FileHandler.h

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// --------------------------------------------------------------------------
//                   OpenMS -- Open-Source Mass Spectrometry
// --------------------------------------------------------------------------
// Copyright The OpenMS Team -- Eberhard Karls University Tuebingen,
// ETH Zurich, and Freie Universitaet Berlin 2002-2018.
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// $Maintainer: Timo Sachsenberg $
// $Authors: Marc Sturm $
// --------------------------------------------------------------------------

#pragma once

#include <OpenMS/config.h>
#include <OpenMS/FORMAT/FileTypes.h>
#include <OpenMS/CONCEPT/ProgressLogger.h>
#include <OpenMS/FORMAT/OPTIONS/PeakFileOptions.h>

namespace OpenMS
{
  class PeakFileOptions;
  class MSSpectrum;
  class MSExperiment;
  class FeatureMap;

  class OPENMS_DLLAPI FileHandler
  {
public:
    static FileTypes::Type getType(const String& filename);


    static FileTypes::Type getTypeByFileName(const String& filename);

    static bool hasValidExtension(const String& filename, const FileTypes::Type type);

    static FileTypes::Type getTypeByContent(const String& filename);

    static bool isSupported(FileTypes::Type type);

    PeakFileOptions& getOptions();

    const PeakFileOptions& getOptions() const;

    void setOptions(const PeakFileOptions&);

    bool loadExperiment(const String& filename, MSExperiment& exp, FileTypes::Type force_type = FileTypes::UNKNOWN, ProgressLogger::LogType log = ProgressLogger::NONE, const bool rewrite_source_file = true, const bool compute_hash = true);

    void storeExperiment(const String& filename, const MSExperiment& exp, ProgressLogger::LogType log = ProgressLogger::NONE);

    bool loadFeatures(const String& filename, FeatureMap& map, FileTypes::Type force_type = FileTypes::UNKNOWN);

    static String computeFileHash(const String& filename);

private:
    PeakFileOptions options_;

  };

} //namespace