| 1 | // ================================================================ // |
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| 2 | // // |
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| 3 | // File : Location.h // |
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| 4 | // Purpose : // |
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| 5 | // // |
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| 6 | // Coded by Ralf Westram (coder@reallysoft.de) in November 2006 // |
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| 7 | // Institute of Microbiology (Technical University Munich) // |
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| 8 | // http://www.arb-home.de/ // |
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| 9 | // // |
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| 10 | // ================================================================ // |
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| 11 | #ifndef LOCATION_H |
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| 12 | #define LOCATION_H |
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| 13 | |
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| 14 | #ifndef SMARTPTR_H |
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| 15 | #include <smartptr.h> |
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| 16 | #endif |
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| 17 | #ifndef _GLIBCXX_VECTOR |
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| 18 | #include <vector> |
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| 19 | #endif |
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| 20 | #ifndef _GLIBCXX_MAP |
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| 21 | #include <map> |
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| 22 | #endif |
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| 23 | #ifndef _GLIBCXX_STRING |
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| 24 | #include <string> |
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| 25 | #endif |
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| 26 | |
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| 27 | typedef std::map<std::string, std::string> stringMap; |
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| 28 | |
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| 29 | typedef std::vector<int> intVector; |
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| 30 | typedef std::vector<char> charVector; |
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| 31 | typedef std::vector<bool> boolVector; |
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| 32 | |
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| 33 | struct GEN_position; |
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| 34 | |
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| 35 | enum LocationJoinType { |
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| 36 | LJT_UNDEF, // undefined |
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| 37 | LJT_NOT_JOINED, // location does not contain multiple parts |
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| 38 | LJT_JOIN, // sequence data may be joined |
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| 39 | LJT_ORDER, // nothing is implied about the reasonableness about joining |
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| 40 | }; |
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| 41 | |
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| 42 | |
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| 43 | struct Location : public Noncopyable { |
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| 44 | Location() {} |
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| 45 | virtual ~Location() {} |
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| 46 | |
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| 47 | virtual int count() const = 0; |
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| 48 | virtual bool isInRange(long pos1, long pos2) const = 0; |
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| 49 | virtual void save(GEN_position *into, bool complementary) const = 0; |
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| 50 | virtual LocationJoinType getJoinType() const = 0; |
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| 51 | virtual std::string as_string() const = 0; |
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| 52 | |
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| 53 | GEN_position *create_GEN_position() const; |
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| 54 | }; |
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| 55 | |
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| 56 | typedef SmartPtr<Location> LocationPtr; |
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| 57 | |
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| 58 | LocationPtr parseLocation(const std::string& source); |
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| 59 | LocationPtr to_Location(const GEN_position *gp); |
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| 60 | |
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| 61 | #else |
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| 62 | #error Location.h included twice |
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| 63 | #endif // LOCATION_H |
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| 64 | |
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