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an issue while running hivtrace #103

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arya-aa opened this issue Jul 9, 2024 · 0 comments
Open

an issue while running hivtrace #103

arya-aa opened this issue Jul 9, 2024 · 0 comments

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@arya-aa
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arya-aa commented Jul 9, 2024

Hi Steven,

I am encountering an issue while running hivtrace with the following command:

hivtrace -i /home/mj/input.fas -a resolve -r HXB2_prrt -t .015 -m 500 -g .015 --log /home/mj/hivtrace.log
The error traceback I'm getting is:

Traceback (most recent call last):
File "/home/mj/.local/bin/hivtrace", line 8, in
sys.exit(main())
File "/home/mj/.local/lib/python3.8/site-packages/hivtrace/hivtrace.py", line 793, in main
results = hivtrace(
File "/home/mj/.local/lib/python3.8/site-packages/hivtrace/hivtrace.py", line 523, in hivtrace
subprocess.check_call(tn93_process, stdout=tn93_fh, stderr=tn93_fh)
File "/usr/lib/python3.8/subprocess.py", line 364, in check_call
raise CalledProcessError(retcode, cmd)
subprocess.CalledProcessError: Command '['tn93', '-q', '-0', '-o', '/tmp/hivtrace-ogsh8pkl/2018-2020MSM_0413.fas_user.tn93output.csv', '-t', '.015', '-a', 'resolve', '-l', '500', '-g', '.015', '-f', 'csv', '/home/mj/2018-2020MSM_0413.fas_output.fasta']' returned non-zero exit status 1.

Could you please help me understand what might be causing this issue? Here are some additional details:
Operating system: Ubuntu 20.04 LTS
Python version: 3.11.9
gcc (Ubuntu 9.4.0-1ubuntu1~20.04.2) version: 9.4.0
tn93 version: 1.0.14

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