1 //uchime by Robert C. Edgar http://drive5.com/uchime This code is donated to the public domain.
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3 #ifndef alnheuristics_h
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4 #define alnheuristics_h
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10 unsigned BandRadius;
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11 unsigned HSPFinderWordLength;
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14 float XDropG; // GappedBlast default
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15 float XDropU; // UngappedBlast default
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16 float XDropUG; // UngappedBlast called by GappedBlast
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18 unsigned MinGlobalHSPLength;
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21 void InitFromCmdLine(const AlnParams &AP);
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22 void InitGlobalFull();
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24 bool IsGlobalFull() const
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26 return MinGlobalHSPLength == 0 && BandRadius == 0;
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31 #endif // alnheuristics_h
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