class="separator:ga901688404844d3c9be43320e1d51c485 inherit pub_methods_classCSerialObject"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:gacfc7e87713da36496323f5477db80219 inherit pub_methods_classCSerialObject"><td class="memItemLeft" align="right" valign="top"><a class="el" href="static__set_8hpp.html#af6a258d8f3ee5206d682d799316314b1">bool</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__GenClassSupport.html#gacfc7e87713da36496323f5477db80219">HasNamespacePrefix</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
|
||
<tr class="memdesc:gacfc7e87713da36496323f5477db80219 inherit pub_methods_classCSerialObject"><td class="mdescLeft"> </td><td class="mdescRight"><a class="el" href="structCheck.html">Check</a> if data type has namespace prefix. <a href="group__GenClassSupport.html#gacfc7e87713da36496323f5477db80219">More...</a><br /></td></tr>
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||
<tr class="separator:gacfc7e87713da36496323f5477db80219 inherit pub_methods_classCSerialObject"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:gae8fa62abf96f3ed3cec903dce6a6a33a inherit pub_methods_classCSerialObject"><td class="memItemLeft" align="right" valign="top"><a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="group__CGIBase.html#ga338951b7e7607b65262fb051e7804d91">string</a> & </td><td class="memItemRight" valign="bottom"><a class="el" href="group__GenClassSupport.html#gae8fa62abf96f3ed3cec903dce6a6a33a">GetNamespacePrefix</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
|
||
<tr class="memdesc:gae8fa62abf96f3ed3cec903dce6a6a33a inherit pub_methods_classCSerialObject"><td class="mdescLeft"> </td><td class="mdescRight">Get namespace prefix. <a href="group__GenClassSupport.html#gae8fa62abf96f3ed3cec903dce6a6a33a">More...</a><br /></td></tr>
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||
<tr class="separator:gae8fa62abf96f3ed3cec903dce6a6a33a inherit pub_methods_classCSerialObject"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="inherit_header pub_methods_classCObject"><td colspan="2" onclick="javascript:toggleInherit('pub_methods_classCObject')"><img src="closed.png" alt="-"/> Public Member Functions inherited from <a class="el" href="classCObject.html">CObject</a></td></tr>
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||
<tr class="memitem:gae38a8715a230c7ed588993c0206d8cb4 inherit pub_methods_classCObject"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#gae38a8715a230c7ed588993c0206d8cb4">CObject</a> (void)</td></tr>
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||
<tr class="memdesc:gae38a8715a230c7ed588993c0206d8cb4 inherit pub_methods_classCObject"><td class="mdescLeft"> </td><td class="mdescRight">Constructor. <a href="group__Object.html#gae38a8715a230c7ed588993c0206d8cb4">More...</a><br /></td></tr>
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||
<tr class="separator:gae38a8715a230c7ed588993c0206d8cb4 inherit pub_methods_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:gae89833a29aad16e7cb252314d2e7f4ab inherit pub_methods_classCObject"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#gae89833a29aad16e7cb252314d2e7f4ab">CObject</a> (<a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="classCObject.html">CObject</a> &src)</td></tr>
|
||
<tr class="memdesc:gae89833a29aad16e7cb252314d2e7f4ab inherit pub_methods_classCObject"><td class="mdescLeft"> </td><td class="mdescRight">Copy constructor. <a href="group__Object.html#gae89833a29aad16e7cb252314d2e7f4ab">More...</a><br /></td></tr>
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||
<tr class="separator:gae89833a29aad16e7cb252314d2e7f4ab inherit pub_methods_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:ga5125d96ff932bcd471a734fd174b2022 inherit pub_methods_classCObject"><td class="memItemLeft" align="right" valign="top">virtual </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#ga5125d96ff932bcd471a734fd174b2022">~CObject</a> (void)</td></tr>
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||
<tr class="memdesc:ga5125d96ff932bcd471a734fd174b2022 inherit pub_methods_classCObject"><td class="mdescLeft"> </td><td class="mdescRight">Destructor. <a href="group__Object.html#ga5125d96ff932bcd471a734fd174b2022">More...</a><br /></td></tr>
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||
<tr class="separator:ga5125d96ff932bcd471a734fd174b2022 inherit pub_methods_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:gab2090742c0465c4229f6e0b57c2de566 inherit pub_methods_classCObject"><td class="memItemLeft" align="right" valign="top"><a class="el" href="classCObject.html">CObject</a> & </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#gab2090742c0465c4229f6e0b57c2de566">operator=</a> (<a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="classCObject.html">CObject</a> &src) <a class="el" href="group__Exception.html#ga8b97bb3687e603604470b18da8e56e91">THROWS_NONE</a></td></tr>
|
||
<tr class="memdesc:gab2090742c0465c4229f6e0b57c2de566 inherit pub_methods_classCObject"><td class="mdescLeft"> </td><td class="mdescRight">Assignment operator. <a href="group__Object.html#gab2090742c0465c4229f6e0b57c2de566">More...</a><br /></td></tr>
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||
<tr class="separator:gab2090742c0465c4229f6e0b57c2de566 inherit pub_methods_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:gaad370ec0ee157f6082b9845338cb2809 inherit pub_methods_classCObject"><td class="memItemLeft" align="right" valign="top"><a class="el" href="static__set_8hpp.html#af6a258d8f3ee5206d682d799316314b1">bool</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#gaad370ec0ee157f6082b9845338cb2809">CanBeDeleted</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="group__Exception.html#ga8b97bb3687e603604470b18da8e56e91">THROWS_NONE</a></td></tr>
|
||
<tr class="memdesc:gaad370ec0ee157f6082b9845338cb2809 inherit pub_methods_classCObject"><td class="mdescLeft"> </td><td class="mdescRight"><a class="el" href="structCheck.html">Check</a> if object can be deleted. <a href="group__Object.html#gaad370ec0ee157f6082b9845338cb2809">More...</a><br /></td></tr>
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||
<tr class="separator:gaad370ec0ee157f6082b9845338cb2809 inherit pub_methods_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:gaf5cddacd7194af14e759f3d89325679b inherit pub_methods_classCObject"><td class="memItemLeft" align="right" valign="top"><a class="el" href="static__set_8hpp.html#af6a258d8f3ee5206d682d799316314b1">bool</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#gaf5cddacd7194af14e759f3d89325679b">IsAllocatedInPool</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="group__Exception.html#ga8b97bb3687e603604470b18da8e56e91">THROWS_NONE</a></td></tr>
|
||
<tr class="memdesc:gaf5cddacd7194af14e759f3d89325679b inherit pub_methods_classCObject"><td class="mdescLeft"> </td><td class="mdescRight"><a class="el" href="structCheck.html">Check</a> if object is allocated in memory pool (not system heap) <a href="group__Object.html#gaf5cddacd7194af14e759f3d89325679b">More...</a><br /></td></tr>
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||
<tr class="separator:gaf5cddacd7194af14e759f3d89325679b inherit pub_methods_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:ga9f9bbe6d075c90238a43585999d303d9 inherit pub_methods_classCObject"><td class="memItemLeft" align="right" valign="top"><a class="el" href="static__set_8hpp.html#af6a258d8f3ee5206d682d799316314b1">bool</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#ga9f9bbe6d075c90238a43585999d303d9">Referenced</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="group__Exception.html#ga8b97bb3687e603604470b18da8e56e91">THROWS_NONE</a></td></tr>
|
||
<tr class="memdesc:ga9f9bbe6d075c90238a43585999d303d9 inherit pub_methods_classCObject"><td class="mdescLeft"> </td><td class="mdescRight"><a class="el" href="structCheck.html">Check</a> if object is referenced. <a href="group__Object.html#ga9f9bbe6d075c90238a43585999d303d9">More...</a><br /></td></tr>
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||
<tr class="separator:ga9f9bbe6d075c90238a43585999d303d9 inherit pub_methods_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
|
||
<tr class="memitem:gaac3600b16f957a209f857aff7f79bf91 inherit pub_methods_classCObject"><td class="memItemLeft" align="right" valign="top"><a class="el" href="static__set_8hpp.html#af6a258d8f3ee5206d682d799316314b1">bool</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#gaac3600b16f957a209f857aff7f79bf91">ReferencedOnlyOnce</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="group__Exception.html#ga8b97bb3687e603604470b18da8e56e91">THROWS_NONE</a></td></tr>
|
||
<tr class="memdesc:gaac3600b16f957a209f857aff7f79bf91 inherit pub_methods_classCObject"><td class="mdescLeft"> </td><td class="mdescRight"><a class="el" href="structCheck.html">Check</a> if object is referenced only once. <a href="group__Object.html#gaac3600b16f957a209f857aff7f79bf91">More...</a><br /></td></tr>
|
||
<tr class="separator:gaac3600b16f957a209f857aff7f79bf91 inherit pub_methods_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
|
||
<tr class="memitem:ga7161c8a13b08e627baa2ea0d75d679dc inherit pub_methods_classCObject"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#ga7161c8a13b08e627baa2ea0d75d679dc">AddReference</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
|
||
<tr class="memdesc:ga7161c8a13b08e627baa2ea0d75d679dc inherit pub_methods_classCObject"><td class="mdescLeft"> </td><td class="mdescRight">Add reference to object. <a href="group__Object.html#ga7161c8a13b08e627baa2ea0d75d679dc">More...</a><br /></td></tr>
|
||
<tr class="separator:ga7161c8a13b08e627baa2ea0d75d679dc inherit pub_methods_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
|
||
<tr class="memitem:ga827e9544b3a20642fcb736160f203bab inherit pub_methods_classCObject"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#ga827e9544b3a20642fcb736160f203bab">RemoveReference</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
|
||
<tr class="memdesc:ga827e9544b3a20642fcb736160f203bab inherit pub_methods_classCObject"><td class="mdescLeft"> </td><td class="mdescRight">Remove reference to object. <a href="group__Object.html#ga827e9544b3a20642fcb736160f203bab">More...</a><br /></td></tr>
|
||
<tr class="separator:ga827e9544b3a20642fcb736160f203bab inherit pub_methods_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
|
||
<tr class="memitem:ga5f08a74874b48c0e4a3d8e54343d4c90 inherit pub_methods_classCObject"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#ga5f08a74874b48c0e4a3d8e54343d4c90">ReleaseReference</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
|
||
<tr class="memdesc:ga5f08a74874b48c0e4a3d8e54343d4c90 inherit pub_methods_classCObject"><td class="mdescLeft"> </td><td class="mdescRight">Remove reference without deleting object. <a href="group__Object.html#ga5f08a74874b48c0e4a3d8e54343d4c90">More...</a><br /></td></tr>
|
||
<tr class="separator:ga5f08a74874b48c0e4a3d8e54343d4c90 inherit pub_methods_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
|
||
<tr class="memitem:ga52d3bc7d4f90411a190da81d7fd8d931 inherit pub_methods_classCObject"><td class="memItemLeft" align="right" valign="top">virtual void </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#ga52d3bc7d4f90411a190da81d7fd8d931">DoNotDeleteThisObject</a> (void)</td></tr>
|
||
<tr class="memdesc:ga52d3bc7d4f90411a190da81d7fd8d931 inherit pub_methods_classCObject"><td class="mdescLeft"> </td><td class="mdescRight">Mark this object as not allocated in heap – do not delete this object. <a href="group__Object.html#ga52d3bc7d4f90411a190da81d7fd8d931">More...</a><br /></td></tr>
|
||
<tr class="separator:ga52d3bc7d4f90411a190da81d7fd8d931 inherit pub_methods_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
|
||
<tr class="memitem:ga35fd00918a29221f823c8e8d5d67fee2 inherit pub_methods_classCObject"><td class="memItemLeft" align="right" valign="top">virtual void </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#ga35fd00918a29221f823c8e8d5d67fee2">DoDeleteThisObject</a> (void)</td></tr>
|
||
<tr class="memdesc:ga35fd00918a29221f823c8e8d5d67fee2 inherit pub_methods_classCObject"><td class="mdescLeft"> </td><td class="mdescRight">Mark this object as allocated in heap – object can be deleted. <a href="group__Object.html#ga35fd00918a29221f823c8e8d5d67fee2">More...</a><br /></td></tr>
|
||
<tr class="separator:ga35fd00918a29221f823c8e8d5d67fee2 inherit pub_methods_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:ga9a8f931b70ac3730f364ad6078580424 inherit pub_methods_classCObject"><td class="memItemLeft" align="right" valign="top">void * </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#ga9a8f931b70ac3730f364ad6078580424">operator new</a> (size_t <a class="el" href="introspection__html_8hpp.html#ac27165163e7cf75ff278799c2eedf09a">size</a>)</td></tr>
|
||
<tr class="memdesc:ga9a8f931b70ac3730f364ad6078580424 inherit pub_methods_classCObject"><td class="mdescLeft"> </td><td class="mdescRight">Define new operator for memory allocation. <a href="group__Object.html#ga9a8f931b70ac3730f364ad6078580424">More...</a><br /></td></tr>
|
||
<tr class="separator:ga9a8f931b70ac3730f364ad6078580424 inherit pub_methods_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
|
||
<tr class="memitem:gabb964e1c3096b1efe242a3c63bbb8120 inherit pub_methods_classCObject"><td class="memItemLeft" align="right" valign="top">void * </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#gabb964e1c3096b1efe242a3c63bbb8120">operator new[]</a> (size_t <a class="el" href="introspection__html_8hpp.html#ac27165163e7cf75ff278799c2eedf09a">size</a>)</td></tr>
|
||
<tr class="memdesc:gabb964e1c3096b1efe242a3c63bbb8120 inherit pub_methods_classCObject"><td class="mdescLeft"> </td><td class="mdescRight">Define new[] operator for 'array' memory allocation. <a href="group__Object.html#gabb964e1c3096b1efe242a3c63bbb8120">More...</a><br /></td></tr>
|
||
<tr class="separator:gabb964e1c3096b1efe242a3c63bbb8120 inherit pub_methods_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:gafde2770a20ee356b8a60cc81cca42366 inherit pub_methods_classCObject"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#gafde2770a20ee356b8a60cc81cca42366">operator delete</a> (void *ptr)</td></tr>
|
||
<tr class="memdesc:gafde2770a20ee356b8a60cc81cca42366 inherit pub_methods_classCObject"><td class="mdescLeft"> </td><td class="mdescRight">Define delete operator for memory deallocation. <a href="group__Object.html#gafde2770a20ee356b8a60cc81cca42366">More...</a><br /></td></tr>
|
||
<tr class="separator:gafde2770a20ee356b8a60cc81cca42366 inherit pub_methods_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:ga5ea75357098dc7fea6cca8fb81620856 inherit pub_methods_classCObject"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#ga5ea75357098dc7fea6cca8fb81620856">operator delete[]</a> (void *ptr)</td></tr>
|
||
<tr class="memdesc:ga5ea75357098dc7fea6cca8fb81620856 inherit pub_methods_classCObject"><td class="mdescLeft"> </td><td class="mdescRight">Define delete[] operator for memory deallocation. <a href="group__Object.html#ga5ea75357098dc7fea6cca8fb81620856">More...</a><br /></td></tr>
|
||
<tr class="separator:ga5ea75357098dc7fea6cca8fb81620856 inherit pub_methods_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:ga37f436bf6f5a3d46b7363e104fccedf3 inherit pub_methods_classCObject"><td class="memItemLeft" align="right" valign="top">void * </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#ga37f436bf6f5a3d46b7363e104fccedf3">operator new</a> (size_t <a class="el" href="introspection__html_8hpp.html#ac27165163e7cf75ff278799c2eedf09a">size</a>, void *place)</td></tr>
|
||
<tr class="memdesc:ga37f436bf6f5a3d46b7363e104fccedf3 inherit pub_methods_classCObject"><td class="mdescLeft"> </td><td class="mdescRight">Define new operator. <a href="group__Object.html#ga37f436bf6f5a3d46b7363e104fccedf3">More...</a><br /></td></tr>
|
||
<tr class="separator:ga37f436bf6f5a3d46b7363e104fccedf3 inherit pub_methods_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:ga54499c2fd0381ad8505bc120d5da84ff inherit pub_methods_classCObject"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#ga54499c2fd0381ad8505bc120d5da84ff">operator delete</a> (void *ptr, void *place)</td></tr>
|
||
<tr class="memdesc:ga54499c2fd0381ad8505bc120d5da84ff inherit pub_methods_classCObject"><td class="mdescLeft"> </td><td class="mdescRight">Define delete operator. <a href="group__Object.html#ga54499c2fd0381ad8505bc120d5da84ff">More...</a><br /></td></tr>
|
||
<tr class="separator:ga54499c2fd0381ad8505bc120d5da84ff inherit pub_methods_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:ga981e7384172734070f47a3a9b53d0c3c inherit pub_methods_classCObject"><td class="memItemLeft" align="right" valign="top">void * </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#ga981e7384172734070f47a3a9b53d0c3c">operator new</a> (size_t <a class="el" href="introspection__html_8hpp.html#ac27165163e7cf75ff278799c2eedf09a">size</a>, <a class="el" href="classCObjectMemoryPool.html">CObjectMemoryPool</a> *place)</td></tr>
