739 lines
42 KiB
HTML
739 lines
42 KiB
HTML
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<link rel="shortcut icon" type="image/x-icon" href="/cxx-toolkit/static/img/favicon.ico">
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<title>NCBI C++ Toolkit Book</title>
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<meta http-equiv="Content-Type" content="text/html; charset=UTF-8">
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<meta name="description" content="A comprehensive manual on the NCBI C++ toolkit, including its design and development framework, a C++ library reference, software examples and demos, FAQs and release notes.">
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<div id="navbar">
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<nav class="navbar">
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<!-- header start -->
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<div class="header">
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<div class="ncbi_logo">
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<a href="https://www.ncbi.nlm.nih.gov/" target="_blank">
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<img title="NCBI Home Page" src="/cxx-toolkit/static/img/ncbi_logo1.png">
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</a>
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<div class="res_logo">
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<h1 class="res_name">
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<a href="https://ncbi.github.io/cxx-toolkit/" title="Table of Contents Page" id="toolkit_header">
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NCBI C++ Toolkit
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</a>
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</h1>
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</div>
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<div style="position: absolute; height: 80px; right: 200px; top: 0; width: 550px;" class="search" align="top">
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<form name="frmSymbolSearch" onsubmit="return SymbolSearch('toolkit')" action="https://www.ncbi.nlm.nih.gov/" id="frmSymbolSearch">
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<nobr><input checked="checked" name="__symboloc" id="book_search" type="radio" onclick="toggleInHouseCheckbox('hidden');"> <label title="Search in this book" for="book_search"> Book </label>
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<nobr><input name="__symboloc" id="toolkit" type="radio" onclick="toggleInHouseCheckbox('visible');"> <label title="Search in the C/C++ source code" for="toolkit">Code</label></nobr>
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<nobr><input name="__symboloc" id="pLXR" type="radio" onclick="toggleInHouseCheckbox('visible');"> <label title="Search the symbol in the source code using LINUX Cross-Reference browser" for="pLXR">LXR</label></nobr>
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<nobr><input name="__symboloc" id="pLib" type="radio" onclick="toggleInHouseCheckbox('visible');"> <label title="Locate the Toolkit library(es) where the symbol is defined" for="pLib">Library</label></nobr>
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<nobr id="switch_nobr" style="visibility: hidden;"><input name="switch" id="switch" type="checkbox" style="margin-left: 7%;"> <label title="Switch to Internal Source" for="switch" align="right">In house</label></nobr>
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<div class="dropdown">
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<button class="dropbtn">Contents ▾</button>
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<div class="dropdown-content" >
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<a href="https://ncbi.github.io/cxx-toolkit/" style="float: right;">Table of Contents Page</a>
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<ul class="simple-list">
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<li class="half_rhythm">
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<a href="https://ncbi.github.io/cxx-toolkit/pages/fm">Book Information</a>
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</li>
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<li class="half_rhythm">
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<a href="https://ncbi.github.io/cxx-toolkit/pages/part1">Part 1. Overview</a>
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<ul class="simple-list">
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<li class="half_rhythm">
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<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_intro">Introduction to the C++ Toolkit</a>
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</li>
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<li class="half_rhythm">
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<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_start">Getting Started</a>
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</li>
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</ul>
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</li>
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<li class="half_rhythm">
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<a href="https://ncbi.github.io/cxx-toolkit/pages/part2">Part 2. Development Framework</a>
|
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<ul class="simple-list">
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<li class="half_rhythm">
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<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_getcode_svn">Retrieve the Source Code (FTP, Subversion and GitHub)</a>
