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#include "libMUSCLE/muscle.h"
#include "libMUSCLE/pwpath.h"
#include "libMUSCLE/timing.h"
#include "libMUSCLE/textfile.h"
#include "libMUSCLE/msa.h"
#include "libMUSCLE/profile.h"
namespace muscle {
#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.get())
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.get())
return GlobalAlignDimer(PA, uLengthA, PB, uLengthB, Path);
switch (g_PPScore.get())
{
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
}
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