Package: ariba
Version: 2.14.7+ds-12
Severity: serious
___________________________ Assembling each cluster ___________________________
Will run 1 cluster(s) in parallel
Not constructing cluster cluster because it only has 2 reads (1 of 9)
Constructing cluster cluster_1 (2 of 9)
Constructing cluster cluster_2 (3 of 9)
Constructing cluster cluster_3 (4 of 9)
Constructing cluster cluster_4 (5 of 9)
Constructing cluster gene (6 of 9)
Constructing cluster gene_1 (7 of 9)
Constructing cluster noncoding (8 of 9)
Constructing cluster noncoding_1 (9 of 9)
The following reads file(s) were not found:
reads_1.fq
reads_2.fq
Cannot continue
Traceback (most recent call last):
File "/usr/bin/ariba", line 312, in <module>
args.func(args)
~~~~~~~~~^^^^^^
File "/usr/lib/python3/dist-packages/ariba/tasks/run.py", line 65, in run
c.run()
~~~~~^^
File "/usr/lib/python3/dist-packages/ariba/clusters.py", line 612, in run
self._run()
~~~~~~~~~^^
File "/usr/lib/python3/dist-packages/ariba/clusters.py", line 637, in _run
self._init_and_run_clusters()
~~~~~~~~~~~~~~~~~~~~~~~~~~~^^
File "/usr/lib/python3/dist-packages/ariba/clusters.py", line 465, in
_init_and_run_clusters
manager = multiprocessing.Manager()
File "/usr/lib/python3.14/multiprocessing/context.py", line 57, in Manager
m.start()
~~~~~~~^^
File "/usr/lib/python3.14/multiprocessing/managers.py", line 566, in start
self._process.start()
~~~~~~~~~~~~~~~~~~~^^
File "/usr/lib/python3.14/multiprocessing/process.py", line 121, in start
self._popen = self._Popen(self)
~~~~~~~~~~~^^^^^^
File "/usr/lib/python3.14/multiprocessing/context.py", line 306, in _Popen
return Popen(process_obj)
File "/usr/lib/python3.14/multiprocessing/popen_forkserver.py", line 35, in
__init__
super().__init__(process_obj)
~~~~~~~~~~~~~~~~^^^^^^^^^^^^^
File "/usr/lib/python3.14/multiprocessing/popen_fork.py", line 20, in
__init__
self._launch(process_obj)
~~~~~~~~~~~~^^^^^^^^^^^^^
File "/usr/lib/python3.14/multiprocessing/popen_forkserver.py", line 51, in
_launch
self.sentinel, w = forkserver.connect_to_new_process(self._fds)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^
File "/usr/lib/python3.14/multiprocessing/forkserver.py", line 106, in
connect_to_new_process
connection.answer_challenge(
~~~~~~~~~~~~~~~~~~~~~~~~~~~^
wrapped_client, self._forkserver_authkey)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/usr/lib/python3.14/multiprocessing/connection.py", line 995, in
answer_challenge
message = connection.recv_bytes(256) # reject large message
File "/usr/lib/python3.14/multiprocessing/connection.py", line 226, in
recv_bytes
buf = self._recv_bytes(maxlength)
File "/usr/lib/python3.14/multiprocessing/connection.py", line 451, in
_recv_bytes
buf = self._recv(4)
File "/usr/lib/python3.14/multiprocessing/connection.py", line 416, in _recv
chunk = read(handle, to_read)
ConnectionResetError: [Errno 104] Connection reset by peer
-- System Information:
Debian Release: forky/sid
APT prefers unstable-debug
APT policy: (500, 'unstable-debug'), (500, 'unstable'), (500, 'testing'),
(101, 'experimental')
Architecture: amd64 (x86_64)
Foreign Architectures: i386
Kernel: Linux 7.0.13+deb14-amd64 (SMP w/16 CPU threads; PREEMPT)
Kernel taint flags: TAINT_OOT_MODULE, TAINT_UNSIGNED_MODULE
Locale: LANG=ru_RU.UTF-8, LC_CTYPE=ru_RU.UTF-8 (charmap=UTF-8), LANGUAGE not set
Shell: /bin/sh linked to /usr/bin/dash
Init: systemd (via /run/systemd/system)
LSM: AppArmor: enabled
Versions of packages ariba depends on:
pn bowtie2 <none>
pn cd-hit <none>
pn fastaq <none>
ii libc6 2.42-17
pn libfml0 <none>
ii libgcc-s1 16.1.0-2
pn libminimap0 <none>
ii libstdc++6 16.1.0-2
pn mash <none>
pn mummer <none>
ii python3 3.13.9-3+b1
pn python3-biopython <none>
ii python3-bs4 4.15.0-1
pn python3-dendropy <none>
ii python3-matplotlib 3.10.7+dfsg1-5
pn python3-pymummer <none>
pn python3-pysam <none>
ii python3-tk 3.14.6-1
ii zlib1g 1:1.3.dfsg+really1.3.2-3
ariba recommends no packages.
Versions of packages ariba suggests:
pn spades <none>
