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#include "muscle.h"
#include "profile.h"
void SetTermGaps(const ProfPos *Prof, unsigned uLength)
{
if (0 == uLength)
return;
ProfPos *First = (ProfPos *) Prof;
ProfPos *Last = (ProfPos *) (Prof + uLength - 1);
switch (g_TermGaps)
{
case TERMGAPS_Full:
break;
case TERMGAPS_Half:
// -infinity check for lock left/right
if (First->m_scoreGapOpen != MINUS_INFINITY)
First->m_scoreGapOpen = 0;
if (uLength > 1 && Last->m_scoreGapClose != MINUS_INFINITY)
Last->m_scoreGapClose = 0;
case TERMGAPS_Ext:
if (First->m_scoreGapOpen != MINUS_INFINITY)
First->m_scoreGapOpen *= -1;
if (uLength > 1 && Last->m_scoreGapClose != MINUS_INFINITY)
Last->m_scoreGapClose *= -1;
break;
default:
Quit("Invalid g_TermGaps");
}
}
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