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// --------------------------------------------------------------------------
// OpenMS -- Open-Source Mass Spectrometry
// --------------------------------------------------------------------------
// Copyright The OpenMS Team -- Eberhard Karls University Tuebingen,
// ETH Zurich, and Freie Universitaet Berlin 2002-2013.
//
// This software is released under a three-clause BSD license:
// * Redistributions of source code must retain the above copyright
// notice, this list of conditions and the following disclaimer.
// * Redistributions in binary form must reproduce the above copyright
// notice, this list of conditions and the following disclaimer in the
// documentation and/or other materials provided with the distribution.
// * Neither the name of any author or any participating institution
// may be used to endorse or promote products derived from this software
// without specific prior written permission.
// For a full list of authors, refer to the file AUTHORS.
// --------------------------------------------------------------------------
// THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
// AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
// IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
// ARE DISCLAIMED. IN NO EVENT SHALL ANY OF THE AUTHORS OR THE CONTRIBUTING
// INSTITUTIONS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
// EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
// PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS;
// OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY,
// WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR
// OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF
// ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
//
// --------------------------------------------------------------------------
// $Maintainer: Andreas Bertsch $
// $Authors: Andreas Bertsch $
// --------------------------------------------------------------------------
#ifndef OPENMS_FORMAT_CVMAPPINGFILE_H
#define OPENMS_FORMAT_CVMAPPINGFILE_H
#include <OpenMS/FORMAT/XMLFile.h>
#include <OpenMS/FORMAT/HANDLERS/XMLHandler.h>
#include <OpenMS/DATASTRUCTURES/CVMappings.h>
#include <vector>
namespace OpenMS
{
class String;
/**
@brief Used to load CvMapping files
This file contains the mapping of CV terms to the schema, which
is used by PSI standard formats to semantically validate files.
@ingroup FileIO
*/
class OPENMS_DLLAPI CVMappingFile :
protected Internal::XMLHandler,
public Internal::XMLFile
{
public:
/// Default constructor
CVMappingFile();
/// Destructor
virtual ~CVMappingFile();
/**
@brief loads CvMappings from the given file
@exception Exception::FileNotFound is thrown if the file could not be opened
@exception Exception::ParseError is thrown if an error occurs during parsing
@param strip_namespaces if enable, namespace definitions of the paths are eliminated, e.g. 'pf:cvParam' -> 'cvParam'
@param cv_mappings The CVMappings instance in which the rules, cvs and other content from the file should be stored
@param filename The filename to read from
*/
void load(const String & filename, CVMappings & cv_mappings, bool strip_namespaces = false);
protected:
// Docu in base class
void startElement(const XMLCh * const /*uri*/, const XMLCh * const /*local_name*/, const XMLCh * const qname, const xercesc::Attributes & attributes);
// Docu in base class
void endElement(const XMLCh * const /*uri*/, const XMLCh * const /*local_name*/, const XMLCh * const qname);
// Docu in base class
void characters(const XMLCh * const chars, const XMLSize_t /*length*/);
private:
///Not implemented
CVMappingFile(const CVMappingFile & rhs);
///Not implemented
CVMappingFile & operator=(const CVMappingFile & rhs);
String tag_;
bool strip_namespaces_;
CVMappingRule actual_rule_;
std::vector<CVMappingRule> rules_;
std::vector<CVReference> cv_references_;
};
} // namespace OpenMS
#endif // OPENMS_FORMAT_CVMAPPINGFILE_H
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