OSError: AF_UNIX path too long

[yqy6611]

Hi all,

I encountered this error:

[2024-07-28 08:43:11] INFO: CheckM v1.2.3 [2024-07-28 08:43:11] INFO: checkm lineage_wf -x fa reassembly_nus/reassembled_bins reassembly_nus/reassembled_bins.checkm -t 96 --tmpdir reassembly_nus/tmp --pplacer_threads 22 [2024-07-28 08:43:11] INFO: CheckM data: /mnt/cc061462-beb3-49ab-9318-5c7bf54d8588/database/checkm_database/checkm_data_2015_01_16 [2024-07-28 08:43:11] INFO: [CheckM - tree] Placing bins in reference genome tree. [2024-07-28 08:43:21] INFO: Identifying marker genes in 609 bins with 96 threads: Process SyncManager-1: Traceback (most recent call last): File "/home/e2s2/miniconda3/envs/metawrap_reassembly/lib/python3.12/multiprocessing/process.py", line 314, in _bootstrap self.run() File "/home/e2s2/miniconda3/envs/metawrap_reassembly/lib/python3.12/multiprocessing/process.py", line 108, in run self._target(*self._args, **self._kwargs) File "/home/e2s2/miniconda3/envs/metawrap_reassembly/lib/python3.12/multiprocessing/managers.py", line 591, in _run_server server = cls._Server(registry, address, authkey, serializer) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/e2s2/miniconda3/envs/metawrap_reassembly/lib/python3.12/multiprocessing/managers.py", line 156, in init self.listener = Listener(address=address, backlog=128) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/e2s2/miniconda3/envs/metawrap_reassembly/lib/python3.12/multiprocessing/connection.py", line 464, in init self._listener = SocketListener(address, family, backlog) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/e2s2/miniconda3/envs/metawrap_reassembly/lib/python3.12/multiprocessing/connection.py", line 608, in init self._socket.bind(address) OSError: AF_UNIX path too long

Unexpected error: <class 'EOFError'> Traceback (most recent call last): File "/home/e2s2/miniconda3/envs/metawrap_reassembly/bin/checkm", line 856, in checkmParser.parseOptions(args) File "/home/e2s2/miniconda3/envs/metawrap_reassembly/lib/python3.12/site-packages/checkm/main.py", line 979, in parseOptions self.tree(options) File "/home/e2s2/miniconda3/envs/metawrap_reassembly/lib/python3.12/site-packages/checkm/main.py", line 157, in tree binIdToModels = mgf.find(binFiles, ^^^^^^^^^^^^^^^^^^ File "/home/e2s2/miniconda3/envs/metawrap_reassembly/lib/python3.12/site-packages/checkm/markerGeneFinder.py", line 68, in find binIdToModels = mp.Manager().dict() ^^^^^^^^^^^^ File "/home/e2s2/miniconda3/envs/metawrap_reassembly/lib/python3.12/multiprocessing/context.py", line 57, in Manager m.start() File "/home/e2s2/miniconda3/envs/metawrap_reassembly/lib/python3.12/multiprocessing/managers.py", line 566, in start self._address = reader.recv() ^^^^^^^^^^^^^ File "/home/e2s2/miniconda3/envs/metawrap_reassembly/lib/python3.12/multiprocessing/connection.py", line 250, in recv buf = self._recv_bytes() ^^^^^^^^^^^^^^^^^^ File "/home/e2s2/miniconda3/envs/metawrap_reassembly/lib/python3.12/multiprocessing/connection.py", line 430, in _recv_bytes buf = self._recv(4) ^^^^^^^^^^^^^ File "/home/e2s2/miniconda3/envs/metawrap_reassembly/lib/python3.12/multiprocessing/connection.py", line 399, in _recv raise EOFError EOFError

Any ideas on how to fix it? Many thanks!

[StickHu]

I just met the error, try to remove the parameter --tmp_dir and it will succeed