|
||
<tr class="memdesc:ga981e7384172734070f47a3a9b53d0c3c inherit pub_methods_classCObject"><td class="mdescLeft"> </td><td class="mdescRight">Define new operator using memory pool. <a href="group__Object.html#ga981e7384172734070f47a3a9b53d0c3c">More...</a><br /></td></tr>
|
||
<tr class="separator:ga981e7384172734070f47a3a9b53d0c3c inherit pub_methods_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:ga5c29219485b863e8a846c3076d321c7e inherit pub_methods_classCObject"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#ga5c29219485b863e8a846c3076d321c7e">operator delete</a> (void *ptr, <a class="el" href="classCObjectMemoryPool.html">CObjectMemoryPool</a> *place)</td></tr>
|
||
<tr class="memdesc:ga5c29219485b863e8a846c3076d321c7e inherit pub_methods_classCObject"><td class="mdescLeft"> </td><td class="mdescRight">Define delete operator. <a href="group__Object.html#ga5c29219485b863e8a846c3076d321c7e">More...</a><br /></td></tr>
|
||
<tr class="separator:ga5c29219485b863e8a846c3076d321c7e inherit pub_methods_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
|
||
<tr class="inherit_header pub_methods_classCDebugDumpable"><td colspan="2" onclick="javascript:toggleInherit('pub_methods_classCDebugDumpable')"><img src="closed.png" alt="-"/> Public Member Functions inherited from <a class="el" href="classCDebugDumpable.html">CDebugDumpable</a></td></tr>
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||
<tr class="memitem:ae8723856215191ef748f19ff73e8ba4e inherit pub_methods_classCDebugDumpable"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDebugDumpable.html#ae8723856215191ef748f19ff73e8ba4e">CDebugDumpable</a> (void)</td></tr>
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||
<tr class="separator:ae8723856215191ef748f19ff73e8ba4e inherit pub_methods_classCDebugDumpable"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:acdeaaedfabb4cc4a64108dbb854f4b51 inherit pub_methods_classCDebugDumpable"><td class="memItemLeft" align="right" valign="top">virtual </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDebugDumpable.html#acdeaaedfabb4cc4a64108dbb854f4b51">~CDebugDumpable</a> (void)</td></tr>
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||
<tr class="separator:acdeaaedfabb4cc4a64108dbb854f4b51 inherit pub_methods_classCDebugDumpable"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:a4ff9ec248a38f17b7d8deb3f78318a37 inherit pub_methods_classCDebugDumpable"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDebugDumpable.html#a4ff9ec248a38f17b7d8deb3f78318a37">DebugDumpText</a> (ostream &<a class="el" href="events__unit__test_8cpp.html#ac3c18c078fe416626b6c1dcc3e780245">out</a>, <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="group__CGIBase.html#ga338951b7e7607b65262fb051e7804d91">string</a> &bundle, unsigned <a class="el" href="group__mdb__copy.html#ga10cfb7d4996b006d5675b53b9c7f0fb5">int</a> <a class="el" href="ct__nlmzip__trees_8cpp.html#a431c74c4b26732a3a7de689109eb6b65">depth</a>) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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||
<tr class="separator:a4ff9ec248a38f17b7d8deb3f78318a37 inherit pub_methods_classCDebugDumpable"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:aa0101dfdc0ae0cbd0cb1609c96f96229 inherit pub_methods_classCDebugDumpable"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDebugDumpable.html#aa0101dfdc0ae0cbd0cb1609c96f96229">DebugDumpFormat</a> (<a class="el" href="classCDebugDumpFormatter.html">CDebugDumpFormatter</a> &ddf, <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="group__CGIBase.html#ga338951b7e7607b65262fb051e7804d91">string</a> &bundle, unsigned <a class="el" href="group__mdb__copy.html#ga10cfb7d4996b006d5675b53b9c7f0fb5">int</a> <a class="el" href="ct__nlmzip__trees_8cpp.html#a431c74c4b26732a3a7de689109eb6b65">depth</a>) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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||
<tr class="separator:aa0101dfdc0ae0cbd0cb1609c96f96229 inherit pub_methods_classCDebugDumpable"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:a19047c92521e5f3ad2a14bab26a49b51 inherit pub_methods_classCDebugDumpable"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDebugDumpable.html#a19047c92521e5f3ad2a14bab26a49b51">DumpToConsole</a> (void) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
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||
<tr class="separator:a19047c92521e5f3ad2a14bab26a49b51 inherit pub_methods_classCDebugDumpable"><td class="memSeparator" colspan="2"> </td></tr>
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</table><table class="memberdecls">
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<tr class="heading"><td colspan="2"><h2 class="groupheader"><a name="pub-static-methods"></a>
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||
Static Public Member Functions</h2></td></tr>
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||
<tr class="memitem:ad968cc4035826dc88f84b9aaedc7e344"><td class="memItemLeft" align="right" valign="top"><a class="el" href="Genetic__code__table_8cpp.html#aa261b98e7b0037f2a9f13cbb4b8539d7">static</a> void </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#ad968cc4035826dc88f84b9aaedc7e344">SetReserveHooks</a> (<a class="el" href="classCObjectIStream.html">CObjectIStream</a> &<a class="el" href="njn__ioutil_8hpp.html#aa029e096c7401a85236905f54d884554">in</a>)</td></tr>
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<tr class="separator:ad968cc4035826dc88f84b9aaedc7e344"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:a5fc48803ffdd5c152fbf0177f9a42a13"><td class="memItemLeft" align="right" valign="top"><a class="el" href="Genetic__code__table_8cpp.html#aa261b98e7b0037f2a9f13cbb4b8539d7">static</a> void </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#a5fc48803ffdd5c152fbf0177f9a42a13">SetGlobalReserveHooks</a> (void)</td></tr>
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<tr class="separator:a5fc48803ffdd5c152fbf0177f9a42a13"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="inherit_header pub_static_methods_classCSerialObject"><td colspan="2" onclick="javascript:toggleInherit('pub_static_methods_classCSerialObject')"><img src="closed.png" alt="-"/> Static Public Member Functions inherited from <a class="el" href="classCSerialObject.html">CSerialObject</a></td></tr>
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<tr class="memitem:gab2a92c7a5b5900317294b85e854db07e inherit pub_static_methods_classCSerialObject"><td class="memItemLeft" align="right" valign="top"><a class="el" href="Genetic__code__table_8cpp.html#aa261b98e7b0037f2a9f13cbb4b8539d7">static</a> void </td><td class="memItemRight" valign="bottom"><a class="el" href="group__GenClassSupport.html#gab2a92c7a5b5900317294b85e854db07e">SetVerifyDataThread</a> (<a class="el" href="group__GenClassSupport.html#ga58e0144d240fc7ad45518d4c3ba735e1">ESerialVerifyData</a> <a class="el" href="ftds14_2freetds_2dblib_2unittests_2t0002_8c.html#a80ddcf418c95fb872f5eeccb9908b4c7">verify</a>)</td></tr>
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||
<tr class="separator:gab2a92c7a5b5900317294b85e854db07e inherit pub_static_methods_classCSerialObject"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:ga2e3bead397d7ec0fffde866cd890267e inherit pub_static_methods_classCSerialObject"><td class="memItemLeft" align="right" valign="top"><a class="el" href="Genetic__code__table_8cpp.html#aa261b98e7b0037f2a9f13cbb4b8539d7">static</a> void </td><td class="memItemRight" valign="bottom"><a class="el" href="group__GenClassSupport.html#ga2e3bead397d7ec0fffde866cd890267e">SetVerifyDataGlobal</a> (<a class="el" href="group__GenClassSupport.html#ga58e0144d240fc7ad45518d4c3ba735e1">ESerialVerifyData</a> <a class="el" href="ftds14_2freetds_2dblib_2unittests_2t0002_8c.html#a80ddcf418c95fb872f5eeccb9908b4c7">verify</a>)</td></tr>
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||
<tr class="separator:ga2e3bead397d7ec0fffde866cd890267e inherit pub_static_methods_classCSerialObject"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:gada3dbb83951d0bed9bde06c6c4ede9e2 inherit pub_static_methods_classCSerialObject"><td class="memItemLeft" align="right" valign="top"><a class="el" href="Genetic__code__table_8cpp.html#aa261b98e7b0037f2a9f13cbb4b8539d7">static</a> <a class="el" href="group__CGIBase.html#ga338951b7e7607b65262fb051e7804d91">string</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__GenClassSupport.html#gada3dbb83951d0bed9bde06c6c4ede9e2">UnassignedString</a> (void)</td></tr>
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||
<tr class="separator:gada3dbb83951d0bed9bde06c6c4ede9e2 inherit pub_static_methods_classCSerialObject"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:ga123d82fb69550b6418ad5d69e752873a inherit pub_static_methods_classCSerialObject"><td class="memItemLeft" align="right" valign="top"><a class="el" href="Genetic__code__table_8cpp.html#aa261b98e7b0037f2a9f13cbb4b8539d7">static</a> <a class="el" href="group__STL.html#ga88e22aab83a29bae20f5354e89b041e3">CStringUTF8</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__GenClassSupport.html#ga123d82fb69550b6418ad5d69e752873a">UnassignedStringUTF8</a> (void)</td></tr>
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||
<tr class="separator:ga123d82fb69550b6418ad5d69e752873a inherit pub_static_methods_classCSerialObject"><td class="memSeparator" colspan="2"> </td></tr>
|
||
<tr class="memitem:ga1d897c6ce0f541df2487600cedd9f40a inherit pub_static_methods_classCSerialObject"><td class="memItemLeft" align="right" valign="top"><a class="el" href="Genetic__code__table_8cpp.html#aa261b98e7b0037f2a9f13cbb4b8539d7">static</a> char </td><td class="memItemRight" valign="bottom"><a class="el" href="group__GenClassSupport.html#ga1d897c6ce0f541df2487600cedd9f40a">UnassignedByte</a> (void)</td></tr>
|
||
<tr class="separator:ga1d897c6ce0f541df2487600cedd9f40a inherit pub_static_methods_classCSerialObject"><td class="memSeparator" colspan="2"> </td></tr>
|
||
<tr class="inherit_header pub_static_methods_classCObject"><td colspan="2" onclick="javascript:toggleInherit('pub_static_methods_classCObject')"><img src="closed.png" alt="-"/> Static Public Member Functions inherited from <a class="el" href="classCObject.html">CObject</a></td></tr>
|
||
<tr class="memitem:ga63f363685df177bedf4a7f4ed7797a07 inherit pub_static_methods_classCObject"><td class="memItemLeft" align="right" valign="top"><a class="el" href="Genetic__code__table_8cpp.html#aa261b98e7b0037f2a9f13cbb4b8539d7">static</a> <a class="el" href="group__WinDLL.html#gab1bd38411cb05b5e6f85c9735a486682">NCBI_XNCBI_EXPORT</a> void </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#ga63f363685df177bedf4a7f4ed7797a07">ThrowNullPointerException</a> (void)</td></tr>
|
||
<tr class="memdesc:ga63f363685df177bedf4a7f4ed7797a07 inherit pub_static_methods_classCObject"><td class="mdescLeft"> </td><td class="mdescRight">Define method to throw null pointer exception. <a href="group__Object.html#ga63f363685df177bedf4a7f4ed7797a07">More...</a><br /></td></tr>
|
||
<tr class="separator:ga63f363685df177bedf4a7f4ed7797a07 inherit pub_static_methods_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
|
||
<tr class="memitem:gae042a181e665dd40945c1c1a7a6bc5d1 inherit pub_static_methods_classCObject"><td class="memItemLeft" align="right" valign="top"><a class="el" href="Genetic__code__table_8cpp.html#aa261b98e7b0037f2a9f13cbb4b8539d7">static</a> <a class="el" href="group__WinDLL.html#gab1bd38411cb05b5e6f85c9735a486682">NCBI_XNCBI_EXPORT</a> void </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#gae042a181e665dd40945c1c1a7a6bc5d1">ThrowNullPointerException</a> (<a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> type_info &<a class="el" href="structtype.html">type</a>)</td></tr>
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||
<tr class="separator:gae042a181e665dd40945c1c1a7a6bc5d1 inherit pub_static_methods_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:ga4b6f1beef2a1f37c68f7f3b1aac471d8 inherit pub_static_methods_classCObject"><td class="memItemLeft" align="right" valign="top"><a class="el" href="Genetic__code__table_8cpp.html#aa261b98e7b0037f2a9f13cbb4b8539d7">static</a> <a class="el" href="group__Object.html#ga3cf5f3ac0aef32c4aab1fa66513588cc">EAllocFillMode</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#ga4b6f1beef2a1f37c68f7f3b1aac471d8">GetAllocFillMode</a> (void)</td></tr>
|
||
<tr class="separator:ga4b6f1beef2a1f37c68f7f3b1aac471d8 inherit pub_static_methods_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
|
||
<tr class="memitem:ga42eceef165a83cc081837a373ab6dd67 inherit pub_static_methods_classCObject"><td class="memItemLeft" align="right" valign="top"><a class="el" href="Genetic__code__table_8cpp.html#aa261b98e7b0037f2a9f13cbb4b8539d7">static</a> void </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#ga42eceef165a83cc081837a373ab6dd67">SetAllocFillMode</a> (<a class="el" href="group__Object.html#ga3cf5f3ac0aef32c4aab1fa66513588cc">EAllocFillMode</a> <a class="el" href="mdb__load_8c.html#a1ea5d0cb93f22f7d0fdf804bd68c3326">mode</a>)</td></tr>
|
||
<tr class="separator:ga42eceef165a83cc081837a373ab6dd67 inherit pub_static_methods_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:ga05dafbb430a19e98affa48e669d694f7 inherit pub_static_methods_classCObject"><td class="memItemLeft" align="right" valign="top"><a class="el" href="Genetic__code__table_8cpp.html#aa261b98e7b0037f2a9f13cbb4b8539d7">static</a> void </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#ga05dafbb430a19e98affa48e669d694f7">SetAllocFillMode</a> (<a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="group__CGIBase.html#ga338951b7e7607b65262fb051e7804d91">string</a> &<a class="el" href="ftds14_2freetds_2tds_2config_8c.html#ac6de4458dc999b0ad86cfcbaaf37222a">value</a>)</td></tr>
|
||
<tr class="memdesc:ga05dafbb430a19e98affa48e669d694f7 inherit pub_static_methods_classCObject"><td class="mdescLeft"> </td><td class="mdescRight">Set mode from configuration parameter value. <a href="group__Object.html#ga05dafbb430a19e98affa48e669d694f7">More...</a><br /></td></tr>
|
||
<tr class="separator:ga05dafbb430a19e98affa48e669d694f7 inherit pub_static_methods_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
|
||
<tr class="inherit_header pub_static_methods_classCDebugDumpable"><td colspan="2" onclick="javascript:toggleInherit('pub_static_methods_classCDebugDumpable')"><img src="closed.png" alt="-"/> Static Public Member Functions inherited from <a class="el" href="classCDebugDumpable.html">CDebugDumpable</a></td></tr>
|
||
<tr class="memitem:ab6ba54280c562230f65733cca0560c83 inherit pub_static_methods_classCDebugDumpable"><td class="memItemLeft" align="right" valign="top"><a class="el" href="Genetic__code__table_8cpp.html#aa261b98e7b0037f2a9f13cbb4b8539d7">static</a> void </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDebugDumpable.html#ab6ba54280c562230f65733cca0560c83">EnableDebugDump</a> (<a class="el" href="static__set_8hpp.html#af6a258d8f3ee5206d682d799316314b1">bool</a> on)</td></tr>
|
||
<tr class="separator:ab6ba54280c562230f65733cca0560c83 inherit pub_static_methods_classCDebugDumpable"><td class="memSeparator" colspan="2"> </td></tr>
|
||
</table><table class="memberdecls">
|
||
<tr class="heading"><td colspan="2"><h2 class="groupheader"><a name="pro-methods"></a>
|
||
Protected Member Functions</h2></td></tr>
|
||
<tr class="memitem:ab40a2fc88ee83da87f5af6f277b82cca"><td class="memItemLeft" align="right" valign="top"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga062fd9f3065b6f90ac4cea1f6f0aa515">TNumseg</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#ab40a2fc88ee83da87f5af6f277b82cca">x_FindSegment</a> (<a class="el" href="group__dataspec__NCBI__Seqalign.html#gaef7c889da11be3e7fc9880239925b1ef">TDim</a> <a class="el" href="string__bind_8c.html#a2715889d5feef62a0535c302cf093382">row</a>, <a class="el" href="group__AppFramework.html#ga92c3033316f74e84da312174e871d85c">TSignedSeqPos</a> pos) <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a></td></tr>
|
||
<tr class="separator:ab40a2fc88ee83da87f5af6f277b82cca"><td class="memSeparator" colspan="2"> </td></tr>
|
||
<tr class="inherit_header pro_methods_classCObject"><td colspan="2" onclick="javascript:toggleInherit('pro_methods_classCObject')"><img src="closed.png" alt="-"/> Protected Member Functions inherited from <a class="el" href="classCObject.html">CObject</a></td></tr>
|
||
<tr class="memitem:ga7b33b6d311860b76f3a8a79fcb7f9938 inherit pro_methods_classCObject"><td class="memItemLeft" align="right" valign="top">virtual void </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#ga7b33b6d311860b76f3a8a79fcb7f9938">DeleteThis</a> (void)</td></tr>
|
||
