Clinical-Genomics / fusion-report

Tool for parsing outputs from fusion detection tools. Part of a nf-core/rnafusion pipeline. Checkout a live demo at https://matq007.github.io/fusion-report/example/

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Peer timeout

matq007 opened this issue · comments

Traceback (most recent call last):
  File "/usr/local/Cellar/python/3.7.7/Frameworks/Python.framework/Versions/3.7/lib/python3.7/multiprocessing/pool.py", line 121, in worker
    result = (True, func(*args, **kwds))
  File "/usr/local/Cellar/python/3.7.7/Frameworks/Python.framework/Versions/3.7/lib/python3.7/multiprocessing/pool.py", line 47, in starmapstar
    return list(itertools.starmap(args[0], args[1]))
  File "/Users/mproksik/Work/GitHub/fusion-report/fusion_report/download.py", line 97, in get_large_file
    shutil.copyfileobj(response, out_file)
  File "/usr/local/Cellar/python/3.7.7/Frameworks/Python.framework/Versions/3.7/lib/python3.7/shutil.py", line 79, in copyfileobj
    buf = fsrc.read(length)
  File "/usr/local/Cellar/python/3.7.7/Frameworks/Python.framework/Versions/3.7/lib/python3.7/http/client.py", line 457, in read
    n = self.readinto(b)
  File "/usr/local/Cellar/python/3.7.7/Frameworks/Python.framework/Versions/3.7/lib/python3.7/http/client.py", line 501, in readinto
    n = self.fp.readinto(b)
  File "/usr/local/Cellar/python/3.7.7/Frameworks/Python.framework/Versions/3.7/lib/python3.7/socket.py", line 589, in readinto
    return self._sock.recv_into(b)
  File "/usr/local/Cellar/python/3.7.7/Frameworks/Python.framework/Versions/3.7/lib/python3.7/ssl.py", line 1071, in recv_into
    return self.read(nbytes, buffer)
  File "/usr/local/Cellar/python/3.7.7/Frameworks/Python.framework/Versions/3.7/lib/python3.7/ssl.py", line 929, in read
    return self._sslobj.read(len, buffer)
ConnectionResetError: [Errno 54] Connection reset by peer
"""

The above exception was the direct cause of the following exception:

Traceback (most recent call last):
  File "/usr/local/Cellar/python/3.7.7/Frameworks/Python.framework/Versions/3.7/lib/python3.7/multiprocessing/process.py", line 297, in _bootstrap
    self.run()
  File "/usr/local/Cellar/python/3.7.7/Frameworks/Python.framework/Versions/3.7/lib/python3.7/multiprocessing/process.py", line 99, in run
    self._target(*self._args, **self._kwargs)
  File "/Users/mproksik/Work/GitHub/fusion-report/fusion_report/download.py", line 117, in get_fusiongdb
    pool.starmap(self.get_large_file, [(f'{hostname}/{x}', True) for x in files])
  File "/usr/local/Cellar/python/3.7.7/Frameworks/Python.framework/Versions/3.7/lib/python3.7/multiprocessing/pool.py", line 276, in starmap
    return self._map_async(func, iterable, starmapstar, chunksize).get()
  File "/usr/local/Cellar/python/3.7.7/Frameworks/Python.framework/Versions/3.7/lib/python3.7/multiprocessing/pool.py", line 657, in get
    raise self._value
ConnectionResetError: [Errno 54] Connection reset by peer