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OverflowError: signed integer is greater than maximum

Open abrozzi opened this issue 2 years ago • 0 comments

Hi,

always the same error. I tried both on my Mac (16 GB RAM) and on Unix server:

(base) abrozzi@MBP-di-Stefano ~ % docker run -v /Users/abrozzi/gvgh:/data phelimb/bigsi bigsi bulk_search -c /data/config.yaml /data/C_RS04605.fas
Traceback (most recent call last):
  File "/usr/local/bin/bigsi", line 11, in <module>
    load_entry_point('bigsi==0.3.5', 'console_scripts', 'bigsi')()
  File "/usr/local/lib/python3.7/dist-packages/bigsi-0.3.5-py3.7.egg/bigsi/__main__.py", line 307, in main
  File "/usr/local/lib/python3.7/dist-packages/hug/api.py", line 399, in __call__
    result = self.commands.get(command)()
  File "/usr/local/lib/python3.7/dist-packages/hug/interface.py", line 546, in __call__
    raise exception
  File "/usr/local/lib/python3.7/dist-packages/hug/interface.py", line 542, in __call__
    result = self.output(self.interface(**pass_to_function), context)
  File "/usr/local/lib/python3.7/dist-packages/hug/interface.py", line 100, in __call__
    return __hug_internal_self._function(*args, **kwargs)
  File "/usr/local/lib/python3.7/dist-packages/bigsi-0.3.5-py3.7.egg/bigsi/__main__.py", line 258, in bulk_search
  File "/usr/local/lib/python3.7/dist-packages/bigsi-0.3.5-py3.7.egg/bigsi/graph/bigsi.py", line 131, in __init__
  File "/usr/local/lib/python3.7/dist-packages/bigsi-0.3.5-py3.7.egg/bigsi/storage/__init__.py", line 19, in get_storage
  File "/usr/local/lib/python3.7/dist-packages/bigsi-0.3.5-py3.7.egg/bigsi/storage/berkeleydb.py", line 15, in __init__
  File "/usr/local/lib/python3.7/dist-packages/bsddb3/__init__.py", line 326, in hashopen
    e = _openDBEnv(cachesize)
  File "/usr/local/lib/python3.7/dist-packages/bsddb3/__init__.py", line 379, in _openDBEnv
    e.set_cachesize(0, cachesize)
OverflowError: signed integer is greater than maximum

I downloaded the index10k from https://www.microbiologyresearch.org/content/journal/mgen/10.1099/mgen.0.000499

Where I am wrong?

Thank you in advance!

abrozzi avatar Dec 22 '22 08:12 abrozzi