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pssm_io_handler.hh
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1 //------------------------------------------------------------------------------
2 // This file is part of the OpenStructure project <www.openstructure.org>
3 //
4 // Copyright (C) 2008-2015 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)
9 // any later version.
10 // This library is distributed in the hope that it will be useful, but WITHOUT
11 // ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS
12 // FOR A PARTICULAR PURPOSE. See the GNU Lesser General Public License for more
13 // details.
14 //
15 // You should have received a copy of the GNU Lesser General Public License
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 
20 /*
21  Author: Gerardo Tauriello
22  */
23 
24 #ifndef OST_PSSM_IO_HANDLER_HH
25 #define OST_PSSM_IO_HANDLER_HH
26 
27 #include <ost/io/module_config.hh>
28 #include "profile_io_handler.hh"
29 
30 namespace ost { namespace io {
31 
33 public:
34  virtual void Import(seq::ProfileHandle& prof,
35  const boost::filesystem::path& loc);
36  virtual void Export(const seq::ProfileHandle& prof,
37  const boost::filesystem::path& loc) const;
38 
39  static bool ProvidesImport(const boost::filesystem::path& loc,
40  const String& format="auto");
41  static bool ProvidesExport(const boost::filesystem::path& loc,
42  const String& format="auto");
43 
44  static String GetFormatName() { return String("PSSM"); }
46  return String("ASCII Table (PSSM) output of PSI-BLAST (flag -Q)");
47  }
48 };
49 
51 
52 }}
53 
54 #endif
std::string String
Definition: base.hh:54
pure abstract base class for profile io handlers
Provides a profile for a sequence.
static String GetFormatDescription()
static String GetFormatName()
#define DLLEXPORT_OST_IO
ProfileIOHandlerFactory< PssmIOHandler > PssmIOHandlerFactory