LIB_EXPORT rc_t CC AlignAccessRefSeqEnumeratorNext(const AlignAccessRefSeqEnumerator *cself) {
AlignAccessRefSeqEnumerator *self = (AlignAccessRefSeqEnumerator *)cself;
if (cself->cur + 1 >= cself->end)
return AlignAccessRefSeqEnumeratorEOFCode;
++self->cur;
if (!BAMFileIsIndexed(cself->parent->innerSelf))
return 0;
if (BAMFileIndexHasRefSeqId(cself->parent->innerSelf, cself->cur))
return 0;
return AlignAccessRefSeqEnumeratorNext(cself);
}
LIB_EXPORT rc_t CC AlignAccessRefSeqEnumeratorNext(const AlignAccessRefSeqEnumerator *cself) {
AlignAccessRefSeqEnumerator *self = (AlignAccessRefSeqEnumerator *)cself;
if (cself->cur + 1 >= cself->end)
return AlignAccessRefSeqEnumeratorEOFCode;
++self->cur;
#if ENUMERATOR_IS_NOT_FILTERED_BY_INDEX
return 0;
#else
if (!BAMFileIsIndexed(cself->parent->innerSelf))
return 0;
if (BAMFileIndexHasRefSeqId(cself->parent->innerSelf, cself->cur))
return 0;
return AlignAccessRefSeqEnumeratorNext(cself);
#endif
}
LIB_EXPORT rc_t CC AlignAccessDBEnumerateRefSequences(const AlignAccessDB *self, AlignAccessRefSeqEnumerator **refseq_enum) {
AlignAccessRefSeqEnumerator *lhs;
unsigned cur = 0;
unsigned end;
BAMFileGetRefSeqCount(self->innerSelf, &end);
if (BAMFileIsIndexed(self->innerSelf)) {
while (cur != end && BAMFileIndexHasRefSeqId(self->innerSelf, cur) == 0)
++cur;
if (cur == end)
return AlignAccessRefSeqEnumeratorEOFCode;
}
lhs = malloc(sizeof(*lhs));
*refseq_enum = lhs;
if (lhs != NULL) {
lhs->parent = self;
AlignAccessDBAddRef(lhs->parent);
lhs->cur = cur;
lhs->end = end;
atomic32_set(&lhs->refcount, 1);
return 0;
}
return RC(rcAlign, rcDatabase, rcConstructing, rcMemory, rcExhausted);
}