<tr class="memdesc:ga7b33b6d311860b76f3a8a79fcb7f9938 inherit pro_methods_classCObject"><td class="mdescLeft"> </td><td class="mdescRight">Virtual method "deleting" this object. <a href="group__Object.html#ga7b33b6d311860b76f3a8a79fcb7f9938">More...</a><br /></td></tr>
|
||
<tr class="separator:ga7b33b6d311860b76f3a8a79fcb7f9938 inherit pro_methods_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
|
||
</table><table class="memberdecls">
|
||
<tr class="heading"><td colspan="2"><h2 class="groupheader"><a name="pri-types"></a>
|
||
Private Types</h2></td></tr>
|
||
<tr class="memitem:ad511c76a368f1a780fa7c9558cfdde0a"><td class="memItemLeft" align="right" valign="top">typedef <a class="el" href="classCDense__seg__Base.html">CDense_seg_Base</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#ad511c76a368f1a780fa7c9558cfdde0a">Tparent</a></td></tr>
|
||
<tr class="separator:ad511c76a368f1a780fa7c9558cfdde0a"><td class="memSeparator" colspan="2"> </td></tr>
|
||
</table><table class="memberdecls">
|
||
<tr class="heading"><td colspan="2"><h2 class="groupheader"><a name="pri-methods"></a>
|
||
Private Member Functions</h2></td></tr>
|
||
<tr class="memitem:a9f15e5c306118cd8ca7fefe6cf09d9c3"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#a9f15e5c306118cd8ca7fefe6cf09d9c3">CDense_seg</a> (<a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="classCDense__seg.html">CDense_seg</a> &<a class="el" href="ftds14_2freetds_2tds_2config_8c.html#ac6de4458dc999b0ad86cfcbaaf37222a">value</a>)</td></tr>
|
||
<tr class="separator:a9f15e5c306118cd8ca7fefe6cf09d9c3"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:a07190ad7d97dafd680b14ac8664906f3"><td class="memItemLeft" align="right" valign="top"><a class="el" href="classCDense__seg.html">CDense_seg</a> & </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#a07190ad7d97dafd680b14ac8664906f3">operator=</a> (<a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="classCDense__seg.html">CDense_seg</a> &<a class="el" href="ftds14_2freetds_2tds_2config_8c.html#ac6de4458dc999b0ad86cfcbaaf37222a">value</a>)</td></tr>
|
||
<tr class="separator:a07190ad7d97dafd680b14ac8664906f3"><td class="memSeparator" colspan="2"> </td></tr>
|
||
</table><table class="memberdecls">
|
||
<tr class="heading"><td colspan="2"><h2 class="groupheader"><a name="pri-attribs"></a>
|
||
Private Attributes</h2></td></tr>
|
||
<tr class="memitem:ac9336024d2fe5026cee3c55a654b8f64"><td class="memItemLeft" align="right" valign="top"><a class="el" href="group__Portability.html#ga7b0b4ab610750dd0972e12d57827a00f">Uint4</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#ac9336024d2fe5026cee3c55a654b8f64">m_set_State1</a> [1]</td></tr>
|
||
<tr class="separator:ac9336024d2fe5026cee3c55a654b8f64"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:a114b0a18ac27e6a8092e6e53ed60d761"><td class="memItemLeft" align="right" valign="top"><a class="el" href="classCDense__seg.html#ad2c2226aa21b1df9e6fe562caf230953">TWidths</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="classCDense__seg.html#a114b0a18ac27e6a8092e6e53ed60d761">m_Widths</a></td></tr>
|
||
<tr class="separator:a114b0a18ac27e6a8092e6e53ed60d761"><td class="memSeparator" colspan="2"> </td></tr>
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||
</table><table class="memberdecls">
|
||
<tr class="heading"><td colspan="2"><h2 class="groupheader"><a name="inherited"></a>
|
||
Additional Inherited Members</h2></td></tr>
|
||
<tr class="inherit_header pub_static_attribs_classCSerialObject"><td colspan="2" onclick="javascript:toggleInherit('pub_static_attribs_classCSerialObject')"><img src="closed.png" alt="-"/> Static Public Attributes inherited from <a class="el" href="classCSerialObject.html">CSerialObject</a></td></tr>
|
||
<tr class="memitem:gacf732f6a9f64037d0cad32a72f7522ea inherit pub_static_attribs_classCSerialObject"><td class="memItemLeft" align="right" valign="top"><a class="el" href="Genetic__code__table_8cpp.html#aa261b98e7b0037f2a9f13cbb4b8539d7">static</a> <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> char * </td><td class="memItemRight" valign="bottom"><a class="el" href="group__GenClassSupport.html#gacf732f6a9f64037d0cad32a72f7522ea">ms_UnassignedStr</a> = "<*unassigned*>"</td></tr>
|
||
<tr class="separator:gacf732f6a9f64037d0cad32a72f7522ea inherit pub_static_attribs_classCSerialObject"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:ga6baaf827f8d2e4f98be84d91d511a716 inherit pub_static_attribs_classCSerialObject"><td class="memItemLeft" align="right" valign="top"><a class="el" href="Genetic__code__table_8cpp.html#aa261b98e7b0037f2a9f13cbb4b8539d7">static</a> <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> char </td><td class="memItemRight" valign="bottom"><a class="el" href="group__GenClassSupport.html#ga6baaf827f8d2e4f98be84d91d511a716">ms_UnassignedByte</a> = char(0xcd)</td></tr>
|
||
<tr class="separator:ga6baaf827f8d2e4f98be84d91d511a716 inherit pub_static_attribs_classCSerialObject"><td class="memSeparator" colspan="2"> </td></tr>
|
||
<tr class="inherit_header pub_static_attribs_classCObject"><td colspan="2" onclick="javascript:toggleInherit('pub_static_attribs_classCObject')"><img src="closed.png" alt="-"/> Static Public Attributes inherited from <a class="el" href="classCObject.html">CObject</a></td></tr>
|
||
<tr class="memitem:ga6b2ef05fc91950a79ed938def4fd705d inherit pub_static_attribs_classCObject"><td class="memItemLeft" align="right" valign="top"><a class="el" href="Genetic__code__table_8cpp.html#aa261b98e7b0037f2a9f13cbb4b8539d7">static</a> <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="group__Object.html#ga2e073b6c5b9c29648510bd99ebe00a5c">TCount</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#ga6b2ef05fc91950a79ed938def4fd705d">eCounterBitsCanBeDeleted</a> = 1 << 0</td></tr>
|
||
<tr class="memdesc:ga6b2ef05fc91950a79ed938def4fd705d inherit pub_static_attribs_classCObject"><td class="mdescLeft"> </td><td class="mdescRight">Define possible object states. <a href="group__Object.html#ga6b2ef05fc91950a79ed938def4fd705d">More...</a><br /></td></tr>
|
||
<tr class="separator:ga6b2ef05fc91950a79ed938def4fd705d inherit pub_static_attribs_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
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||
<tr class="memitem:gae6d5b68d219dbdb40e88737873a3488c inherit pub_static_attribs_classCObject"><td class="memItemLeft" align="right" valign="top"><a class="el" href="Genetic__code__table_8cpp.html#aa261b98e7b0037f2a9f13cbb4b8539d7">static</a> <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="group__Object.html#ga2e073b6c5b9c29648510bd99ebe00a5c">TCount</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#gae6d5b68d219dbdb40e88737873a3488c">eCounterBitsInPlainHeap</a> = 1 << 1</td></tr>
|
||
<tr class="memdesc:gae6d5b68d219dbdb40e88737873a3488c inherit pub_static_attribs_classCObject"><td class="mdescLeft"> </td><td class="mdescRight">Heap signature was found. <a href="group__Object.html#gae6d5b68d219dbdb40e88737873a3488c">More...</a><br /></td></tr>
|
||
<tr class="separator:gae6d5b68d219dbdb40e88737873a3488c inherit pub_static_attribs_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
|
||
<tr class="memitem:ga33e4da9c60adbc3cf2a0ca45ce21a2ba inherit pub_static_attribs_classCObject"><td class="memItemLeft" align="right" valign="top"><a class="el" href="Genetic__code__table_8cpp.html#aa261b98e7b0037f2a9f13cbb4b8539d7">static</a> <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="group__Object.html#ga2e073b6c5b9c29648510bd99ebe00a5c">TCount</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#ga33e4da9c60adbc3cf2a0ca45ce21a2ba">eCounterBitsPlaceMask</a></td></tr>
|
||
<tr class="memdesc:ga33e4da9c60adbc3cf2a0ca45ce21a2ba inherit pub_static_attribs_classCObject"><td class="mdescLeft"> </td><td class="mdescRight">Mask for 'in heap' state flags. <a href="group__Object.html#ga33e4da9c60adbc3cf2a0ca45ce21a2ba">More...</a><br /></td></tr>
|
||
<tr class="separator:ga33e4da9c60adbc3cf2a0ca45ce21a2ba inherit pub_static_attribs_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
|
||
<tr class="memitem:ga0a412d4ea79669d73671f89cb3e798a2 inherit pub_static_attribs_classCObject"><td class="memItemLeft" align="right" valign="top"><a class="el" href="Genetic__code__table_8cpp.html#aa261b98e7b0037f2a9f13cbb4b8539d7">static</a> <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="group__mdb__copy.html#ga10cfb7d4996b006d5675b53b9c7f0fb5">int</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#ga0a412d4ea79669d73671f89cb3e798a2">eCounterStep</a> = 1 << 2</td></tr>
|
||
<tr class="memdesc:ga0a412d4ea79669d73671f89cb3e798a2 inherit pub_static_attribs_classCObject"><td class="mdescLeft"> </td><td class="mdescRight">Skip over the "in heap" bits. <a href="group__Object.html#ga0a412d4ea79669d73671f89cb3e798a2">More...</a><br /></td></tr>
|
||
<tr class="separator:ga0a412d4ea79669d73671f89cb3e798a2 inherit pub_static_attribs_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
|
||
<tr class="memitem:gab5880debef7cc7eb2a2891f440cd7569 inherit pub_static_attribs_classCObject"><td class="memItemLeft" align="right" valign="top"><a class="el" href="Genetic__code__table_8cpp.html#aa261b98e7b0037f2a9f13cbb4b8539d7">static</a> <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="group__Object.html#ga2e073b6c5b9c29648510bd99ebe00a5c">TCount</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#gab5880debef7cc7eb2a2891f440cd7569">eCounterValid</a> = <a class="el" href="group__Object.html#ga2e073b6c5b9c29648510bd99ebe00a5c">TCount</a>(1) << (sizeof(<a class="el" href="group__Object.html#ga2e073b6c5b9c29648510bd99ebe00a5c">TCount</a>) * 8 - 2)</td></tr>
|
||
<tr class="memdesc:gab5880debef7cc7eb2a2891f440cd7569 inherit pub_static_attribs_classCObject"><td class="mdescLeft"> </td><td class="mdescRight">Minimal value for valid objects (reference counter is zero) Must be a single bit value. <a href="group__Object.html#gab5880debef7cc7eb2a2891f440cd7569">More...</a><br /></td></tr>
|
||
<tr class="separator:gab5880debef7cc7eb2a2891f440cd7569 inherit pub_static_attribs_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
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<tr class="memitem:gaff6eaaf8b9c4040a05fe2325ab75f44e inherit pub_static_attribs_classCObject"><td class="memItemLeft" align="right" valign="top"><a class="el" href="Genetic__code__table_8cpp.html#aa261b98e7b0037f2a9f13cbb4b8539d7">static</a> <a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="group__Object.html#ga2e073b6c5b9c29648510bd99ebe00a5c">TCount</a> </td><td class="memItemRight" valign="bottom"><a class="el" href="group__Object.html#gaff6eaaf8b9c4040a05fe2325ab75f44e">eCounterStateMask</a></td></tr>
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<tr class="memdesc:gaff6eaaf8b9c4040a05fe2325ab75f44e inherit pub_static_attribs_classCObject"><td class="mdescLeft"> </td><td class="mdescRight">Valid object, and object in heap. <a href="group__Object.html#gaff6eaaf8b9c4040a05fe2325ab75f44e">More...</a><br /></td></tr>
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<tr class="separator:gaff6eaaf8b9c4040a05fe2325ab75f44e inherit pub_static_attribs_classCObject"><td class="memSeparator" colspan="2"> </td></tr>
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<a name="details" id="details"></a><h2 class="groupheader">Detailed Description</h2>
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8hpp_source.html#l00060">60</a> of file <a class="el" href="Dense__seg_8hpp_source.html">Dense_seg.hpp</a>.</p>
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<a id="ad511c76a368f1a780fa7c9558cfdde0a"></a>
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<h2 class="memtitle"><span class="permalink"><a href="#ad511c76a368f1a780fa7c9558cfdde0a">◆ </a></span>Tparent</h2>
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<td class="memname">typedef <a class="el" href="classCDense__seg__Base.html">CDense_seg_Base</a> <a class="el" href="classCDense__seg.html#ad511c76a368f1a780fa7c9558cfdde0a">CDense_seg::Tparent</a></td>
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8hpp_source.html#l00062">62</a> of file <a class="el" href="Dense__seg_8hpp_source.html">Dense_seg.hpp</a>.</p>
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<h2 class="memtitle"><span class="permalink"><a href="#ad2c2226aa21b1df9e6fe562caf230953">◆ </a></span>TWidths</h2>
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<td class="memname">typedef vector<<a class="el" href="group__mdb__copy.html#ga10cfb7d4996b006d5675b53b9c7f0fb5">int</a>> <a class="el" href="classCDense__seg.html#ad2c2226aa21b1df9e6fe562caf230953">CDense_seg::TWidths</a></td>
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8hpp_source.html#l00073">73</a> of file <a class="el" href="Dense__seg_8hpp_source.html">Dense_seg.hpp</a>.</p>
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<h2 class="groupheader">Constructor & Destructor Documentation</h2>
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<a id="a14821a3aedfb39ea2445314a72930768"></a>
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<h2 class="memtitle"><span class="permalink"><a href="#a14821a3aedfb39ea2445314a72930768">◆ </a></span>CDense_seg() <span class="overload">[1/2]</span></h2>
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<td class="memname">CDense_seg::CDense_seg </td>
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<h2 class="memtitle"><span class="permalink"><a href="#a13531c2a5c140f2b1d106cdf0e0171b9">◆ </a></span>~CDense_seg()</h2>
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<td class="memname">CDense_seg::~CDense_seg </td>
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8cpp_source.html#l00057">57</a> of file <a class="el" href="Dense__seg_8cpp_source.html">Dense_seg.cpp</a>.</p>
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<h2 class="memtitle"><span class="permalink"><a href="#a9f15e5c306118cd8ca7fefe6cf09d9c3">◆ </a></span>CDense_seg() <span class="overload">[2/2]</span></h2>
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<td class="memname">CDense_seg::CDense_seg </td>
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<td class="paramtype"><a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="classCDense__seg.html">CDense_seg</a> & </td>
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<h2 class="groupheader">Member Function Documentation</h2>
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<h2 class="memtitle"><span class="permalink"><a href="#ade524daba8e067557cdf0157f4e984d0">◆ </a></span>Assign()</h2>
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<td class="memname">void CDense_seg::Assign </td>
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<td class="paramtype"><a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="classCSerialObject.html">CSerialObject</a> & </td>
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<td class="paramtype"><a class="el" href="group__GenClassSupport.html#ga059327d78b8d9e780d720f141674f241">ESerialRecursionMode</a> </td>
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<td class="paramname"><em>how</em> = <code><a class="el" href="group__GenClassSupport.html#gga059327d78b8d9e780d720f141674f241abe759672df31c77b76afeea2cd4c0db7">eRecursive</a></code> </td>
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<p>overloaded <a class="el" href="classCDense__seg.html#ade524daba8e067557cdf0157f4e984d0" title="overloaded Assign()">Assign()</a> </p>
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<p>Reimplemented from <a class="el" href="group__GenClassSupport.html#ga6c7f903717f7a272091acf5124cfd903">CSerialObject</a>.</p>
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8cpp_source.html#l00062">62</a> of file <a class="el" href="Dense__seg_8cpp_source.html">Dense_seg.cpp</a>.</p>
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<p class="reference">References <a class="el" href="serialobject_8cpp_source.html#l00084">CSerialObject::Assign()</a>, <a class="el" href="group__GenClassSupport.html#gacb5d8a2e6878e58aeaeaf342081f0b7f">CSerialObject::GetThisTypeInfo()</a>, <a class="el" href="Dense__seg_8hpp_source.html#l00176">m_set_State1</a>, and <a class="el" href="Dense__seg_8hpp_source.html#l00177">m_Widths</a>.</p>
