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This repository has been archived by the owner on Nov 8, 2019. It is now read-only.
Traceback (most recent call last):
File "/home/ubuntu/opt/devpy3/lib/python3.5/site-packages/tornado/web.py", line 1509, in _execute
result = method(*self.path_args, **self.path_kwargs)
File "/home/ubuntu/opt/biothings_explorer_web/src/handlers/entitycrawler.py", line 308, in get
results = exploreinput(input_type, input_value)
File "/home/ubuntu/opt/biothings_explorer_web/src/handlers/entitycrawler.py", line 160, in exploreinput
synonyms = IDConverter().find_synonym(input_value, input_type)
File "/home/ubuntu/opt/biothings_explorer_web/src/biothings_explorer/id_converter.py", line 70, in __init__
self.registry = RegistryParser(readmethod='filepath', initialize=True)
File "/home/ubuntu/opt/biothings_explorer_web/src/biothings_explorer/api_registry_parser.py", line 47, in __init__
File "/home/ubuntu/opt/biothings_explorer_web/src/biothings_explorer/api_registry_parser.py", line 65, in read_id_mapping_file
File "/home/ubuntu/opt/biothings_explorer_web/src/biothings_explorer/utils.py", line 39, in readFile
File "/home/ubuntu/opt/devpy3/lib/python3.5/site-packages/pandas/io/parsers.py", line 705, in parser_f
File "/home/ubuntu/opt/devpy3/lib/python3.5/site-packages/pandas/io/parsers.py", line 445, in _read
File "/home/ubuntu/opt/devpy3/lib/python3.5/site-packages/pandas/io/parsers.py", line 814, in __init__
File "/home/ubuntu/opt/devpy3/lib/python3.5/site-packages/pandas/io/parsers.py", line 1045, in _make_engine
File "/home/ubuntu/opt/devpy3/lib/python3.5/site-packages/pandas/io/parsers.py", line 1684, in __init__
File "pandas/_libs/parsers.pyx", line 391, in pandas._libs.parsers.TextReader.__cinit__
File "pandas/_libs/parsers.pyx", line 712, in pandas._libs.parsers.TextReader._setup_parser_source
OSError: Initializing from file failed
The text was updated successfully, but these errors were encountered:
Traceback (most recent call last):
File "/home/ubuntu/opt/devpy3/lib/python3.5/site-packages/tornado/web.py", line 1509, in _execute
result = method(*self.path_args, **self.path_kwargs)
File "/home/ubuntu/opt/biothings_explorer_web/src/handlers/entitycrawler.py", line 308, in get
results = exploreinput(input_type, input_value)
File "/home/ubuntu/opt/biothings_explorer_web/src/handlers/entitycrawler.py", line 209, in exploreinput
nquads_list = jh.jsonld2nquads(jsonld_docs, alwayslist=True)
File "/home/ubuntu/opt/biothings_explorer_web/src/biothings_explorer/jsonld_processor.py", line 105, in jsonld2nquads
pool = multiprocessing.Pool(multiprocessing.cpu_count())
File "/usr/lib/python3.5/multiprocessing/context.py", line 118, in Pool
context=self.get_context())
File "/usr/lib/python3.5/multiprocessing/pool.py", line 150, in __init__
self._setup_queues()
File "/usr/lib/python3.5/multiprocessing/pool.py", line 244, in _setup_queues
self._outqueue = self._ctx.SimpleQueue()
File "/usr/lib/python3.5/multiprocessing/context.py", line 111, in SimpleQueue
return SimpleQueue(ctx=self.get_context())
File "/usr/lib/python3.5/multiprocessing/queues.py", line 324, in __init__
self._rlock = ctx.Lock()
File "/usr/lib/python3.5/multiprocessing/context.py", line 66, in Lock
return Lock(ctx=self.get_context())
File "/usr/lib/python3.5/multiprocessing/synchronize.py", line 163, in __init__
File "/usr/lib/python3.5/multiprocessing/synchronize.py", line 60, in __init__
OSError: [Errno 24] Too many open files
Took some time to fix this problem! It's due to the multiprocessing module used in BioThings Explorer. I have fixed it and the error should not pop up again.
Thanks again for reporting that!
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http://biothings.io/explorer/api/v2/crawler?input_type=mondo&input_value=0018911
The text was updated successfully, but these errors were encountered: