RangeSet.hpp

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// Copyright 2010 Complete Genomics, Inc.
//
// Licensed under the Apache License, Version 2.0 (the "License"); you
// may not use this file except in compliance with the License. You
// may obtain a copy of the License at
//
// http://www.apache.org/licenses/LICENSE-2.0
//
// Unless required by applicable law or agreed to in writing, software
// distributed under the License is distributed on an "AS IS" BASIS,
// WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or
// implied. See the License for the specific language governing
// permissions and limitations under the License.

#ifndef CGATOOLS_UTIL_RANGE_SET_HPP_
#define CGATOOLS_UTIL_RANGE_SET_HPP_ 1


#include "cgatools/core.hpp"
#include <vector>
#include <string>

namespace cgatools { namespace reference {
    class Range;
    class Location;
    class CrrFile;
}}

namespace cgatools { namespace util {

    class RangeSet : public std::vector<reference::Range> 
    {
    public:
        typedef std::vector<std::string> StringVector;

        bool intersects (const reference::Range& inRange) const;

        bool contains(const reference::Location& loc) const;

        //add a string range into the set
        void add(const std::string &rangeStr, const reference::CrrFile &ref);

        void add(const StringVector &rangeStrSet, const reference::CrrFile &ref);
    };

} } // cgatools::util

#endif // CGATOOLS_UTIL_STREAMS_HPP_

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