static struct annoRow *asvNextRow(struct annoStreamer *sSelf, char *minChrom, uint minEnd,
struct lm *callerLm)
/* Return an annoRow encoding the next VCF record, or NULL if there are no more items. */
{
struct annoStreamVcf *self = (struct annoStreamVcf *)sSelf;
if (minChrom != NULL && sSelf->chrom != NULL && differentString(minChrom, sSelf->chrom))
errAbort("annoStreamVcf %s: nextRow minChrom='%s' but region chrom='%s'",
sSelf->name, minChrom, sSelf->chrom);
if (self->maxRecords > 0 && self->recordCount >= self->maxRecords)
return NULL;
char **words = nextRowUnfiltered(self, minChrom, minEnd);
if (words == NULL)
return NULL;
// Skip past any left-join failures until we get a right-join failure, a passing row, or EOF.
boolean rightFail = FALSE;
while (annoFilterRowFails(sSelf->filters, words, self->numCols, &rightFail))
{
if (rightFail)
break;
words = nextRowUnfiltered(self, minChrom, minEnd);
if (words == NULL)
return NULL;
}
struct vcfRecord *rec = self->record;
char *chrom = getProperChromName(self, rec->chrom);
self->recordCount++;
return annoRowFromStringArray(chrom, rec->chromStart, rec->chromEnd,
rightFail, words, self->numCols, callerLm);
}
static struct annoRow *astNextRow(struct annoStreamer *vSelf, char *minChrom, uint minEnd,
struct lm *callerLm)
/* Return the next annoRow that passes filters, or NULL if there are no more items. */
{
struct annoStreamTab *self = (struct annoStreamTab *)vSelf;
char **words = nextRowUnfiltered(self, minChrom, minEnd);
if (words == NULL)
return NULL;
// Skip past any left-join failures until we get a right-join failure, a passing row, or EOF.
boolean rightFail = FALSE;
while (annoFilterRowFails(vSelf->filters, words, vSelf->numCols, &rightFail))
{
if (rightFail)
break;
words = nextRowUnfiltered(self, minChrom, minEnd);
if (words == NULL)
return NULL;
}
char *chrom = words[self->chromIx];
uint chromStart = sqlUnsigned(words[self->startIx]);
uint chromEnd = sqlUnsigned(words[self->endIx]);
return annoRowFromStringArray(chrom, chromStart, chromEnd, rightFail, words, vSelf->numCols,
callerLm);
}
