boolean checkGene(char *db, struct genePred *gene)
/* validate that a genePred is ok, either exit or return false if it's not */
{
struct chromInfo *ci = hGetChromInfo(db, gene->chrom);
if (ci == NULL)
{
fprintf(stderr, "Error: %s has invalid chrom for %s: %s\n",
gene->name, db, gene->chrom);
gInvalidCnt++;
return FALSE;
}
else if (genePredCheck("invalid genePred", stderr, ci->size, gene) == 0)
return TRUE;
else
{
gInvalidCnt++;
return FALSE;
}
}
static void checkAGenePred(char *fileTbl, int iRec, struct genePred *gp)
/* check one genePred */
{
int chromSize = -1; /* default to not checking */
char desc[512];
safef(desc, sizeof(desc), "%s:%d", fileTbl, iRec);
if (gDb != NULL)
{
struct chromInfo *ci = hGetChromInfo(gDb, gp->chrom);
if (ci == NULL)
{
fprintf(stderr, "Error: %s: %s has invalid chrom for %s: %s\n",
desc, gp->name, gDb, gp->chrom);
gErrCount++;
chromSize = -1; // don't validate
}
else
chromSize = ci->size;
}
gErrCount += genePredCheck(desc, stderr, chromSize, gp);
gChkCount++;
}