|
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</li>
|
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<li class="half_rhythm">
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<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_config">Configure, Build, and Use the Toolkit (autoconf/PTB)</a>
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</li>
|
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<li class="half_rhythm">
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<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_build">Working with Makefiles (autoconf/PTB)</a>
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</li>
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_proj">Project Creation and Management (autoconf/PTB)</a>
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||
</li>
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_cmconfig">Configure, Build and Use the Toolkit with CMake</a>
|
||
</li>
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_style">Programming Policies and Guidelines</a>
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||
</li>
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||
</ul>
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</li>
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<li class="half_rhythm">
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<a href="https://ncbi.github.io/cxx-toolkit/pages/part3">Part 3. C++ Toolkit Library Reference</a>
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<ul class="simple-list">
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<li class="half_rhythm">
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<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_core">Portability, Core Functionality and Application Framework</a>
|
||
</li>
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_log">Logging and Diagnostics</a>
|
||
</li>
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_conn">Networking and IPC</a>
|
||
</li>
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_dbapi">Database Access Support</a>
|
||
</li>
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_cgi">CGI and Fast-CGI </a>
|
||
</li>
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_html">HTML</a>
|
||
</li>
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_ser">Data Serialization (ASN.1, XML)</a>
|
||
</li>
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_datamod">Biological Sequence Data Model</a>
|
||
</li>
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_objmgr">Biological Object Manager</a>
|
||
</li>
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_objmgr_dtld">Biological Object Manager – Data Loaders</a>
|
||
</li>
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_blast">BLAST API</a>
|
||
</li>
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_dataaccess">Access to NCBI data</a>
|
||
</li>
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_algoalign">Biological Sequence Alignment</a>
|
||
</li>
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_gui">GUI and Graphics</a>
|
||
</li>
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_boost">Using the Boost Unit Test Framework</a>
|
||
</li>
|
||
</ul>
|
||
</li>
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/part4">Part 4. Wrappers for 3rd-Party Packages</a>
|
||
<ul class="simple-list">
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_xmlwrapp">XmlWrapp (XML parsing and handling, XSLT, XPath)</a>
|
||
</li>
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_jsonwrapp">JSONWRAPP (JSON parsing and handling)</a>
|
||
</li>
|
||
</ul>
|
||
</li>
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/part5">Part 5. Software</a>
|
||
<ul class="simple-list">
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_debug">Debugging, Exceptions, and Error Handling</a>
|
||
</li>
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_grid">Distributed Computing</a>
|
||
</li>
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_app">Applications</a>
|
||
</li>
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_demo">Examples and Demos</a>
|
||
</li>
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_res">C Toolkit Resources for C++ Toolkit Users</a>
|
||
</li>
|
||
</ul>
|
||
</li>
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/part6">Part 6. Help and Support</a>
|
||
<ul class="simple-list">
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_browse">NCBI C++ Toolkit Source Browser</a>
|
||
</li>
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_devtools">Software Development Tools</a>
|
||
</li>
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_faq">FAQs, Useful Documentation Links, and Mailing Lists</a>
|
||
</li>
|
||
</ul>
|
||
</li>
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/part7">Part 7. Library and Applications Configuration</a>
|
||
<ul class="simple-list">
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/ch_libconfig">Library Configuration</a>
|
||
</li>
|
||
</ul>
|
||
</li>
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/misc">Miscellaneous</a>
|
||
</li>
|
||
<li class="half_rhythm">
|
||
<a href="https://ncbi.github.io/cxx-toolkit/pages/appendix">Appendix - Books and Styles</a>
|
||
</li>
|
||
</ul>
|
||
</div>
|
||
</div>
|
||
|
||
<!-- New drop down end -->
|
||
|
||
<div class="edit_links">
|
||
<a href="https://github.com/ncbi/cxx-toolkit/edit/gh-pages/index.md"><img alt="Edit this page" src="/cxx-toolkit/static/img/button_edit_grey.gif"></a>
|
||
<a target="_blank" href="/cxx-toolkit/help_page">How to edit the page</a>
|
||
</div>
|
||
</div>
|
||
|
||
|
||
</nav>
|
||
|
||
</div>
|
||
<!-- Header end -->
|
||
|
||
<!-- content start -->
|
||
<div class="content">
