SeqAn3 3.2.0
The Modern C++ library for sequence analysis.
auxiliary.hpp
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1// -----------------------------------------------------------------------------------------------------
2// Copyright (c) 2006-2022, Knut Reinert & Freie Universität Berlin
3// Copyright (c) 2016-2022, Knut Reinert & MPI für molekulare Genetik
4// This file may be used, modified and/or redistributed under the terms of the 3-clause BSD-License
5// shipped with this file and also available at: https://github.com/seqan/seqan3/blob/master/LICENSE.md
6// -----------------------------------------------------------------------------------------------------
7
13#pragma once
14
15#include <concepts>
16#include <sstream>
17#include <type_traits>
18#include <unordered_map>
19#include <vector>
20
24
25namespace seqan3::custom
26{
27
50template <typename t>
52{}; // forward
53
55template <typename t>
56struct argument_parsing<t const> : argument_parsing<t>
57{};
58
59template <typename t>
60struct argument_parsing<t &> : argument_parsing<t>
61{};
62
63template <typename t>
64struct argument_parsing<t const &> : argument_parsing<t>
65{};
67
68} // namespace seqan3::custom
69
70namespace seqan3::detail::adl_only
71{
72
74template <typename t>
76
80template <typename option_t>
81struct enumeration_names_cpo : public detail::customisation_point_object<enumeration_names_cpo<option_t>, 1>
82{
84 using base_t = detail::customisation_point_object<enumeration_names_cpo<option_t>, 1>;
86 using base_t::base_t;
87
91 template <typename option_type>
92 using option_or_type_identity =
96
100 template <typename option_type = option_t>
101 static constexpr auto SEQAN3_CPO_OVERLOAD(priority_tag<1>)(
103 );
104
114 template <typename option_type = option_t>
115 static constexpr auto SEQAN3_CPO_OVERLOAD(priority_tag<0>)(
116 /*return*/ enumeration_names(option_or_type_identity<option_type>{}) /*;*/
117 );
118};
119
120} // namespace seqan3::detail::adl_only
121
122namespace seqan3
123{
124
163template <typename option_type>
164 requires requires {
166 detail::adl_only::enumeration_names_cpo<option_type>{}()
167 };
169inline auto const enumeration_names = detail::adl_only::enumeration_names_cpo<option_type>{}();
171
185template <typename option_type>
186concept named_enumeration = requires {
187 {
188 seqan3::enumeration_names<option_type>
189 };
190 };
192
206template <typename option_type>
210
225template <typename char_t, typename option_type>
227inline debug_stream_type<char_t> & operator<<(debug_stream_type<char_t> & s, option_type && op)
228{
229 for (auto & [key, value] : enumeration_names<option_type>)
230 {
231 if (op == value)
232 return s << key;
233 }
234
235 return s << "<UNKNOWN_VALUE>";
236}
238
251enum option_spec
252{
253 standard = 0,
259 advanced = 2,
267};
268
270enum class update_notifications
271{
272 on,
273 off
274};
275
289struct argument_parser_meta_data // holds all meta information
290{
324 unsigned man_page_section{1};
340};
341
342} // namespace seqan3
Helper utilities for defining customisation point objects (CPOs).
#define SEQAN3_CPO_OVERLOAD(...)
A macro that helps to define a seqan3::detail::customisation_point_object.
Definition: customisation_point.hpp:107
Provides seqan3::debug_stream and related types.
debug_stream_type< char_t > & operator<<(debug_stream_type< char_t > &stream, alignment_t &&alignment)
Stream operator for alignments, which are represented as tuples of aligned sequences.
Definition: debug_stream_alignment.hpp:110
auto const enumeration_names
Return a conversion map from std::string_view to option_type.
Definition: auxiliary.hpp:165
option_spec
Used to further specify argument_parser options/flags.
Definition: auxiliary.hpp:248
@ standard
The default were no checking or special displaying is happening.
Definition: auxiliary.hpp:249
@ advanced
Definition: auxiliary.hpp:255
@ hidden
Definition: auxiliary.hpp:259
@ required
Definition: auxiliary.hpp:250
Checks whether the the type can be used in an add_(positional_)option call on the argument parser.
Concept for input streams.
Checks whether the free function seqan3::enumeration_names can be called on the type.
Stream concepts.
A namespace for third party and standard library specialisations of SeqAn customisation points.
Definition: char.hpp:42
The main SeqAn3 namespace.
Definition: aligned_sequence_concept.hpp:29
update_notifications
Indicates whether application allows automatic update notifications by the seqan3::argument_parser.
Definition: auxiliary.hpp:267
std::string long_copyright
Detailed copyright information that will be displayed when the user specifies "--copyright" on the co...
Definition: auxiliary.hpp:312
std::string man_page_title
The title of your man page when exported by specifying "--export-help man" on the common line.
Definition: auxiliary.hpp:318
std::string email
The author's e-mail address for correspondence.
Definition: auxiliary.hpp:300
std::string short_copyright
Brief copyright (and/or license) information.
Definition: auxiliary.hpp:308
std::string date
The date that the application was last updated. Keep this updated, ! since it will tell your users th...
Definition: auxiliary.hpp:304
std::string author
Your name ;-)
Definition: auxiliary.hpp:298
std::string version
The version information MAJOR.MINOR.PATH (e.g. 3.1.3)
Definition: auxiliary.hpp:294
std::string app_name
The application name that will be displayed on the help page.
Definition: auxiliary.hpp:292
std::vector< std::string > synopsis
Add lines of usage to the synopsis section of the help page (e.g. "./my_read_mapper [OPTIONS] FILE1 F...
Definition: auxiliary.hpp:330
std::string short_description
A short description of the application (e.g. "A tool for mapping reads to the genome").
Definition: auxiliary.hpp:296
std::string url
A link to your github/gitlab project with the newest release.
Definition: auxiliary.hpp:306
std::string citation
How users shall cite your application.
Definition: auxiliary.hpp:314
std::vector< std::string > description
A more detailed description that is displayed on the help page in the section "DESCRIPTION"....
Definition: auxiliary.hpp:326
std::vector< std::string > examples
Provide some examples on how to use your tool and what standard parameters might be appropriate in di...
Definition: auxiliary.hpp:335
unsigned man_page_section
The man page section info (type man man on the command line for more information).
Definition: auxiliary.hpp:320
A type that can be specialised to provide customisation point implementations for the seqan3::argumen...
Definition: auxiliary.hpp:52