Package: iva
Version: 1.0.11+ds-6
Severity: serious
The following command failed with exit code 1
/usr/bin/iva --threads 1 --trimmomatic /usr/share/java/trimmomatic.jar
--pcr_primers hiv_pcr_primers.fa -f reads_1.fq.gz -r reads_2.fq.gz iva.out
The output was:
Error! File "hiv_pcr_primers.fa" not found. Cannot continue
Traceback (most recent call last):
File "/usr/bin/iva", line 184, in <module>
p1.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 230, in _Popen
return _default_context.get_context().Process._Popen(process_obj)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^
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 iva depends on:
ii default-jre-headless 2:1.25-77
pn fastaq <none>
pn kmc <none>
pn mummer <none>
ii perl 5.40.1-8
ii python3 3.13.9-3+b1
pn python3-networkx <none>
ii python3-numpy 1:2.4.6+ds-2
ii python3-packaging 26.2-2
pn python3-pysam <none>
pn samtools <none>
pn smalt <none>
Versions of packages iva recommends:
pn bioperl <none>
pn r-base-core <none>
pn trimmomatic <none>
iva suggests no packages.