|
||
<!-- sidebar start -->
|
||
<div id="left-column">
|
||
<aside id="sidebar" class="sidebar">
|
||
<div class="sphinxsidebar" id="sphinxsidebar">
|
||
<div id="sphinxsidebarwrapper" class="sphinxsidebarwrapper">
|
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<a href="javascript:doSBClose()" class="closeNav" id="closeNav">
|
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<<< Minimize sidebar</a>
|
||
<div id="tkb_public" class="col three_col last">
|
||
|
||
|
||
<div class="portlet">
|
||
<div class="portlet_head">
|
||
<div class="portlet_title">Source Browsers</div>
|
||
</div>
|
||
<div class="portlet_content">
|
||
<ul>
|
||
<li class="external-only">
|
||
LXR: <a href="https://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/lxr/ident">public</a> / <a href="https://intranet.ncbi.nlm.nih.gov/ieb/ToolBox/CPP_DOC/lxr/ident">in-house</a>
|
||
</li>
|
||
<li class="external-only">
|
||
Doxygen: <a href="https://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/modules.html">public</a> / <a href="https://intranet.ncbi.nlm.nih.gov/ieb/ToolBox/CPP_DOC/doxyhtml/modules.html">in-house</a>
|
||
</li>
|
||
</ul>
|
||
</div>
|
||
</div>
|
||
<div class="portlet">
|
||
<div class="portlet_head">
|
||
<div class="portlet_title">Sources in VCS</div>
|
||
</div>
|
||
<div class="portlet_content">
|
||
<ul>
|
||
<li class="external-only">
|
||
Git: <a href="https://github.com/ncbi/ncbi-cxx-toolkit-public">GitHub</a>
|
||
</li><li class="external-only">
|
||
SVN: <a href="https://www.ncbi.nlm.nih.gov/viewvc/v1/trunk/c++/">public</a> / <a href="https://svn.ncbi.nlm.nih.gov/viewvc/toolkit/trunk/c++">in-house</a>
|
||
</li>
|
||
<li class="external-only">
|
||
<a href="/cxx-toolkit/pages/ch_getcode_svn#read-only-access-to-the-source-code-via-subversion">How to</a>
|
||
</li>
|
||
</ul>
|
||
</div>
|
||
</div>
|
||
<div class="portlet">
|
||
<div class="portlet_head">
|
||
<div class="portlet_title">Resources</div>
|
||
</div>
|
||
<div class="portlet_content">
|
||
<ul>
|
||
<li class="external-only">
|
||
<a href="https://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/lib_search/libsearch.cgi">Library Search Tool</a>
|
||
</li>
|
||
<li class="external-only">
|
||
<a href="https://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/depgraphs/dglistdeps.cgi">Library Dependencies Tool</a>
|
||
</li>
|
||
<li>
|
||
<a href="/cxx-toolkit/pages/release_notes">Release Notes</a>
|
||
</li>
|
||
<li>
|
||
<a href="/cxx-toolkit/pages/ch_getcode_svn#public-access-to-the-source-code-via-ftp">Download</a>
|
||
</li>
|
||
<li>
|
||
<a href="/cxx-toolkit/pages/ch_style">Coding Policy</a>
|
||
</li>
|
||
<li>
|
||
<a href="/cxx-toolkit/pages/ch_faq#mailing-lists">Mailing Lists</a>
|
||
</li>
|
||
<li>
|
||
<a href="mailto:cpp-doc@ncbi.nlm.nih.gov">
|
||
<span title="Contact C++ Toolkit group">Help and Support</span>
|
||
</a>
|
||
</li>
|
||
<li>
|
||
<a href="/cxx-toolkit/cite">How to cite C++ Toolkit</a>
|
||
</li>
|
||
<li>
|
||
<a href="https://www.ncbi.nlm.nih.gov/data_specs/">Data Specifications</a>
|
||
</li> </ul>
|
||
</div>
|
||
</div>
|
||
<div class="portlet">
|
||
<div class="portlet_head">
|
||
<div class="portlet_title">In House Only Resources</div>
|
||
</div>
|
||
<div class="portlet_content">
|
||
|
||
<ul>
|
||
<li class="internal-only">
|
||
<a href="https://jira.ncbi.nlm.nih.gov/projects/CXX/summary/statistics">
|
||
JIRA
|
||
</a>
|
||
</li>
|
||
<li class="internal-only">
|
||
<a href="https://intranet.ncbi.nlm.nih.gov/Service/lbsmc/search.cgi">Load Balancer
|
||
</a>
|
||
</li>
|
||
<li>
|
||
<a href="https://intranet.ncbi.nlm.nih.gov/ieb/ToolBox/GRID/dashboard/dashboard.cgi">
|
||
GRID Dashboard
|
||
</a>
|
||
</li>
|
||
<li class="internal-only">
|
||
<a href="https://confluence.ncbi.nlm.nih.gov/display/CT/Testsuite">
|
||
<span title="View results of testsuite runs on the automatic C++ Toolkit builds">Test Results</span>
|
||
</a>
|
||
</li>
|
||
<li>
|
||
<a href="https://intranet.ncbi.nlm.nih.gov/ieb/ToolBox/SC/index.html">
|
||
Stable Components
|
||
</a>
|
||
</li>
|
||
<li>
|
||
<a href="https://teamcity.ncbi.nlm.nih.gov/project/CXX">
|
||
TeamCity
|
||
</a>
|
||
</li>
|
||
<li class="internal-only">
|
||
<a href="https://confluence.ncbi.nlm.nih.gov/display/CT">Documentation
|
||
</a>
|
||
</li>
|
||
</ul>
|
||
|
||
|
||
</div>
|
||
</div>
|
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|
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<!------------------------------------------------------------------------------------------------------------ NEW SIDE BAR END --------------------------------------------------------------------------------------------------------------->
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</div>
|
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</div>
|
||
</aside>
|
||
</div>
|
||
<div id="main-column" class="main-column"> <a href="javascript:doSBOpen()"><span id="showNav" class="showNav">Sidebar</span></a>
|
||
<!-- sidebar end -->
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<div class="section"> <h1 id="the-ncbi-c-toolkit-book">The NCBI C++ Toolkit Book</h1>
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<p>National Center for Biotechnology Information (US): Bethesda (MD); 2004-2022.</p>
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<h2 id="contents">Contents</h2>
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<ul>
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<li><a href="pages/fm">Book Information</a></li>
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<li><a href="pages/part1">Part 1. Overview</a>
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<ul>
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<li><a href="pages/ch_intro">Introduction to the C++ Toolkit</a></li>
