bool hang_next(
panda_seq_identifier *id,
const panda_qual **forward,
size_t *forward_length,
const panda_qual **reverse,
size_t *reverse_length,
void *user_data) {
struct hang_data *data = (struct hang_data *) user_data;
while (data->next(id, forward, forward_length, reverse, reverse_length, data->next_data)) {
size_t offset;
if (data->forward_length > 0) {
offset = panda_compute_offset_qual(data->threshold, true, *forward, *forward_length, data->forward, data->forward_length);
if (offset == 0) {
panda_log_proxy_write(data->logger, PANDA_CODE_NO_FORWARD_PRIMER, NULL, id, "OVERHANGING REJECT");
if (!data->skip)
continue;
} else {
*forward_length -= offset - 1;
}
}
if (data->reverse_length > 0) {
offset = panda_compute_offset_qual(data->threshold, true, *reverse, *reverse_length, data->reverse, data->reverse_length);
if (offset == 0) {
panda_log_proxy_write(data->logger, PANDA_CODE_NO_REVERSE_PRIMER, NULL, id, "OVERHANGING REJECT");
if (!data->skip)
continue;
} else {
*reverse_length -= offset - 1;
}
}
return true;
}
return false;
}
static bool precheck_func(
PandaLogProxy logger,
const panda_seq_identifier *id,
const panda_qual *forward,
size_t forward_length,
const panda_qual *reverse,
size_t reverse_length,
struct data *data) {
(void) logger;
(void) id;
return panda_compute_offset_qual(log(0.9), 0.01, !data->forward, data->forward ? forward : reverse, data->forward ? forward_length : reverse_length, data->primer, data->primer_length) == 0;
}
