AttributeError: 'NoneType' object has no attribute 'group' running shortbred_quantify.py

Microbial community profiling ShortBRED
1

Hi, I am running shortbred_quantify.py v0.9.5 in a WGS file and I get the following error:

Tested usearch. Appears to be working.
Treating input as a wgs file…
Traceback (most recent call last):
File “/usr/local/miniconda3/envs/shortbred/bin/shortbred_quantify.py”, line 296, in
strID = mtchFam.group(1)
AttributeError: ‘NoneType’ object has no attribute ‘group’

The log from the temporary file is the following
ShortBRED log
Sat Jan 14 00:00:00 2023
SEARCH PARAMETERS
Match ID:0.95
Pct Length for Match:0.95
Sequences: Markers

Here is the command line: shortbred_quantify.py --markers …/markers/mytestmarkers.faa --tmp tmp_quantify --wgs G1_2663_megahit_final.genes.fasta --results G1_2663_results.txt --usearch /usr/local/miniconda3/envs/shortbred/bin/usearch --threads 8

I don’t know what the error means. Please could you help me?
Thanks in advance,

Dra. Ernestina Godoy
CISEI-INSP
Cuernavaca, México

2

Hi Ernestina,

I have encountered the same error. Are you able to resolve this error?
Can you please help me in this?

Thanks in advance.

Amanpreet

3

Having the same issue. Any updates?

Thanks,
Sarah

4

Hi,
No, I’m not. Sorry. I uninstalled and reinstalled it but still got the same problem.