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<li><a href="pages/ch_start">Getting Started</a></li>
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</ul>
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</li>
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<li><a href="pages/part2">Part 2. Development Framework</a>
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<ul>
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<li><a href="pages/ch_getcode_svn">Retrieve the Source Code (FTP, Subversion and GitHub)</a></li>
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<li><a href="pages/ch_config">Configure, Build, and Use the Toolkit (autoconf/PTB)</a></li>
|
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<li><a href="pages/ch_build">Working with Makefiles (autoconf/PTB)</a></li>
|
||
<li><a href="pages/ch_proj">Project Creation and Management (autoconf/PTB)</a></li>
|
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<li><a href="pages/ch_cmconfig">Configure, Build and Use the Toolkit with CMake</a></li>
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<li><a href="pages/ch_style">Programming Policies and Guidelines</a></li>
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</ul>
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</li>
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<li><a href="pages/part3">Part 3. C++ Toolkit Library Reference</a>
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<ul>
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<li><a href="pages/ch_core">Portability, Core Functionality and Application Framework</a></li>
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<li><a href="pages/ch_log">Logging and Diagnostics</a></li>
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<li><a href="pages/ch_conn">Networking and IPC</a></li>
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<li><a href="pages/ch_dbapi">Database Access Support</a></li>
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<li><a href="pages/ch_cgi">CGI and Fast-CGI</a></li>
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<li><a href="pages/ch_html">HTML</a></li>
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<li><a href="pages/ch_tabular">Row-based data processing (TSV, CSV, etc.)</a></li>
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<li><a href="pages/ch_compress">Data compression (ZIP, GZIP, BZip2, LZO)</a></li>
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<li><a href="pages/ch_ser">Data Serialization (ASN.1, XML, JSON)</a></li>
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<li><a href="pages/ch_datamod">Biological Sequence Data Model</a></li>
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<li><a href="pages/ch_objmgr">Biological Object Manager</a></li>
|
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<li><a href="pages/ch_objmgr_dtld">Biological Object Manager – Data Loaders</a></li>
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<li><a href="pages/ch_blast">BLAST API</a></li>
|
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<li><a href="pages/ch_dataaccess">Access to NCBI data</a></li>
|
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<li><a href="pages/ch_algoalign">Biological Sequence Alignment</a></li>
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<li><a href="pages/ch_gui">GUI and Graphics</a></li>
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<li><a href="pages/ch_boost">Using the Boost Unit Test Framework</a></li>
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</ul>
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</li>
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<li><a href="pages/part4">Part 4. Wrappers for 3rd-Party Packages</a>
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<ul>
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<li><a href="pages/ch_xmlwrapp">XmlWrapp (XML parsing and handling, XSLT, XPath)</a></li>
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<li><a href="pages/ch_jsonwrapp">JsonWrapp (JSON parsing and handling)</a></li>
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</ul>
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</li>
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<li><a href="pages/part5">Part 5. Software</a>
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<ul>
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<li><a href="pages/ch_debug">Debugging, Exceptions, and Error Handling</a></li>
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<li><a href="pages/ch_grid">Distributed Computing</a></li>
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<li><a href="pages/ch_app">Applications</a></li>
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<li><a href="pages/ch_demo">Examples and Demos</a></li>
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<li><a href="pages/ch_res">C Toolkit Resources for C++ Toolkit Users</a></li>
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</li>
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<li><a href="pages/part6">Part 6. Help and Support</a>
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<li><a href="pages/ch_browse">NCBI C++ Toolkit Source Browser</a></li>
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<li><a href="pages/part7">Part 7. Library and Applications Configuration</a>
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<li><a href="pages/misc">Miscellaneous</a></li>
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|
||
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|
||
<a class="text-white" href="https://www.nih.gov/">NIH</a>
|
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