Hello Tobias,
I am reporting an issue, but I am not sure if the problem is the code or my dataset format.
I am using secapr 2.1.1.
During the locus selection step of the pipeline, a KeyError appear:
Reading read-depth info for B.........
Generating locus database.........
Traceback (most recent call last):
File "/mnt/shared/scratch/usr/apps/conda/envs/secapr_env/bin/secapr", line 10, in <module>
sys.exit(main())
File "/mnt/shared/scratch/usr/apps/conda/envs/secapr_env/lib/python3.8/site-packages/secapr/__main__.py", line 55, in main
args.func(args)
File "/mnt/shared/scratch/usr/apps/conda/envs/secapr_env/lib/python3.8/site-packages/secapr/locus_selection.py", line 312, in main
reference_pickle = reference_file_dict[sample]
KeyError: 'B'
Given my still rudimentary understanding of Python code, I know the script is trying to access the key inside a non-existent dictionary. But I can't find the source of the problem.
Would you think it is a problem with the code, or with my dataset?
Kind regards,
Thibauld
Hello Tobias,
I am reporting an issue, but I am not sure if the problem is the code or my dataset format.
I am using secapr 2.1.1.
During the locus selection step of the pipeline, a KeyError appear:
Given my still rudimentary understanding of Python code, I know the script is trying to access the key inside a non-existent dictionary. But I can't find the source of the problem.
Would you think it is a problem with the code, or with my dataset?
Kind regards,
Thibauld