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<p class="reference">Referenced by <a class="el" href="phytree__calc_8cpp_source.html#l00173">CPhyTreeCalc::GetSeqAlign()</a>, <a class="el" href="macro__fn__do_8cpp_source.html#l01537">CMacroFunction_RemoveSegGaps::s_RemoveSegGaps()</a>, <a class="el" href="blastxml2__format_8cpp_source.html#l00096">s_SeqAlignSetToXMLHsps()</a>, <a class="el" href="tabular_8cpp_source.html#l00743">CBlastTabularInfo::SetFields()</a>, <a class="el" href="inversion__merge__aligner_8cpp_source.html#l00264">CInversionMergeAligner::x_CreateDiscAlignment()</a>, <a class="el" href="alnmix_8cpp_source.html#l00171">CAlnMix::x_ExtendDSWithWidths()</a>, <a class="el" href="cigar__formatter_8cpp_source.html#l00356">CCIGAR_Formatter::x_FormatDensegRows()</a>, <a class="el" href="showalign_8cpp_source.html#l01817">CDisplaySeqalign::x_GetAlnVecForSeqalign()</a>, <a class="el" href="unordered__spliter_8cpp_source.html#l00547">CUnorderedSplitter::x_MakeAlignmentPairUnique()</a>, <a class="el" href="merge__tree_8cpp_source.html#l00795">CTreeAlignMerger::x_MakeSeqAlign()</a>, <a class="el" href="inversion__merge__aligner_8cpp_source.html#l00376">CInversionMergeAligner::x_MergeSeqAlignSet()</a>, <a class="el" href="merge__aligner_8cpp_source.html#l00167">CMergeAligner::x_MergeSeqAlignSet()</a>, and <a class="el" href="unordered__spliter_8cpp_source.html#l00587">CUnorderedSplitter::x_TrimRows()</a>.</p>
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<h2 class="memtitle"><span class="permalink"><a href="#aa33cc636d35b3b3e5e28f9d3f1d2da28">◆ </a></span>CanGetWidths()</h2>
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<td class="memname"><a class="el" href="static__set_8hpp.html#af6a258d8f3ee5206d682d799316314b1">bool</a> CDense_seg::CanGetWidths </td>
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8hpp_source.html#l00203">203</a> of file <a class="el" href="Dense__seg_8hpp_source.html">Dense_seg.hpp</a>.</p>
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<h2 class="memtitle"><span class="permalink"><a href="#aa4f43563ab853fe520ea1d6ca11db2d2">◆ </a></span>CheckNumRows()</h2>
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<td class="memname"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gaef7c889da11be3e7fc9880239925b1ef">CDense_seg::TDim</a> CDense_seg::CheckNumRows </td>
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8cpp_source.html#l00092">92</a> of file <a class="el" href="Dense__seg_8cpp_source.html">Dense_seg.cpp</a>.</p>
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<p class="reference">References <a class="el" href="Dense__seg___8hpp_source.html#l00421">CDense_seg_Base::GetDim()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00505">CDense_seg_Base::GetIds()</a>, <a class="el" href="ncbiexpt_8hpp_source.html#l00704">NCBI_THROW</a>, and <a class="el" href="namespacencbi_1_1grid_1_1netcache_1_1search_1_1fields.html#a0f3896dcec83a75496951b513af45a54">ncbi::grid::netcache::search::fields::size</a>.</p>
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<p class="reference">Referenced by <a class="el" href="Seq__align_8cpp_source.html#l00073">CSeq_align::CheckNumRows()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00837">ExtractRows()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l01108">FillUnaligned()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00241">GetSeqStrand()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00922">RemapToLoc()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00574">RemovePureGapSegs()</a>, and <a class="el" href="Dense__seg_8cpp_source.html#l00274">Validate()</a>.</p>
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<h2 class="memtitle"><span class="permalink"><a href="#a73e0f3670c55588e70b9691a785801a8">◆ </a></span>CheckNumSegs()</h2>
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<td class="memname"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga062fd9f3065b6f90ac4cea1f6f0aa515">CDense_seg::TNumseg</a> CDense_seg::CheckNumSegs </td>
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8cpp_source.html#l00109">109</a> of file <a class="el" href="Dense__seg_8cpp_source.html">Dense_seg.cpp</a>.</p>
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<p class="reference">References <a class="el" href="Dense__seg___8hpp_source.html#l00421">CDense_seg_Base::GetDim()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00555">CDense_seg_Base::GetLens()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00465">CDense_seg_Base::GetNumseg()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00530">CDense_seg_Base::GetStarts()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00580">CDense_seg_Base::GetStrands()</a>, <a class="el" href="Dense__seg_8hpp_source.html#l00210">GetWidths()</a>, and <a class="el" href="ncbiexpt_8hpp_source.html#l00704">NCBI_THROW</a>.</p>
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<p class="reference">Referenced by <a class="el" href="alignment__job_8cpp_source.html#l02252">BuildAlignDataSource()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00837">ExtractRows()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l01108">FillUnaligned()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00165">GetSeqStart()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00203">GetSeqStop()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00922">RemapToLoc()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00574">RemovePureGapSegs()</a>, and <a class="el" href="Dense__seg_8cpp_source.html#l00274">Validate()</a>.</p>
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<p>Join adjacent mergeable segments to create a more compact alignment. </p>
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8cpp_source.html#l00432">432</a> of file <a class="el" href="Dense__seg_8cpp_source.html">Dense_seg.cpp</a>.</p>
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<p class="reference">References <a class="el" href="Dense__seg_8cpp_source.html#l00077">ASSERT_CONSISTENCY</a>, <a class="el" href="Na__strand___8hpp_source.html#l00067">eNa_strand_minus</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00421">CDense_seg_Base::GetDim()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00555">CDense_seg_Base::GetLens()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00465">CDense_seg_Base::GetNumseg()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00530">CDense_seg_Base::GetStarts()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00580">CDense_seg_Base::GetStrands()</a>, <a class="el" href="lex_8newick_8cpp_source.html#l01456">i</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00568">CDense_seg_Base::IsSetStrands()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00561">CDense_seg_Base::SetLens()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00481">CDense_seg_Base::SetNumseg()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00536">CDense_seg_Base::SetStarts()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00586">CDense_seg_Base::SetStrands()</a>, and <a class="el" href="namespacencbi_1_1grid_1_1netcache_1_1search_1_1fields.html#a0f3896dcec83a75496951b513af45a54">ncbi::grid::netcache::search::fields::size</a>.</p>
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<p class="reference">Referenced by <a class="el" href="Dense__seg_8cpp_source.html#l00837">ExtractRows()</a>, <a class="el" href="single__aln__tests_8cpp_source.html#l00793">s_ExonToDenseg()</a>, <a class="el" href="macro__fn__do_8cpp_source.html#l01537">CMacroFunction_RemoveSegGaps::s_RemoveSegGaps()</a>, <a class="el" href="cobalt__unit__test_8cpp_source.html#l01028">s_TestAlignmentFromMSAs()</a>, <a class="el" href="inversion__merge__aligner_8cpp_source.html#l00264">CInversionMergeAligner::x_CreateDiscAlignment()</a>, <a class="el" href="unordered__spliter_8cpp_source.html#l00547">CUnorderedSplitter::x_MakeAlignmentPairUnique()</a>, and <a class="el" href="merge__tree_8cpp_source.html#l00795">CTreeAlignMerger::x_MakeSeqAlign()</a>.</p>
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<a id="a350a99f781b71bf0416d86d0b384eed0"></a>
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<h2 class="memtitle"><span class="permalink"><a href="#a350a99f781b71bf0416d86d0b384eed0">◆ </a></span>CreateRowSeq_interval()</h2>
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<td class="memname"><a class="el" href="classCRef.html">CRef</a>< <a class="el" href="classCSeq__interval.html">CSeq_interval</a> > CDense_seg::CreateRowSeq_interval </td>
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<td>(</td>
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<td class="paramtype"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gaef7c889da11be3e7fc9880239925b1ef">TDim</a> </td>
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<td class="paramname"><em>row</em></td><td>)</td>
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<td> const</td>
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8cpp_source.html#l01436">1436</a> of file <a class="el" href="Dense__seg_8cpp_source.html">Dense_seg.cpp</a>.</p>
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<p class="reference">References <a class="el" href="Na__strand___8hpp_source.html#l00068">eNa_strand_both</a>, <a class="el" href="Na__strand___8hpp_source.html#l00067">eNa_strand_minus</a>, <a class="el" href="Na__strand___8hpp_source.html#l00066">eNa_strand_plus</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00421">CDense_seg_Base::GetDim()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00505">CDense_seg_Base::GetIds()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00555">CDense_seg_Base::GetLens()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00465">CDense_seg_Base::GetNumseg()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00530">CDense_seg_Base::GetStarts()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00580">CDense_seg_Base::GetStrands()</a>, <a class="el" href="Na__strand_8hpp_source.html#l00075">IsReverse()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00568">CDense_seg_Base::IsSetStrands()</a>, <a class="el" href="ncbimisc_8hpp_source.html#l00878">kInvalidSeqPos</a>, <a class="el" href="lex_8newick_8cpp_source.html#l01450">len</a>, <a class="el" href="ncbiexpt_8hpp_source.html#l00704">NCBI_THROW</a>, <a class="el" href="corelib_2ncbistr_8hpp_source.html#l00673">NStr::NumericToString()</a>, <a class="el" href="string__bind_8c_source.html#l00073">row</a>, <a class="el" href="Seq__interval___8hpp_source.html#l00392">CSeq_interval_Base::SetFrom()</a>, <a class="el" href="Seq__interval___8cpp_source.html#l00061">CSeq_interval_Base::SetId()</a>, <a class="el" href="Seq__interval___8hpp_source.html#l00486">CSeq_interval_Base::SetStrand()</a>, and <a class="el" href="Seq__interval___8hpp_source.html#l00439">CSeq_interval_Base::SetTo()</a>.</p>
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<h2 class="memtitle"><span class="permalink"><a href="#a0aafeb368d6486774e29f2a04dd41484">◆ </a></span>ExtractRows()</h2>
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<td class="memname"><a class="el" href="classCRef.html">CRef</a>< <a class="el" href="classCDense__seg.html">CDense_seg</a> > CDense_seg::ExtractRows </td>
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<td>(</td>
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<td class="paramtype"><a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> vector< <a class="el" href="group__dataspec__NCBI__Seqalign.html#gaef7c889da11be3e7fc9880239925b1ef">TDim</a> > & </td>
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<td class="paramname"><em>rows</em></td><td>)</td>
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<td> const</td>
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<p>Extract specified rows of the alignment, in specified order. </p>
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<p>The result is compacted with Compact, but may contain segments in which all rows have gaps, which can be removed with RemovePureGapSegs. The rows in the new alignment are in the order given by the rows parameter. Thus, this can also be used for permuting the order of rows. </p><dl class="section see"><dt>See also</dt><dd><a class="el" href="classCDense__seg.html#a6c12d2bae223f1bcfd8524b9bcb2ecc2" title="Remove any segments in which every row has a gap (these can arise when ExtractRows is used)">RemovePureGapSegs</a> </dd></dl>
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8cpp_source.html#l00837">837</a> of file <a class="el" href="Dense__seg_8cpp_source.html">Dense_seg.cpp</a>.</p>
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<p class="reference">References <a class="el" href="Seq__id_8cpp_source.html#l00318">CSeq_id::Assign()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00092">CheckNumRows()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00109">CheckNumSegs()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00432">Compact()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00505">CDense_seg_Base::GetIds()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00555">CDense_seg_Base::GetLens()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00465">CDense_seg_Base::GetNumseg()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00530">CDense_seg_Base::GetStarts()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00580">CDense_seg_Base::GetStrands()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00568">CDense_seg_Base::IsSetStrands()</a>, <a class="el" href="ncbimisc_8hpp_source.html#l00815">ITERATE</a>, <a class="el" href="ncbiexpt_8hpp_source.html#l00704">NCBI_THROW</a>, <a class="el" href="corelib_2ncbistr_8hpp_source.html#l00673">NStr::NumericToString()</a>, <a class="el" href="string__bind_8c_source.html#l00073">row</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00427">CDense_seg_Base::SetDim()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00511">CDense_seg_Base::SetIds()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00561">CDense_seg_Base::SetLens()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00474">CDense_seg_Base::SetNumseg()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00536">CDense_seg_Base::SetStarts()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00586">CDense_seg_Base::SetStrands()</a>, and <a class="el" href="Dense__seg_8cpp_source.html#l00274">Validate()</a>.</p>
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<p class="reference">Referenced by <a class="el" href="seq__entry__edit_8cpp_source.html#l01123">s_DivvyUpAlignments_ProcessAnnot_Denseg()</a>, and <a class="el" href="phytree__calc_8cpp_source.html#l00356">CPhyTreeCalc::x_CreateValidAlign()</a>.</p>
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<a id="a93b847688e1f262744d2c7398389aa16"></a>
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<h2 class="memtitle"><span class="permalink"><a href="#a93b847688e1f262744d2c7398389aa16">◆ </a></span>ExtractSlice()</h2>
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<td class="memname"><a class="el" href="classCRef.html">CRef</a>< <a class="el" href="classCDense__seg.html">CDense_seg</a> > CDense_seg::ExtractSlice </td>
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<td>(</td>
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<td class="paramtype"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gaef7c889da11be3e7fc9880239925b1ef">TDim</a> </td>
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<td class="paramname"><em>row</em>, </td>
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<td class="paramkey"></td>
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<td></td>
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<td class="paramtype"><a class="el" href="group__AppFramework.html#ga7576cbabf7b457b1a66d0a1d985fe176">TSeqPos</a> </td>
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<td class="paramname"><em>from</em>, </td>
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<td class="paramkey"></td>
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<td></td>
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<td class="paramtype"><a class="el" href="group__AppFramework.html#ga7576cbabf7b457b1a66d0a1d985fe176">TSeqPos</a> </td>
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<td class="paramname"><em>to</em> </td>
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<td></td>
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<td>)</td>
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<td></td><td> const</td>
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<p>Extract a slice of the alignment that includes the specified range. </p>
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8cpp_source.html#l00746">746</a> of file <a class="el" href="Dense__seg_8cpp_source.html">Dense_seg.cpp</a>.</p>
