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#include "muscle.h"
#include "pwpath.h"
#include "timing.h"
#include "textfile.h"
#include "msa.h"
#include "profile.h"
SCORE GlobalAlign(const ProfPos *PA, unsigned uLengthA, const ProfPos *PB,
unsigned uLengthB, PWPath &Path)
{
if (g_bDiags)
return GlobalAlignDiags(PA, uLengthA, PB, uLengthB, Path);
else
return GlobalAlignNoDiags(PA, uLengthA, PB, uLengthB, Path);
}
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;
}
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