OpenStructure
load.hh
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1 //------------------------------------------------------------------------------
2 // This file is part of the OpenStructure project <www.openstructure.org>
3 //
4 // Copyright (C) 2008-2020 by the OpenStructure authors
5 //
6 // This library is free software; you can redistribute it and/or modify it under
7 // the terms of the GNU Lesser General Public License as published by the Free
8 // Software Foundation; either version 3.0 of the License, or (at your option)
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12 // FOR A PARTICULAR PURPOSE. See the GNU Lesser General Public License for more
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16 // along with this library; if not, write to the Free Software Foundation, Inc.,
17 // 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA
18 //------------------------------------------------------------------------------
19 #ifndef OST_IO_LOAD_ALIGNMENT_HH
20 #define OST_IO_LOAD_ALIGNMENT_HH
21 
22 /*
23  Author: Marco Biasini
24  */
25 
26 #include <ost/io/module_config.hh>
27 #include <ost/seq/sequence_list.hh>
30 
31 namespace ost { namespace io {
32 
33 seq::AlignmentHandle DLLEXPORT_OST_IO
34 LoadAlignment(const String& file_name, const String& format="auto");
35 
37 AlignmentFromStream(std::istream& stream, const String& format);
38 
40 AlignmentFromString(const String& data, const String& format);
41 
42 
44 LoadSequenceList(const String& file_name, const String& format="auto");
45 
47 SequenceListFromStream(std::istream& stream, const String& format);
48 
50 SequenceListFromString(const String& data, const String& format);
51 
53 LoadSequence(const String& file_name, const String& format="auto");
54 
56 SequenceFromStream(std::istream& stream, const String& format);
57 
59 SequenceFromString(const String& data, const String& format);
60 
62 LoadSequenceProfile(const String& file_name, const String& format="auto");
63 
65 SequenceProfileFromString(const String& data, const String& format);
66 
67 }}
68 
69 #endif
representation of a multiple sequence alignemnt consisting of two or more sequences
mutable sequence handle.
list of sequences.
#define DLLEXPORT_OST_IO
std::string String
Definition: base.hh:54
seq::SequenceList DLLEXPORT_OST_IO SequenceListFromString(const String &data, const String &format)
seq::SequenceHandle DLLEXPORT_OST_IO SequenceFromStream(std::istream &stream, const String &format)
seq::SequenceHandle DLLEXPORT_OST_IO SequenceFromString(const String &data, const String &format)
seq::SequenceList DLLEXPORT_OST_IO LoadSequenceList(const String &file_name, const String &format="auto")
seq::SequenceList DLLEXPORT_OST_IO SequenceListFromStream(std::istream &stream, const String &format)
seq::ProfileHandlePtr DLLEXPORT_OST_IO LoadSequenceProfile(const String &file_name, const String &format="auto")
seq::AlignmentHandle DLLEXPORT_OST_IO LoadAlignment(const String &file_name, const String &format="auto")
seq::AlignmentHandle DLLEXPORT_OST_IO AlignmentFromString(const String &data, const String &format)
seq::ProfileHandlePtr DLLEXPORT_OST_IO SequenceProfileFromString(const String &data, const String &format)
seq::SequenceHandle DLLEXPORT_OST_IO LoadSequence(const String &file_name, const String &format="auto")
seq::AlignmentHandle DLLEXPORT_OST_IO AlignmentFromStream(std::istream &stream, const String &format)
boost::shared_ptr< ProfileHandle > ProfileHandlePtr
Definition: base.dox:1