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<p class="reference">References <a class="el" href="Na__strand___8hpp_source.html#l00067">eNa_strand_minus</a>, <a class="el" href="Na__strand___8hpp_source.html#l00066">eNa_strand_plus</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00421">CDense_seg_Base::GetDim()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00505">CDense_seg_Base::GetIds()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00555">CDense_seg_Base::GetLens()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00165">GetSeqStart()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00203">GetSeqStop()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00530">CDense_seg_Base::GetStarts()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00580">CDense_seg_Base::GetStrands()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00568">CDense_seg_Base::IsSetStrands()</a>, <a class="el" href="ncbimisc_8hpp_source.html#l00815">ITERATE</a>, <a class="el" href="lex_8newick_8cpp_source.html#l01450">len</a>, <a class="el" href="ncbiexpt_8hpp_source.html#l00704">NCBI_THROW</a>, <a class="el" href="corelib_2ncbistr_8hpp_source.html#l00673">NStr::NumericToString()</a>, <a class="el" href="string__bind_8c_source.html#l00073">row</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00427">CDense_seg_Base::SetDim()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00511">CDense_seg_Base::SetIds()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00561">CDense_seg_Base::SetLens()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00474">CDense_seg_Base::SetNumseg()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00536">CDense_seg_Base::SetStarts()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00586">CDense_seg_Base::SetStrands()</a>, <a class="el" href="dbapi_2driver_2ftds100_2freetds_2tds_2des_8c_source.html#l00146">si</a>, <a class="el" href="ncbimisc_8hpp_source.html#l01508">swap()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00274">Validate()</a>, and <a class="el" href="Dense__seg_8cpp_source.html#l00719">x_FindSegment()</a>.</p>
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<p class="reference">Referenced by <a class="el" href="contig__assembly_8cpp_source.html#l00508">CContigAssembly::BestLocalSubAlignment()</a>, <a class="el" href="alignment__scorer_8cpp_source.html#l00400">CClippedScorer::ScoreAlignments()</a>, <a class="el" href="align__compare_8cpp_source.html#l00902">CAlignCompare::SAlignment::Slice()</a>, <a class="el" href="inversion__merge__aligner_8cpp_source.html#l00264">CInversionMergeAligner::x_CreateDiscAlignment()</a>, <a class="el" href="primercheck_8cpp_source.html#l00685">COligoSpecificityCheck::x_FillGlobalAlignInfo()</a>, and <a class="el" href="unordered__spliter_8cpp_source.html#l00587">CUnorderedSplitter::x_TrimRows()</a>.</p>
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</div>
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<a id="abb2e576cc29012b618b88f11848018af"></a>
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<h2 class="memtitle"><span class="permalink"><a href="#abb2e576cc29012b618b88f11848018af">◆ </a></span>FillUnaligned()</h2>
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<td class="memname"><a class="el" href="classCRef.html">CRef</a>< <a class="el" href="classCDense__seg.html">CDense_seg</a> > CDense_seg::FillUnaligned </td>
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<td>(</td>
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<td class="paramname"></td><td>)</td>
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<td> const</td>
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<p>Create a new dense-seg with added all unaligned pieces (implicit inserts), if any, between segments. </p>
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8cpp_source.html#l01108">1108</a> of file <a class="el" href="Dense__seg_8cpp_source.html">Dense_seg.cpp</a>.</p>
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<p class="reference">References <a class="el" href="Dense__seg_8cpp_source.html#l00092">CheckNumRows()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00109">CheckNumSegs()</a>, <a class="el" href="Na__strand___8hpp_source.html#l00067">eNa_strand_minus</a>, <a class="el" href="Na__strand___8hpp_source.html#l00066">eNa_strand_plus</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00505">CDense_seg_Base::GetIds()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00555">CDense_seg_Base::GetLens()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00530">CDense_seg_Base::GetStarts()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00580">CDense_seg_Base::GetStrands()</a>, <a class="el" href="lex_8newick_8cpp_source.html#l01450">len</a>, <a class="el" href="ncbiexpt_8hpp_source.html#l00704">NCBI_THROW</a>, <a class="el" href="njn__function_8hpp.html#a910381920b1e2372603f688b27ee3ed2">plus()</a>, <a class="el" href="string__bind_8c_source.html#l00073">row</a>, <a class="el" href="serialbase_8hpp_source.html#l00482">SerialAssign()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00427">CDense_seg_Base::SetDim()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00511">CDense_seg_Base::SetIds()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00561">CDense_seg_Base::SetLens()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00474">CDense_seg_Base::SetNumseg()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00536">CDense_seg_Base::SetStarts()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00586">CDense_seg_Base::SetStrands()</a>, and <a class="el" href="ncbistr_8cpp_source.html#l02742">NStr::SizetToString()</a>.</p>
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<p class="reference">Referenced by <a class="el" href="align__cleanup_8cpp_source.html#l00260">CAlignCleanup::x_Cleanup_AnchoredAln()</a>, <a class="el" href="inversion__merge__aligner_8cpp_source.html#l00264">CInversionMergeAligner::x_CreateDiscAlignment()</a>, <a class="el" href="merge__alignments__tool__manager_8cpp_source.html#l00186">CMergeAlignmentsJob::x_CreateProjectItems()</a>, <a class="el" href="unordered__spliter_8cpp_source.html#l00547">CUnorderedSplitter::x_MakeAlignmentPairUnique()</a>, <a class="el" href="merge__tree_8cpp_source.html#l00795">CTreeAlignMerger::x_MakeSeqAlign()</a>, <a class="el" href="inversion__merge__aligner_8cpp_source.html#l00376">CInversionMergeAligner::x_MergeSeqAlignSet()</a>, <a class="el" href="merge__aligner_8cpp_source.html#l00167">CMergeAligner::x_MergeSeqAlignSet()</a>, and <a class="el" href="gff3__writer_8cpp_source.html#l00763">CGff3Writer::xWriteAlignDenseg()</a>.</p>
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<a id="a8e65f2a059938b9bc0999bd1ef0d18eb"></a>
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<h2 class="memtitle"><span class="permalink"><a href="#a8e65f2a059938b9bc0999bd1ef0d18eb">◆ </a></span>FromTranscript()</h2>
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<td class="memname">void CDense_seg::FromTranscript </td>
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<td>(</td>
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<td class="paramtype"><a class="el" href="group__AppFramework.html#ga7576cbabf7b457b1a66d0a1d985fe176">TSeqPos</a> </td>
|
||
<td class="paramname"><em>query_start</em>, </td>
|
||
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||
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|
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<td class="paramkey"></td>
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<td class="paramtype"><a class="el" href="group__dataspec__NCBI__Seqloc.html#ga2d4d48fde1d3f62563eac193a3b5afae">ENa_strand</a> </td>
|
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<td class="paramname"><em>query_strand</em>, </td>
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|
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<td class="paramkey"></td>
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<td></td>
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<td class="paramtype"><a class="el" href="group__AppFramework.html#ga7576cbabf7b457b1a66d0a1d985fe176">TSeqPos</a> </td>
|
||
<td class="paramname"><em>subj_start</em>, </td>
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||
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<td class="paramkey"></td>
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<td></td>
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<td class="paramtype"><a class="el" href="group__dataspec__NCBI__Seqloc.html#ga2d4d48fde1d3f62563eac193a3b5afae">ENa_strand</a> </td>
|
||
<td class="paramname"><em>subj_strand</em>, </td>
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<td></td>
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<td class="paramtype"><a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="group__CGIBase.html#ga338951b7e7607b65262fb051e7804d91">string</a> & </td>
|
||
<td class="paramname"><em>transcript</em> </td>
|
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<td></td>
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<td>)</td>
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<p>Initialize from pairwise alignment transcript (a string representation produced by <a class="el" href="classCNWAligner.html">CNWAligner</a>) </p>
|
||
<dl class="section see"><dt>See also</dt><dd><a class="el" href="classCNWAligner.html">CNWAligner</a> </dd></dl>
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8cpp_source.html#l01273">1273</a> of file <a class="el" href="Dense__seg_8cpp_source.html">Dense_seg.cpp</a>.</p>
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<p class="reference">References <a class="el" href="Na__strand___8hpp_source.html#l00067">eNa_strand_minus</a>, <a class="el" href="Na__strand___8hpp_source.html#l00066">eNa_strand_plus</a>, <a class="el" href="ncbictype_8hpp_source.html#l00061">isalpha()</a>, <a class="el" href="ncbictype_8hpp_source.html#l00064">isdigit()</a>, <a class="el" href="lex_8newick_8cpp_source.html#l01450">len</a>, <a class="el" href="ncbiexpt_8hpp_source.html#l00704">NCBI_THROW</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00434">CDense_seg_Base::SetDim()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00561">CDense_seg_Base::SetLens()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00481">CDense_seg_Base::SetNumseg()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00536">CDense_seg_Base::SetStarts()</a>, and <a class="el" href="Dense__seg___8hpp_source.html#l00586">CDense_seg_Base::SetStrands()</a>.</p>
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<p class="reference">Referenced by <a class="el" href="nw__formatter_8cpp_source.html#l00150">CNWFormatter::AsDenseSeg()</a>, <a class="el" href="compartment__finder_8hpp_source.html#l01551">CCompartmentAccessor< THit >::AsSeqAlignSet()</a>, <a class="el" href="contig__assembly_8cpp_source.html#l00312">CContigAssembly::BandedGlobalAlignment()</a>, <a class="el" href="primercheck_8cpp_source.html#l00291">s_DoNWalign()</a>, <a class="el" href="cleanup__alignments__tool__manager_8cpp_source.html#l00230">CCleanupAlignmentsJob::x_CreateProjectItems()</a>, and <a class="el" href="hitfilter__app_8cpp_source.html#l00356">CAppHitFilter::x_DumpOutput()</a>.</p>
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<a id="a0f429c637acc3382b407f1efd81b5800"></a>
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<h2 class="memtitle"><span class="permalink"><a href="#a0f429c637acc3382b407f1efd81b5800">◆ </a></span>GetSeq_id()</h2>
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<td class="memname"><a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="classCSeq__id.html">CSeq_id</a> & CDense_seg::GetSeq_id </td>
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<td class="paramtype"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gaef7c889da11be3e7fc9880239925b1ef">TDim</a> </td>
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<td class="paramname"><em>row</em></td><td>)</td>
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<td> const</td>
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8cpp_source.html#l00154">154</a> of file <a class="el" href="Dense__seg_8cpp_source.html">Dense_seg.cpp</a>.</p>
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<p class="reference">References <a class="el" href="Dense__seg___8hpp_source.html#l00505">CDense_seg_Base::GetIds()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00493">CDense_seg_Base::IsSetIds()</a>, <a class="el" href="ncbiexpt_8hpp_source.html#l00704">NCBI_THROW</a>, <a class="el" href="string__bind_8c_source.html#l00073">row</a>, and <a class="el" href="namespacencbi_1_1grid_1_1netcache_1_1search_1_1fields.html#a0f3896dcec83a75496951b513af45a54">ncbi::grid::netcache::search::fields::size</a>.</p>
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<p class="reference">Referenced by <a class="el" href="paint__alignment_8cpp_source.html#l00221">CPaintAlignment::AlignPosToSeqPos()</a>, <a class="el" href="feature__propagate_8cpp_source.html#l00322">CFeaturePropagator::AlignPosToSeqPos()</a>, <a class="el" href="pssmcreate__cdd__unit__test_8cpp_source.html#l00507">BOOST_AUTO_TEST_CASE()</a>, <a class="el" href="alignment__assistant_8cpp_source.html#l00724">CAlignmentAssistant::CreateFeature()</a>, <a class="el" href="feature__propagate_8cpp_source.html#l00433">CFeaturePropagator::CreateRowSeq_loc()</a>, <a class="el" href="alignment__assistant_8cpp_source.html#l00776">CAlignmentAssistant::DeleteSelection()</a>, <a class="el" href="feature__propagate_8cpp_source.html#l00415">CFeaturePropagator::FindRow()</a>, <a class="el" href="alignment__assistant_8cpp_source.html#l00598">CAlignmentAssistant::GetFeatures()</a>, <a class="el" href="paint__alignment_8cpp_source.html#l00138">CPaintAlignment::GetSegments()</a>, <a class="el" href="Seq__align_8cpp_source.html#l00317">CSeq_align::GetSeq_id()</a>, <a class="el" href="alignment__assistant_8cpp_source.html#l01707">CAlignmentAssistant::OnPropagateFeatures()</a>, <a class="el" href="alignment__assistant_8cpp_source.html#l01838">CAlignmentAssistant::OnReverseStrand()</a>, <a class="el" href="alignment__assistant_8cpp_source.html#l00559">CAlignmentAssistant::ReportUnresolvedBioseqs()</a>, <a class="el" href="paint__alignment_8cpp_source.html#l00310">CPaintAlignment::SeqPosToAlignPos()</a>, <a class="el" href="feature__propagate_8cpp_source.html#l00266">CFeaturePropagator::SeqPosToAlignPos()</a>, <a class="el" href="alignment__assistant_8cpp_source.html#l01546">CAlignmentAssistant::TranslateLocations()</a>, <a class="el" href="aln__writer_8cpp_source.html#l00148">CAlnWriter::WriteAlignDenseSeg()</a>, and <a class="el" href="psl__record_8cpp_source.html#l00415">CPslRecord::xInitializeSequenceInfo()</a>.</p>
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<h2 class="memtitle"><span class="permalink"><a href="#ad3a50b06f4d1628ee7d02070e36f9cd5">◆ </a></span>GetSeqRange()</h2>
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<td class="memname"><a class="el" href="classCRange.html">CRange</a>< <a class="el" href="group__AppFramework.html#ga7576cbabf7b457b1a66d0a1d985fe176">TSeqPos</a> > CDense_seg::GetSeqRange </td>
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<td class="paramtype"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gaef7c889da11be3e7fc9880239925b1ef">TDim</a> </td>
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<td class="paramname"><em>row</em></td><td>)</td>
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8hpp_source.html#l00234">234</a> of file <a class="el" href="Dense__seg_8hpp_source.html">Dense_seg.hpp</a>.</p>
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<p class="reference">References <a class="el" href="Dense__seg_8cpp_source.html#l00165">GetSeqStart()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00203">GetSeqStop()</a>, and <a class="el" href="string__bind_8c_source.html#l00073">row</a>.</p>
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<p class="reference">Referenced by <a class="el" href="Seq__align_8cpp_source.html#l00153">CSeq_align::GetSeqRange()</a>, <a class="el" href="label_8cpp_source.html#l02444">s_GetAlignmentTooltip()</a>, <a class="el" href="inversion__merge__aligner_8cpp_source.html#l00264">CInversionMergeAligner::x_CreateDiscAlignment()</a>, <a class="el" href="primercheck_8cpp_source.html#l01271">COligoSpecificityCheck::x_GetSlaveRangeGivenMasterRange()</a>, <a class="el" href="seq__loc__mapper__base_8cpp_source.html#l01648">CSeq_loc_Mapper_Base::x_InitAlign()</a>, <a class="el" href="unordered__spliter_8cpp_source.html#l00587">CUnorderedSplitter::x_TrimRows()</a>, <a class="el" href="psibl2seq__unit__test_8cpp_source.html#l00194">CPsiBl2SeqTestFixture::x_ValidatePssmVsGi129295()</a>, and <a class="el" href="psibl2seq__unit__test_8cpp_source.html#l00162">CPsiBl2SeqTestFixture::x_ValidatePssmVsGi7450545()</a>.</p>
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<h2 class="memtitle"><span class="permalink"><a href="#a8416e4feb21aa52d101240e9e93c20ba">◆ </a></span>GetSeqStart()</h2>
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<td class="memname"><a class="el" href="group__AppFramework.html#ga7576cbabf7b457b1a66d0a1d985fe176">TSeqPos</a> CDense_seg::GetSeqStart </td>
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<td>(</td>
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<td class="paramtype"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gaef7c889da11be3e7fc9880239925b1ef">TDim</a> </td>
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<td class="paramname"><em>row</em></td><td>)</td>
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8cpp_source.html#l00165">165</a> of file <a class="el" href="Dense__seg_8cpp_source.html">Dense_seg.cpp</a>.</p>
