ERROR: test_on_data_with_just_point_mut_using_kma

[Former user]

I'm installing ResFinder on my mac and when I perform the test of ResFinder I get the next error:

ERROR: test_on_data_with_just_point_mut_using_kma (main.ResFinderRunTest)

Traceback (most recent call last): File "tests/functional_tests.py", line 253, in test_on_data_with_just_point_mut_using_kma procs = run(cmd_acquired, shell=True, stdout=PIPE, stderr=PIPE, File "/opt/anaconda3/lib/python3.8/subprocess.py", line 512, in run raise CalledProcessError(retcode, process.args, subprocess.CalledProcessError: Command 'python3 /Users/ivanmugu/Documents/CGE/resfinder/run_resfinder.py -ifq data/test_isolate_05_1.fq data/test_isolate_05_2.fq -o running_test/test4 -s 'Escherichia coli' --min_cov 0.6 --threshold 0.8 --point --db_path_point /Users/ivanmugu/Documents/CGE/resfinder/db_pointfinder --db_path_res /Users/ivanmugu/Documents/CGE/resfinder/db_resfinder --kmaPath /Users/ivanmugu/Documents/CGE/resfinder/cge/kma/kma' returned non-zero exit status 1.

Could you help me to fix it? Thank you. Ivan

[Iván Muñoz-Gutiérrez]

Hi! it’s me again.

Now I know what happened.

I didn’t index the files with kma_index.

The test worked fine now!

[CGE Helpdesk]

I am glad to hear you figured it out. Please let us know if any problems or questions arise. I will mark the issue as resolved.

Best,

Karen, CGE helpdesk