int main(int argc, char *argv[])
{
cgiSpoof(&argc, argv);
seqIdent = cgiOptionalDouble("seqIdent",.9);
basePct = cgiOptionalDouble("basePct", .9);
pslIn = cgiOptionalString("in");
pslOut = cgiOptionalString("out");
if(pslIn == NULL || pslOut==NULL)
usage();
filterPsls();
return 0;
}
struct psl *getPslsInRange(char *chrom, int chromStart, int chromEnd,
struct sqlConnection *conn)
/** Load all of the psls in a given range from the appropriate
cache or database. */
{
struct psl *pslList = NULL, *goodList = NULL, *psl = NULL;
if(useChromKeeper)
pslList = getPslsFromCache(chrom, chromStart, chromEnd);
else
pslList = getPslsFromDatabase(chrom, chromStart, chromEnd, conn);
goodList = filterPsls(pslList, chromStart, chromEnd);
goodList = removeKillList(goodList);
for(psl = goodList; psl != NULL; psl = psl->next)
{
if(psl->tStart < minPslStart)
minPslStart = psl->tStart;
if(psl->tEnd > maxPslEnd)
maxPslEnd = psl->tEnd;
}
slSort(&goodList, pslCmpTargetQuery);
return goodList;
}