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<p class="reference">References <a class="el" href="Dense__seg___8hpp_source.html#l00574">CDense_seg_Base::CanGetStrands()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00109">CheckNumSegs()</a>, <a class="el" href="Na__strand___8hpp_source.html#l00067">eNa_strand_minus</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00421">CDense_seg_Base::GetDim()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00530">CDense_seg_Base::GetStarts()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00580">CDense_seg_Base::GetStrands()</a>, <a class="el" href="ncbiexpt_8hpp_source.html#l00704">NCBI_THROW</a>, <a class="el" href="string__bind_8c_source.html#l00073">row</a>, and <a class="el" href="namespacencbi_1_1grid_1_1netcache_1_1search_1_1fields.html#a0f3896dcec83a75496951b513af45a54">ncbi::grid::netcache::search::fields::size</a>.</p>
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<p class="reference">Referenced by <a class="el" href="Seq__align_8cpp_source.html#l01015">CSeq_align::CreateDensegFromDisc()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00747">ExtractSlice()</a>, <a class="el" href="Dense__seg_8hpp_source.html#l00234">GetSeqRange()</a>, <a class="el" href="Seq__align_8cpp_source.html#l00252">CSeq_align::GetSeqStart()</a>, <a class="el" href="contig__assembly_8cpp_source.html#l00445">CContigAssembly::IsAtLeastHalfDovetail()</a>, <a class="el" href="basic__converters_8cpp_source.html#l00350">s_Seq_align_Seq_loc()</a>, <a class="el" href="update__seq__panel_8cpp_source.html#l00938">CUpdateSeqPanel::x_InitDrawingParams()</a>, and <a class="el" href="psl__record_8cpp_source.html#l00415">CPslRecord::xInitializeSequenceInfo()</a>.</p>
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<a id="a4c7f4d2c490d58dd24087a77fadad637"></a>
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<h2 class="memtitle"><span class="permalink"><a href="#a4c7f4d2c490d58dd24087a77fadad637">◆ </a></span>GetSeqStop()</h2>
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<td class="memname"><a class="el" href="group__AppFramework.html#ga7576cbabf7b457b1a66d0a1d985fe176">TSeqPos</a> CDense_seg::GetSeqStop </td>
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<td>(</td>
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<td class="paramtype"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gaef7c889da11be3e7fc9880239925b1ef">TDim</a> </td>
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<td class="paramname"><em>row</em></td><td>)</td>
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8cpp_source.html#l00203">203</a> of file <a class="el" href="Dense__seg_8cpp_source.html">Dense_seg.cpp</a>.</p>
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<p class="reference">References <a class="el" href="Dense__seg___8hpp_source.html#l00574">CDense_seg_Base::CanGetStrands()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00109">CheckNumSegs()</a>, <a class="el" href="Na__strand___8hpp_source.html#l00067">eNa_strand_minus</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00421">CDense_seg_Base::GetDim()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00555">CDense_seg_Base::GetLens()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00530">CDense_seg_Base::GetStarts()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00580">CDense_seg_Base::GetStrands()</a>, <a class="el" href="ncbiexpt_8hpp_source.html#l00704">NCBI_THROW</a>, <a class="el" href="string__bind_8c_source.html#l00073">row</a>, and <a class="el" href="namespacencbi_1_1grid_1_1netcache_1_1search_1_1fields.html#a0f3896dcec83a75496951b513af45a54">ncbi::grid::netcache::search::fields::size</a>.</p>
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<p class="reference">Referenced by <a class="el" href="Dense__seg_8cpp_source.html#l00747">ExtractSlice()</a>, <a class="el" href="Dense__seg_8hpp_source.html#l00234">GetSeqRange()</a>, <a class="el" href="Seq__align_8cpp_source.html#l00273">CSeq_align::GetSeqStop()</a>, <a class="el" href="contig__assembly_8cpp_source.html#l00445">CContigAssembly::IsAtLeastHalfDovetail()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00922">RemapToLoc()</a>, <a class="el" href="basic__converters_8cpp_source.html#l00350">s_Seq_align_Seq_loc()</a>, <a class="el" href="update__seq__panel_8cpp_source.html#l00938">CUpdateSeqPanel::x_InitDrawingParams()</a>, and <a class="el" href="psl__record_8cpp_source.html#l00415">CPslRecord::xInitializeSequenceInfo()</a>.</p>
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<h2 class="memtitle"><span class="permalink"><a href="#a2373b6815d5f802154fb2a47cbce17c2">◆ </a></span>GetSeqStrand()</h2>
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<td class="memname"><a class="el" href="group__dataspec__NCBI__Seqloc.html#ga2d4d48fde1d3f62563eac193a3b5afae">ENa_strand</a> CDense_seg::GetSeqStrand </td>
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<td class="paramname"><em>row</em></td><td>)</td>
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8cpp_source.html#l00241">241</a> of file <a class="el" href="Dense__seg_8cpp_source.html">Dense_seg.cpp</a>.</p>
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<p class="reference">References <a class="el" href="Dense__seg_8cpp_source.html#l00092">CheckNumRows()</a>, <a class="el" href="Na__strand___8hpp_source.html#l00066">eNa_strand_plus</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00580">CDense_seg_Base::GetStrands()</a>, <a class="el" href="ncbiexpt_8hpp_source.html#l00704">NCBI_THROW</a>, and <a class="el" href="string__bind_8c_source.html#l00073">row</a>.</p>
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<p class="reference">Referenced by <a class="el" href="Seq__align_8cpp_source.html#l00294">CSeq_align::GetSeqStrand()</a>, <a class="el" href="basic__converters_8cpp_source.html#l00350">s_Seq_align_Seq_loc()</a>, <a class="el" href="tabular_8cpp_source.html#l00743">CBlastTabularInfo::SetFields()</a>, <a class="el" href="update__seq__panel_8cpp_source.html#l00938">CUpdateSeqPanel::x_InitDrawingParams()</a>, <a class="el" href="contig__assembly_8cpp_source.html#l00939">CContigAssembly::x_IsAllowedStrands()</a>, <a class="el" href="inversion__merge__aligner_8cpp_source.html#l00376">CInversionMergeAligner::x_MergeSeqAlignSet()</a>, <a class="el" href="merge__aligner_8cpp_source.html#l00167">CMergeAligner::x_MergeSeqAlignSet()</a>, <a class="el" href="banded__aligner_8cpp_source.html#l00424">CInstancedAligner::x_RunCleanup()</a>, <a class="el" href="psl__record_8cpp_source.html#l00437">CPslRecord::xInitializeStatsAndBlocks()</a>, and <a class="el" href="psl__record_8cpp_source.html#l00404">CPslRecord::xInitializeStrands()</a>.</p>
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<h2 class="memtitle"><span class="permalink"><a href="#adf98ed583ef2a69f60cecd3174d6c397">◆ </a></span>GetWidths()</h2>
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<td class="memname"><a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> vector< <a class="el" href="group__mdb__copy.html#ga10cfb7d4996b006d5675b53b9c7f0fb5">int</a> > & CDense_seg::GetWidths </td>
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8hpp_source.html#l00210">210</a> of file <a class="el" href="Dense__seg_8hpp_source.html">Dense_seg.hpp</a>.</p>
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<p class="reference">References <a class="el" href="Dense__seg_8hpp_source.html#l00177">m_Widths</a>.</p>
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<p class="reference">Referenced by <a class="el" href="alnseq_8cpp_source.html#l00105">CAlnMixSequences::Add()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00109">CheckNumSegs()</a>, <a class="el" href="showalign_8cpp_source.html#l01910">CDisplaySeqalign::DisplaySeqalign()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00274">Validate()</a>, <a class="el" href="cigar__formatter_8cpp_source.html#l00157">CCIGAR_Formatter::x_FormatLine()</a>, and <a class="el" href="gff3__writer_8cpp_source.html#l00965">CGff3Writer::xAssignAlignmentDensegGap()</a>.</p>
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<h2 class="memtitle"><span class="permalink"><a href="#a911e3476096ac09ec84352c4566a95b9">◆ </a></span>IsSetWidths()</h2>
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<td class="memname"><a class="el" href="static__set_8hpp.html#af6a258d8f3ee5206d682d799316314b1">bool</a> CDense_seg::IsSetWidths </td>
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8hpp_source.html#l00196">196</a> of file <a class="el" href="Dense__seg_8hpp_source.html">Dense_seg.hpp</a>.</p>
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<p class="reference">References <a class="el" href="Dense__seg_8hpp_source.html#l00176">m_set_State1</a>.</p>
|
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||
<p class="reference">Referenced by <a class="el" href="alnmix_8cpp_source.html#l00120">CAlnMix::Add()</a>, <a class="el" href="alnseq_8cpp_source.html#l00105">CAlnMixSequences::Add()</a>, <a class="el" href="alignment__job_8cpp_source.html#l02252">BuildAlignDataSource()</a>, <a class="el" href="showalign_8cpp_source.html#l01910">CDisplaySeqalign::DisplaySeqalign()</a>, <a class="el" href="score__builder__base_8cpp_source.html#l00506">s_IsProteinToGenomic()</a>, and <a class="el" href="alnmix_8cpp_source.html#l00171">CAlnMix::x_ExtendDSWithWidths()</a>.</p>
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||
</div>
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||
</div>
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<a id="a6b70349cf778d4ce13f79f477ce7dbc3"></a>
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<h2 class="memtitle"><span class="permalink"><a href="#a6b70349cf778d4ce13f79f477ce7dbc3">◆ </a></span>OffsetRow()</h2>
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<div class="memitem">
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||
<div class="memproto">
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<table class="memname">
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<tr>
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<td class="memname">void CDense_seg::OffsetRow </td>
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||
<td>(</td>
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||
<td class="paramtype"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gaef7c889da11be3e7fc9880239925b1ef">TDim</a> </td>
|
||
<td class="paramname"><em>row</em>, </td>
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||
</tr>
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||
<tr>
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||
<td class="paramkey"></td>
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||
<td></td>
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||
<td class="paramtype"><a class="el" href="group__AppFramework.html#ga92c3033316f74e84da312174e871d85c">TSignedSeqPos</a> </td>
|
||
<td class="paramname"><em>offset</em> </td>
|
||
</tr>
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<tr>
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||
<td></td>
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<td>)</td>
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<td></td><td></td>
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</tr>
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</div><div class="memdoc">
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<p>Offset row's coords. </p>
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8cpp_source.html#l00890">890</a> of file <a class="el" href="Dense__seg_8cpp_source.html">Dense_seg.cpp</a>.</p>
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||
<p class="reference">References <a class="el" href="Dense__seg___8hpp_source.html#l00421">CDense_seg_Base::GetDim()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00465">CDense_seg_Base::GetNumseg()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00530">CDense_seg_Base::GetStarts()</a>, <a class="el" href="ncbiexpt_8hpp_source.html#l00704">NCBI_THROW</a>, <a class="el" href="ftds100_2freetds_2replacements_8h_source.html#l00160">offset</a>, <a class="el" href="string__bind_8c_source.html#l00073">row</a>, and <a class="el" href="Dense__seg___8hpp_source.html#l00536">CDense_seg_Base::SetStarts()</a>.</p>
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||
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||
<p class="reference">Referenced by <a class="el" href="Seq__align_8cpp_source.html#l01332">CSeq_align::OffsetRow()</a>, <a class="el" href="alignment__scorer_8cpp_source.html#l00400">CClippedScorer::ScoreAlignments()</a>, <a class="el" href="unordered__spliter_8cpp_source.html#l00471">CUnorderedSplitter::x_FixAlignment()</a>, and <a class="el" href="banded__aligner_8cpp_source.html#l00318">CInstancedAligner::x_RunMMGlobal()</a>.</p>
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||
</div>
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</div>
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<a id="a07190ad7d97dafd680b14ac8664906f3"></a>
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||
<h2 class="memtitle"><span class="permalink"><a href="#a07190ad7d97dafd680b14ac8664906f3">◆ </a></span>operator=()</h2>
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||
<div class="memitem">
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<div class="memproto">
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<table class="mlabels">
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<tr>
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<td class="mlabels-left">
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<td class="memname"><a class="el" href="classCDense__seg.html">CDense_seg</a>& CDense_seg::operator= </td>
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||
<td>(</td>
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||
<td class="paramtype"><a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="classCDense__seg.html">CDense_seg</a> & </td>
|
||
<td class="paramname"><em>value</em></td><td>)</td>
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||
<td></td>
|
||
</tr>
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||
</table>
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</td>
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||
<td class="mlabels-right">
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<span class="mlabels"><span class="mlabel">private</span></span> </td>
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</tr>
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||
</table>
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||
</div><div class="memdoc">
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</div>
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||
</div>
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<a id="a8cf11361681f781cee015d7a7345b40f"></a>
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<h2 class="memtitle"><span class="permalink"><a href="#a8cf11361681f781cee015d7a7345b40f">◆ </a></span>OrderAdjacentGaps()</h2>
|
||
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||
<div class="memitem">
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||
<div class="memproto">
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||
<td class="memname">void CDense_seg::OrderAdjacentGaps </td>
|
||
<td>(</td>
|
||
<td class="paramname"></td><td>)</td>
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||
<td></td>
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</div><div class="memdoc">
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||
<p>Order adjacent gaps, so that the side with sequence is in row-decending order. </p>
|
||
|
||
<p class="definition">Definition at line <a class="el" href="Dense__seg_8cpp_source.html#l00534">534</a> of file <a class="el" href="Dense__seg_8cpp_source.html">Dense_seg.cpp</a>.</p>
|
||
|
||
<p class="reference">References <a class="el" href="Dense__seg___8hpp_source.html#l00421">CDense_seg_Base::GetDim()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00465">CDense_seg_Base::GetNumseg()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00530">CDense_seg_Base::GetStarts()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00580">CDense_seg_Base::GetStrands()</a>, <a class="el" href="lex_8newick_8cpp_source.html#l01456">i</a>, <a class="el" href="Dense__seg_8cpp.html#adec9f2b9f44ad744d822b0162b88964d">IDX</a>, <a class="el" href="njn__function_8hpp_source.html#l00107">min()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00561">CDense_seg_Base::SetLens()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00536">CDense_seg_Base::SetStarts()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00586">CDense_seg_Base::SetStrands()</a>, <a class="el" href="namespacencbi_1_1grid_1_1netcache_1_1search_1_1fields.html#a0f3896dcec83a75496951b513af45a54">ncbi::grid::netcache::search::fields::size</a>, and <a class="el" href="ncbimisc_8hpp_source.html#l01508">swap()</a>.</p>
