[BUG] JsonDecodeError

[saketkc]

[BUG] JsonDecodeError

[saketkc]

Thanks for creating a reproducible example. My guess is a long list of ids is causing SRA to timeout. I would suggest processing it in batches just the way you have done while I figure out if it can indeed be fixed.

[kpj]

I ran into the same problem and also solved it with the same approach (iterating over chunks of the accession list).

For querying, this seems to be implemented for SraSearch already:

pysradb/pysradb/search.py

Lines 757 to 760 in c23d4a7

	for i in range(0, len(uids), SRA_SEARCH_GROUP_SIZE):
	current_uids = ",".join(
	uids[i : min(i + SRA_SEARCH_GROUP_SIZE, len(uids))]
	)

Would it make sense to do the same for SRAweb as well? It seems like all terms are simply joined so far:

pysradb/pysradb/sraweb.py

Lines 252 to 253 in c23d4a7

	if isinstance(term, list):
	term = " OR ".join(term)