source: branches/lib/GDE/MUSCLE/src/glbalign352.cpp

#include "muscle.h"
#include "pwpath.h"
#include "timing.h"
#include "textfile.h"
#include "msa.h"
#include "profile.h"

#if     VER_3_52

#if     TIMING
TICKS g_ticksDP = 0;
#endif

SCORE GlobalAlign(const ProfPos *PA, unsigned uLengthA, const ProfPos *PB,
  unsigned uLengthB, PWPath &Path)
        {
#if     TIMING
        TICKS t1 = GetClockTicks();
#endif
        SCORE Score = 0;
        if (g_bDiags)
                Score = GlobalAlignDiags(PA, uLengthA, PB, uLengthB, Path);
        else
                Score = GlobalAlignNoDiags(PA, uLengthA, PB, uLengthB, Path);
#if     TIMING
        TICKS t2 = GetClockTicks();
        g_ticksDP += (t2 - t1);
#endif
        return Score;
        }

SCORE GlobalAlignNoDiags(const ProfPos *PA, unsigned uLengthA, const ProfPos *PB,
  unsigned uLengthB, PWPath &Path)
        {
        if (g_bDimer)
                return GlobalAlignDimer(PA, uLengthA, PB, uLengthB, Path);

        switch (g_PPScore)
                {
        case PPSCORE_LE:
                return GlobalAlignLE(PA, uLengthA, PB, uLengthB, Path);

        case PPSCORE_SP:
        case PPSCORE_SV:
                return GlobalAlignSP(PA, uLengthA, PB, uLengthB, Path);

        case PPSCORE_SPN:
                return GlobalAlignSPN(PA, uLengthA, PB, uLengthB, Path);
                }

        Quit("Invalid PP score (GlobalAlignNoDiags)");
        return 0;
        }

#endif  // VER_3_52