|
||
|
||
</div>
|
||
</div>
|
||
<a id="ad65e2b519061d8981550b49b01e7fa3c"></a>
|
||
<h2 class="memtitle"><span class="permalink"><a href="#ad65e2b519061d8981550b49b01e7fa3c">◆ </a></span>RemapToLoc()</h2>
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||
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||
<div class="memitem">
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<div class="memproto">
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<tr>
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||
<td class="memname">void CDense_seg::RemapToLoc </td>
|
||
<td>(</td>
|
||
<td class="paramtype"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gaef7c889da11be3e7fc9880239925b1ef">TDim</a> </td>
|
||
<td class="paramname"><em>row</em>, </td>
|
||
</tr>
|
||
<tr>
|
||
<td class="paramkey"></td>
|
||
<td></td>
|
||
<td class="paramtype"><a class="el" href="zconf__cf_8h.html#a2c212835823e3c54a8ab6d95c652660e">const</a> <a class="el" href="classCSeq__loc.html">CSeq_loc</a> & </td>
|
||
<td class="paramname"><em>loc</em>, </td>
|
||
</tr>
|
||
<tr>
|
||
<td class="paramkey"></td>
|
||
<td></td>
|
||
<td class="paramtype"><a class="el" href="static__set_8hpp.html#af6a258d8f3ee5206d682d799316314b1">bool</a> </td>
|
||
<td class="paramname"><em>ignore_strand</em> = <code><a class="el" href="ftds14_2freetds_2freetds_2bool_8h.html#a65e9886d74aaee76545e83dd09011727">false</a></code> </td>
|
||
</tr>
|
||
<tr>
|
||
<td></td>
|
||
<td>)</td>
|
||
<td></td><td></td>
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||
</table>
|
||
</div><div class="memdoc">
|
||
<dl class="deprecated"><dt><b><a class="el" href="deprecated.html#_deprecated000188">Deprecated:</a></b></dt><dd>(use sequence::RemapAlignToLoc()) </dd></dl>
|
||
<dl class="section see"><dt>See also</dt><dd><a class="el" href="group__ObjUtilSeqAlign.html#ga55046566c695f79417a64f12924a583a" title="Remap seq-align row to the seq-loc.">RemapAlignToLoc</a></dd></dl>
|
||
<dl class="deprecated"><dt><b><a class="el" href="deprecated.html#_deprecated000248">Deprecated:</a></b></dt><dd></dd></dl>
|
||
|
||
<p class="definition">Definition at line <a class="el" href="Dense__seg_8cpp_source.html#l00922">922</a> of file <a class="el" href="Dense__seg_8cpp_source.html">Dense_seg.cpp</a>.</p>
|
||
|
||
<p class="reference">References <a class="el" href="Dense__seg_8cpp_source.html#l00092">CheckNumRows()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00109">CheckNumSegs()</a>, <a class="el" href="Na__strand___8hpp_source.html#l00067">eNa_strand_minus</a>, <a class="el" href="Na__strand___8hpp_source.html#l00066">eNa_strand_plus</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00421">CDense_seg_Base::GetDim()</a>, <a class="el" href="Range___8hpp_source.html#l00222">CRange_Base::GetFrom()</a>, <a class="el" href="range_8hpp_source.html#l00158">COpenRange< Position >::GetLength()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00555">CDense_seg_Base::GetLens()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00465">CDense_seg_Base::GetNumseg()</a>, <a class="el" href="Seq__loc_8hpp_source.html#l01042">CSeq_loc_CI::GetRange()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00203">GetSeqStop()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00530">CDense_seg_Base::GetStarts()</a>, <a class="el" href="Seq__loc_8hpp_source.html#l01056">CSeq_loc_CI::GetStrand()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00580">CDense_seg_Base::GetStrands()</a>, <a class="el" href="Seq__loc___8hpp_source.html#l00522">CSeq_loc_Base::IsWhole()</a>, <a class="el" href="lex_8newick_8cpp_source.html#l01450">len</a>, <a class="el" href="ncbiexpt_8hpp_source.html#l00704">NCBI_THROW</a>, <a class="el" href="corelib_2ncbistr_8hpp_source.html#l00673">NStr::NumericToString()</a>, <a class="el" href="string__bind_8c_source.html#l00073">row</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00561">CDense_seg_Base::SetLens()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00481">CDense_seg_Base::SetNumseg()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00536">CDense_seg_Base::SetStarts()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00586">CDense_seg_Base::SetStrands()</a>, and <a class="el" href="ncbistr_8cpp_source.html#l02742">NStr::SizetToString()</a>.</p>
|
||
|
||
<p class="reference">Referenced by <a class="el" href="Seq__align_8cpp_source.html#l01365">CSeq_align::RemapToLoc()</a>.</p>
|
||
|
||
</div>
|
||
</div>
|
||
<a id="a6c12d2bae223f1bcfd8524b9bcb2ecc2"></a>
|
||
<h2 class="memtitle"><span class="permalink"><a href="#a6c12d2bae223f1bcfd8524b9bcb2ecc2">◆ </a></span>RemovePureGapSegs()</h2>
|
||
|
||
<div class="memitem">
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||
<div class="memproto">
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|
||
<tr>
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||
<td class="memname">void CDense_seg::RemovePureGapSegs </td>
|
||
<td>(</td>
|
||
<td class="paramname"></td><td>)</td>
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||
<td></td>
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</div><div class="memdoc">
|
||
|
||
<p>Remove any segments in which every row has a gap (these can arise when ExtractRows is used) </p>
|
||
<dl class="section see"><dt>See also</dt><dd><a class="el" href="classCDense__seg.html#a0aafeb368d6486774e29f2a04dd41484" title="Extract specified rows of the alignment, in specified order.">ExtractRows</a> </dd></dl>
|
||
|
||
<p class="definition">Definition at line <a class="el" href="Dense__seg_8cpp_source.html#l00574">574</a> of file <a class="el" href="Dense__seg_8cpp_source.html">Dense_seg.cpp</a>.</p>
|
||
|
||
<p class="reference">References <a class="el" href="Dense__seg_8cpp_source.html#l00077">ASSERT_CONSISTENCY</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00092">CheckNumRows()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00109">CheckNumSegs()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00555">CDense_seg_Base::GetLens()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00530">CDense_seg_Base::GetStarts()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00580">CDense_seg_Base::GetStrands()</a>, <a class="el" href="lex_8newick_8cpp_source.html#l01456">i</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00568">CDense_seg_Base::IsSetStrands()</a>, <a class="el" href="ftds100_2freetds_2freetds_2dlist_8tmpl_8h_source.html#l00090">remove()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00561">CDense_seg_Base::SetLens()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00481">CDense_seg_Base::SetNumseg()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00536">CDense_seg_Base::SetStarts()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00586">CDense_seg_Base::SetStrands()</a>, <a class="el" href="namespacencbi_1_1grid_1_1netcache_1_1search_1_1fields.html#a0f3896dcec83a75496951b513af45a54">ncbi::grid::netcache::search::fields::size</a>, and <a class="el" href="Dense__seg_8cpp_source.html#l00274">Validate()</a>.</p>
|
||
|
||
<p class="reference">Referenced by <a class="el" href="macro__fn__do_8cpp_source.html#l01537">CMacroFunction_RemoveSegGaps::s_RemoveSegGaps()</a>, <a class="el" href="cobalt__unit__test_8cpp_source.html#l01028">s_TestAlignmentFromMSAs()</a>, <a class="el" href="inversion__merge__aligner_8cpp_source.html#l00264">CInversionMergeAligner::x_CreateDiscAlignment()</a>, <a class="el" href="unordered__spliter_8cpp_source.html#l00547">CUnorderedSplitter::x_MakeAlignmentPairUnique()</a>, and <a class="el" href="update__align_8cpp_source.html#l00195">CUpdateAlign::x_RemoveIDsFromAlign()</a>.</p>
|
||
|
||
</div>
|
||
</div>
|
||
<a id="a2661ae30add46469155964025af4a311"></a>
|
||
<h2 class="memtitle"><span class="permalink"><a href="#a2661ae30add46469155964025af4a311">◆ </a></span>ResetWidths()</h2>
|
||
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||
<div class="memitem">
|
||
<div class="memproto">
|
||
<table class="mlabels">
|
||
<tr>
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||
<td class="mlabels-left">
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||
<table class="memname">
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||
<tr>
|
||
<td class="memname">void CDense_seg::ResetWidths </td>
|
||
<td>(</td>
|
||
<td class="paramtype">void </td>
|
||
<td class="paramname"></td><td>)</td>
|
||
<td></td>
|
||
</tr>
|
||
</table>
|
||
</td>
|
||
<td class="mlabels-right">
|
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<span class="mlabels"><span class="mlabel">inline</span></span> </td>
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8hpp_source.html#l00225">225</a> of file <a class="el" href="Dense__seg_8hpp_source.html">Dense_seg.hpp</a>.</p>
|
||
|
||
<p class="reference">References <a class="el" href="Dense__seg_8hpp_source.html#l00176">m_set_State1</a>, and <a class="el" href="Dense__seg_8hpp_source.html#l00177">m_Widths</a>.</p>
|
||
|
||
<p class="reference">Referenced by <a class="el" href="Seq__align_8cpp_source.html#l00728">CSeq_align::CreateDensegFromStdseg()</a>, and <a class="el" href="cigar__formatter_8cpp_source.html#l00356">CCIGAR_Formatter::x_FormatDensegRows()</a>.</p>
|
||
|
||
</div>
|
||
</div>
|
||
<a id="a5829a26c56c5563ec722acd438bb56bc"></a>
|
||
<h2 class="memtitle"><span class="permalink"><a href="#a5829a26c56c5563ec722acd438bb56bc">◆ </a></span>Reverse()</h2>
|
||
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||
<div class="memitem">
|
||
<div class="memproto">
|
||
<table class="memname">
|
||
<tr>
|
||
<td class="memname">void CDense_seg::Reverse </td>
|
||
<td>(</td>
|
||
<td class="paramtype">void </td>
|
||
<td class="paramname"></td><td>)</td>
|
||
<td></td>
|
||
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|
||
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|
||
</div><div class="memdoc">
|
||
|
||
<p>Reverse the segments' orientation. </p>
|
||
|
||
<p class="definition">Definition at line <a class="el" href="Dense__seg_8cpp_source.html#l00644">644</a> of file <a class="el" href="Dense__seg_8cpp_source.html">Dense_seg.cpp</a>.</p>
|
||
|
||
<p class="reference">References <a class="el" href="Na__strand___8hpp_source.html#l00067">eNa_strand_minus</a>, <a class="el" href="Na__strand___8hpp_source.html#l00066">eNa_strand_plus</a>, <a class="el" href="ftds100_2freetds_2tds_2unittests_2readconf_8c_source.html#l00023">f</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00421">CDense_seg_Base::GetDim()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00465">CDense_seg_Base::GetNumseg()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00530">CDense_seg_Base::GetStarts()</a>, <a class="el" href="lex_8newick_8cpp_source.html#l01456">i</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00568">CDense_seg_Base::IsSetStrands()</a>, <a class="el" href="ncbimisc_8hpp_source.html#l00822">NON_CONST_ITERATE</a>, <a class="el" href="njn__localmaxstatutil_8hpp.html#a528746e9ddcc245107c2546995139b42">r()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00561">CDense_seg_Base::SetLens()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00536">CDense_seg_Base::SetStarts()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00586">CDense_seg_Base::SetStrands()</a>, <a class="el" href="namespacencbi_1_1grid_1_1netcache_1_1search_1_1fields.html#a0f3896dcec83a75496951b513af45a54">ncbi::grid::netcache::search::fields::size</a>, and <a class="el" href="ncbimisc_8hpp_source.html#l01508">swap()</a>.</p>
|
||
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||
<p class="reference">Referenced by <a class="el" href="Seq__align_8cpp_source.html#l00685">CSeq_align::Reverse()</a>, <a class="el" href="blastxml2__format_8cpp_source.html#l00096">s_SeqAlignSetToXMLHsps()</a>, <a class="el" href="tabular_8cpp_source.html#l00743">CBlastTabularInfo::SetFields()</a>, <a class="el" href="showalign_8cpp_source.html#l01817">CDisplaySeqalign::x_GetAlnVecForSeqalign()</a>, <a class="el" href="inversion__merge__aligner_8cpp_source.html#l00376">CInversionMergeAligner::x_MergeSeqAlignSet()</a>, <a class="el" href="merge__aligner_8cpp_source.html#l00167">CMergeAligner::x_MergeSeqAlignSet()</a>, <a class="el" href="contig__assembly_8cpp_source.html#l00926">CContigAssembly::x_OrientAlign()</a>, and <a class="el" href="banded__aligner_8cpp_source.html#l00424">CInstancedAligner::x_RunCleanup()</a>.</p>
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</div>
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||
<a id="a5fc48803ffdd5c152fbf0177f9a42a13"></a>
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<h2 class="memtitle"><span class="permalink"><a href="#a5fc48803ffdd5c152fbf0177f9a42a13">◆ </a></span>SetGlobalReserveHooks()</h2>
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||
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<div class="memproto">
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<td class="memname">void CDense_seg::SetGlobalReserveHooks </td>
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<td>(</td>
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<td class="paramtype">void </td>
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||
<td class="paramname"></td><td>)</td>
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<td></td>
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<span class="mlabels"><span class="mlabel">static</span></span> </td>
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8cpp_source.html#l01541">1541</a> of file <a class="el" href="Dense__seg_8cpp_source.html">Dense_seg.cpp</a>.</p>
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<p class="reference">References <a class="el" href="Dense__seg_8cpp_source.html#l01579">CDenseSegReserveStartsHook::SetGlobalHook()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l01616">CDenseSegReserveLensHook::SetGlobalHook()</a>, and <a class="el" href="Dense__seg_8cpp_source.html#l01653">CDenseSegReserveStrandsHook::SetGlobalHook()</a>.</p>
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</div>
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<a id="ad968cc4035826dc88f84b9aaedc7e344"></a>
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<h2 class="memtitle"><span class="permalink"><a href="#ad968cc4035826dc88f84b9aaedc7e344">◆ </a></span>SetReserveHooks()</h2>
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<div class="memitem">
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<div class="memproto">
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<td class="memname">void CDense_seg::SetReserveHooks </td>
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<td>(</td>
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<td class="paramtype"><a class="el" href="classCObjectIStream.html">CObjectIStream</a> & </td>
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<td class="paramname"><em>in</em></td><td>)</td>
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<span class="mlabels"><span class="mlabel">static</span></span> </td>
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8cpp_source.html#l01533">1533</a> of file <a class="el" href="Dense__seg_8cpp_source.html">Dense_seg.cpp</a>.</p>
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||
<p class="reference">References <a class="el" href="njn__ioutil_8hpp.html#aa029e096c7401a85236905f54d884554">in()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l01572">CDenseSegReserveStartsHook::SetHook()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l01609">CDenseSegReserveLensHook::SetHook()</a>, and <a class="el" href="Dense__seg_8cpp_source.html#l01646">CDenseSegReserveStrandsHook::SetHook()</a>.</p>
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<a id="a6ce3418c7d81df20604c21d7d3cfb0d9"></a>
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<h2 class="memtitle"><span class="permalink"><a href="#a6ce3418c7d81df20604c21d7d3cfb0d9">◆ </a></span>SetWidths()</h2>
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||
<div class="memitem">
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||
<div class="memproto">
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<td class="memname">vector< <a class="el" href="group__mdb__copy.html#ga10cfb7d4996b006d5675b53b9c7f0fb5">int</a> > & CDense_seg::SetWidths </td>
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||
<td>(</td>
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<td class="paramtype">void </td>
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<td></td>
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<td class="mlabels-right">
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8hpp_source.html#l00217">217</a> of file <a class="el" href="Dense__seg_8hpp_source.html">Dense_seg.hpp</a>.</p>
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||
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||
