double chainScore(struct chain *chain, struct dnaSeq *qSeq, struct dnaSeq *tSeq,
int matrix[256][256], int (*gapCost)(int dt, int dq))
/* Calculate score of chain from scratch looking at blocks. */
{
struct cBlock *b, *a = NULL;
double score = 0;
for (b = chain->blockList; b != NULL; b = b->next)
{
int size = b->qEnd - b->qStart;
score += scoreBlock(qSeq->dna + b->qStart, tSeq->dna + b->tStart,
size, matrix);
if (a != NULL)
score -= gapCost(b->tStart - a->tEnd, b->qStart - a->qEnd);
a = b;
}
return score;
}
/*
Used to commence scoring with the block and parking based on the values
Parameters:
distance - distance to travel
speed - speed to travel
direction - direction to travel
*/
void scoreRobot(float distance, float speed, string direction){
scoreBlock();
moveRobot(distance, speed, direction);
parkRobot();
stopRobot();
}
