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Failed to run m6ABasecaller using singularity (Option 1) #9

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haotianteng opened this issue Jul 1, 2024 · 0 comments
Open

Failed to run m6ABasecaller using singularity (Option 1) #9

haotianteng opened this issue Jul 1, 2024 · 0 comments

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@haotianteng
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Hi,
I tried to run the pipeline using singularity with option 1 but with no luck, please see attached log:

[2024-06-30 21:31:45] ===== Welcome, welcome to modPhred pipeline! =====
[2024-06-30 21:31:45] Connecting to: soft/ont-guppy/bin/guppy_basecall_server:5555 ... [mem:   150 MB]
[2024-06-30 21:31:45] Encoding modification info from 1 directories... [mem:   150 MB]
[2024-06-30 21:31:45]  /mnt/storage/HEK293T/HEK293T-WT-rep1/fast5s/ with 261 Fast5 file(s)... [mem:   150 MB]
multiprocessing.pool.RemoteTraceback: 
"""
Traceback (most recent call last):
  File "/opt/miniforge3/envs/python3.7/lib/python3.7/multiprocessing/pool.py", line 121, in worker
    result = (True, func(*args, **kwds))
  File "/mnt/modPhred/src/guppy_encode_live.py", line 105, in basecalling_worker
    client = GuppyClientBase(config_name=config, host=host, port=port, **kwargs)
  File "/opt/miniforge3/envs/python3.7/lib/python3.7/site-packages/pyguppyclient/client.py", line 35, in __init__
    self.socket.connect("tcp://%s:%s" % (host, port))
  File "zmq/backend/cython/socket.pyx", line 580, in zmq.backend.cython.socket.Socket.connect
  File "zmq/backend/cython/checkrc.pxd", line 25, in zmq.backend.cython.checkrc._check_rc
zmq.error.ZMQError: Invalid argument
"""
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