<p class="reference">References <a class="el" href="Dense__seg_8hpp_source.html#l00176">m_set_State1</a>, and <a class="el" href="Dense__seg_8hpp_source.html#l00177">m_Widths</a>.</p>
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<p class="reference">Referenced by <a class="el" href="Spliced__seg_8cpp_source.html#l00492">CSpliced_seg::AsDiscSeg()</a>, <a class="el" href="alnmap_8cpp_source.html#l01404">CAlnMap::CreateAlignFromRange()</a>, <a class="el" href="Seq__align_8cpp_source.html#l00728">CSeq_align::CreateDensegFromStdseg()</a>, <a class="el" href="Seq__align_8cpp_source.html#l00953">CSeq_align::CreateTranslatedDensegFromNADenseg()</a>, <a class="el" href="alnmerger_8cpp_source.html#l01156">CAlnMixMerger::x_CreateDenseg()</a>, and <a class="el" href="alnmix_8cpp_source.html#l00171">CAlnMix::x_ExtendDSWithWidths()</a>.</p>
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||
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<a id="a837001c1c9b68daf9f1b1439b9183c45"></a>
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<h2 class="memtitle"><span class="permalink"><a href="#a837001c1c9b68daf9f1b1439b9183c45">◆ </a></span>SwapRows()</h2>
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||
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<td class="memname">void CDense_seg::SwapRows </td>
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<td>(</td>
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||
<td class="paramtype"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gaef7c889da11be3e7fc9880239925b1ef">TDim</a> </td>
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||
<td class="paramname"><em>row1</em>, </td>
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<td class="paramkey"></td>
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||
<td></td>
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||
<td class="paramtype"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gaef7c889da11be3e7fc9880239925b1ef">TDim</a> </td>
|
||
<td class="paramname"><em>row2</em> </td>
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<td>)</td>
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<p>Swap two rows (changing *order*, not content) </p>
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8cpp_source.html#l00686">686</a> of file <a class="el" href="Dense__seg_8cpp_source.html">Dense_seg.cpp</a>.</p>
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||
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||
<p class="reference">References <a class="el" href="Dense__seg___8hpp_source.html#l00421">CDense_seg_Base::GetDim()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00465">CDense_seg_Base::GetNumseg()</a>, <a class="el" href="lex_8newick_8cpp_source.html#l01456">i</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00568">CDense_seg_Base::IsSetStrands()</a>, <a class="el" href="ncbiexpt_8hpp_source.html#l00704">NCBI_THROW</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00511">CDense_seg_Base::SetIds()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00536">CDense_seg_Base::SetStarts()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00586">CDense_seg_Base::SetStrands()</a>, and <a class="el" href="ncbimisc_8hpp_source.html#l01508">swap()</a>.</p>
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||
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||
<p class="reference">Referenced by <a class="el" href="Seq__align_8cpp_source.html#l00701">CSeq_align::SwapRows()</a>.</p>
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||
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||
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|
||
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||
<a id="a0077c0fbc2f4553f37c2f7fb00df6965"></a>
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||
<h2 class="memtitle"><span class="permalink"><a href="#a0077c0fbc2f4553f37c2f7fb00df6965">◆ </a></span>TrimEndGaps()</h2>
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||
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||
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||
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||
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<td class="memname">void CDense_seg::TrimEndGaps </td>
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||
<td>(</td>
|
||
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<p>Trim leading/training gaps if possible. </p>
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8cpp_source.html#l00344">344</a> of file <a class="el" href="Dense__seg_8cpp_source.html">Dense_seg.cpp</a>.</p>
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||
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||
<p class="reference">References <a class="el" href="test__assert__impl_8h_source.html#l00173">_ASSERT</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00077">ASSERT_CONSISTENCY</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00421">CDense_seg_Base::GetDim()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00555">CDense_seg_Base::GetLens()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00465">CDense_seg_Base::GetNumseg()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00530">CDense_seg_Base::GetStarts()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00580">CDense_seg_Base::GetStrands()</a>, <a class="el" href="lex_8newick_8cpp_source.html#l01456">i</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00543">CDense_seg_Base::IsSetLens()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00518">CDense_seg_Base::IsSetStarts()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00568">CDense_seg_Base::IsSetStrands()</a>, <a class="el" href="njn__localmaxstatutil_8hpp.html#a528746e9ddcc245107c2546995139b42">r()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00561">CDense_seg_Base::SetLens()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00481">CDense_seg_Base::SetNumseg()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00536">CDense_seg_Base::SetStarts()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00586">CDense_seg_Base::SetStrands()</a>, and <a class="el" href="namespacencbi_1_1grid_1_1netcache_1_1search_1_1fields.html#a0f3896dcec83a75496951b513af45a54">ncbi::grid::netcache::search::fields::size</a>.</p>
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||
<p class="reference">Referenced by <a class="el" href="nw__formatter_8cpp_source.html#l00150">CNWFormatter::AsDenseSeg()</a>, <a class="el" href="inversion__merge__aligner_8cpp_source.html#l00264">CInversionMergeAligner::x_CreateDiscAlignment()</a>, <a class="el" href="Seq__align_8cpp_source.html#l02230">CSeq_align::x_CreateSubsegAlignment()</a>, <a class="el" href="unordered__spliter_8cpp_source.html#l00547">CUnorderedSplitter::x_MakeAlignmentPairUnique()</a>, and <a class="el" href="banded__aligner_8cpp_source.html#l00318">CInstancedAligner::x_RunMMGlobal()</a>.</p>
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||
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<a id="ad4dc1577445721c5ce2584d2ef0572ed"></a>
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<h2 class="memtitle"><span class="permalink"><a href="#ad4dc1577445721c5ce2584d2ef0572ed">◆ </a></span>Validate()</h2>
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||
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<td class="memname">void CDense_seg::Validate </td>
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||
<td>(</td>
|
||
<td class="paramtype"><a class="el" href="static__set_8hpp.html#af6a258d8f3ee5206d682d799316314b1">bool</a> </td>
|
||
<td class="paramname"><em>full_test</em> = <code><a class="el" href="ftds14_2freetds_2freetds_2bool_8h.html#a65e9886d74aaee76545e83dd09011727">false</a></code></td><td>)</td>
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<td> const</td>
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8cpp_source.html#l00274">274</a> of file <a class="el" href="Dense__seg_8cpp_source.html">Dense_seg.cpp</a>.</p>
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||
|
||
<p class="reference">References <a class="el" href="Dense__seg_8cpp_source.html#l00092">CheckNumRows()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00109">CheckNumSegs()</a>, <a class="el" href="Na__strand___8hpp_source.html#l00067">eNa_strand_minus</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00555">CDense_seg_Base::GetLens()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00530">CDense_seg_Base::GetStarts()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00580">CDense_seg_Base::GetStrands()</a>, <a class="el" href="Dense__seg_8hpp_source.html#l00210">GetWidths()</a>, <a class="el" href="njn__function_8hpp_source.html#l00105">max()</a>, <a class="el" href="ncbiexpt_8hpp_source.html#l00704">NCBI_THROW</a>, <a class="el" href="corelib_2ncbistr_8hpp_source.html#l00673">NStr::NumericToString()</a>, <a class="el" href="ftds100_2freetds_2replacements_8h_source.html#l00160">offset</a>, <a class="el" href="njn__function_8hpp.html#a910381920b1e2372603f688b27ee3ed2">plus()</a>, <a class="el" href="ncbistr_8cpp_source.html#l02742">NStr::SizetToString()</a>, and <a class="el" href="cgiapp_8hpp_source.html#l00690">string</a>.</p>
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||
|
||
<p class="reference">Referenced by <a class="el" href="alnmix_8cpp_source.html#l00120">CAlnMix::Add()</a>, <a class="el" href="alnvwrapp_8cpp_source.html#l00089">CAlnVwrApp::AddAlnToMix()</a>, <a class="el" href="pssmcreate__cdd__unit__test_8cpp_source.html#l00870">BOOST_AUTO_TEST_CASE()</a>, <a class="el" href="aln__generators_8cpp_source.html#l00332">CreateDensegFromAnchoredAln()</a>, <a class="el" href="aln__generators_8cpp_source.html#l00442">CreateDensegFromPairwiseAln()</a>, <a class="el" href="Seq__align_8cpp_source.html#l00953">CSeq_align::CreateTranslatedDensegFromNADenseg()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00837">ExtractRows()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00747">ExtractSlice()</a>, <a class="el" href="Dense__seg_8cpp_source.html#l00574">RemovePureGapSegs()</a>, <a class="el" href="Seq__align_8cpp_source.html#l00649">CSeq_align::Validate()</a>, <a class="el" href="pssmcreate__cdd__unit__test_8cpp_source.html#l01073">CPssmCddInputTest::x_CreateAlignment()</a>, <a class="el" href="alnmerger_8cpp_source.html#l01156">CAlnMixMerger::x_CreateDenseg()</a>, and <a class="el" href="alnmix_8cpp_source.html#l00171">CAlnMix::x_ExtendDSWithWidths()</a>.</p>
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<a id="ab40a2fc88ee83da87f5af6f277b82cca"></a>
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<h2 class="memtitle"><span class="permalink"><a href="#ab40a2fc88ee83da87f5af6f277b82cca">◆ </a></span>x_FindSegment()</h2>
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||
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<td class="memname"><a class="el" href="group__dataspec__NCBI__Seqalign.html#ga062fd9f3065b6f90ac4cea1f6f0aa515">CDense_seg::TNumseg</a> CDense_seg::x_FindSegment </td>
|
||
<td>(</td>
|
||
<td class="paramtype"><a class="el" href="group__dataspec__NCBI__Seqalign.html#gaef7c889da11be3e7fc9880239925b1ef">CDense_seg::TDim</a> </td>
|
||
<td class="paramname"><em>row</em>, </td>
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||
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|
||
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||
<td class="paramkey"></td>
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||
<td></td>
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<td class="paramtype"><a class="el" href="group__AppFramework.html#ga92c3033316f74e84da312174e871d85c">TSignedSeqPos</a> </td>
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||
<td class="paramname"><em>pos</em> </td>
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||
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||
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8cpp_source.html#l00718">718</a> of file <a class="el" href="Dense__seg_8cpp_source.html">Dense_seg.cpp</a>.</p>
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<p class="reference">References <a class="el" href="Dense__seg___8hpp_source.html#l00421">CDense_seg_Base::GetDim()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00555">CDense_seg_Base::GetLens()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00465">CDense_seg_Base::GetNumseg()</a>, <a class="el" href="Dense__seg___8hpp_source.html#l00530">CDense_seg_Base::GetStarts()</a>, <a class="el" href="lex_8newick_8cpp_source.html#l01450">len</a>, <a class="el" href="ncbiexpt_8hpp_source.html#l00704">NCBI_THROW</a>, <a class="el" href="corelib_2ncbistr_8hpp_source.html#l00673">NStr::NumericToString()</a>, and <a class="el" href="string__bind_8c_source.html#l00073">row</a>.</p>
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||
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||
<p class="reference">Referenced by <a class="el" href="Dense__seg_8cpp_source.html#l00747">ExtractSlice()</a>.</p>
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<h2 class="groupheader">Member Data Documentation</h2>
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||
<a id="ac9336024d2fe5026cee3c55a654b8f64"></a>
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<h2 class="memtitle"><span class="permalink"><a href="#ac9336024d2fe5026cee3c55a654b8f64">◆ </a></span>m_set_State1</h2>
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<td class="memname"><a class="el" href="group__Portability.html#ga7b0b4ab610750dd0972e12d57827a00f">Uint4</a> CDense_seg::m_set_State1[1]</td>
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<span class="mlabels"><span class="mlabel">private</span></span> </td>
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8hpp_source.html#l00176">176</a> of file <a class="el" href="Dense__seg_8hpp_source.html">Dense_seg.hpp</a>.</p>
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<p class="reference">Referenced by <a class="el" href="Dense__seg_8cpp_source.html#l00062">Assign()</a>, <a class="el" href="Dense__seg_8hpp_source.html#l00196">IsSetWidths()</a>, <a class="el" href="Dense__seg_8hpp_source.html#l00181">NCBISER_HAVE_GLOBAL_READ_MEMBER_HOOK()</a>, <a class="el" href="Dense__seg_8hpp_source.html#l00225">ResetWidths()</a>, and <a class="el" href="Dense__seg_8hpp_source.html#l00217">SetWidths()</a>.</p>
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<a id="a114b0a18ac27e6a8092e6e53ed60d761"></a>
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<h2 class="memtitle"><span class="permalink"><a href="#a114b0a18ac27e6a8092e6e53ed60d761">◆ </a></span>m_Widths</h2>
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<div class="memitem">
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<td class="mlabels-left">
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<table class="memname">
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<td class="memname"><a class="el" href="classCDense__seg.html#ad2c2226aa21b1df9e6fe562caf230953">TWidths</a> CDense_seg::m_Widths</td>
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<td class="mlabels-right">
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<span class="mlabels"><span class="mlabel">private</span></span> </td>
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<p class="definition">Definition at line <a class="el" href="Dense__seg_8hpp_source.html#l00177">177</a> of file <a class="el" href="Dense__seg_8hpp_source.html">Dense_seg.hpp</a>.</p>
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<p class="reference">Referenced by <a class="el" href="Dense__seg_8cpp_source.html#l00062">Assign()</a>, <a class="el" href="Dense__seg_8hpp_source.html#l00210">GetWidths()</a>, <a class="el" href="Dense__seg_8hpp_source.html#l00225">ResetWidths()</a>, and <a class="el" href="Dense__seg_8hpp_source.html#l00217">SetWidths()</a>.</p>
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</div>
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<hr/>The documentation for this class was generated from the following files:<ul>
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<li>include/objects/seqalign/<a class="el" href="Dense__seg_8hpp_source.html">Dense_seg.hpp</a></li>
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<li>src/objects/seqalign/<a class="el" href="Dense__seg_8cpp_source.html">Dense_seg.cpp</a></li>
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</ul>
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Generated by <a href="https://www.doxygen.org/index.html"><img class="footer" src="doxygen.svg" width="104" height="31" alt="doxygen"/></a> 1.9.0
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</small></address>
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<address style="align: right;"><small>Modified on Fri Sep 20 14:58:14 2024 by modify_doxy.py rev. 669887</small></address>
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