I am a little confused by an error I have. I have some code that should retrieve a json file from a database and search it for a substring, representing a code. As I understand it, my query will have a corresponding code and then everything goes well, or my query will not have a corresponding code, and then my code will trigger a KeyError. I have written a try/except block catching this (expected) KeyError, but the error is not caught. What am I missing here?
Note: I just started dabbling with multiprocessing, is this related to that?
Here is the concerned code:
request_counter = 0
while request_counter < 3:
try:
if ' - reduced' in metabolite:
metabolite = 'reduced ' + metabolite[:-10]
cts_output = requests.get(
'http://cts.fiehnlab.ucdavis.edu/'
'service/convert/Chemical%20Name/'
'KEGG/' + metabolite)
kegg_id = str(json.loads(cts_output.text)[0]['result'][0])
metabolite_to_KEGG[bigg_id][kegg_id] = metabolite
request_counter = 3
except KeyError and IndexError:
if request_counter == 2:
metabolite_no_KEGG[bigg_id].append(metabolite)
request_counter = request_counter + 1
This block is within a couple for loops.
Traceback:
Traceback (most recent call last): File "/Users/dcoukos/anaconda/lib/python3.6/multiprocessing/pool.py", line 119, in worker result = (True, func(*args, **kwds)) File "GetKeggs.py", line 131, in getBrendaKeggs kegg_id = str(json.loads(cts_output.text)[0]['result'][0]) KeyError: 'result' """
The above exception was the direct cause of the following exception:
Traceback (most recent call last): File "GetKeggs.py", line 223, in brenda_keggs.update(bk1.get()) File "/Users/dcoukos/anaconda/lib/python3.6/multiprocessing/pool.py", line 644, in get raise self._value KeyError: 'result'