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I've found that there's no header in the output file, using your blastn_add_taxonomy_lite.py script. This doesn't affect the data, only the ability to use the file in downstream applications. The output of this script can be used downstream with the galaxy-tool-lca repo script "lca.py", but if the header is missing, it throws an error:
Traceback (most recent call last):
File "programs/galaxy-tool-lca/lca.py", line 303, in <module>
main()
File "programs/galaxy-tool-lca/lca.py", line 300, in main
lca()
File "programs/galaxy-tool-lca/lca.py", line 290, in lca
determine_taxonomy(otuLines)#find the lca for the query
File "
programs/galaxy-tool-lca/lca.py", line 247, in determine_taxonomy
otu[0][0] + "\tno identification\tno identification\t" + "\t".join(taxonomy).strip() + "\tfiltered out"+endLine)
IndexError: list index out of range
However, manually adding the header back in like so resolves the error:
I've found that there's no header in the output file, using your blastn_add_taxonomy_lite.py script. This doesn't affect the data, only the ability to use the file in downstream applications. The output of this script can be used downstream with the galaxy-tool-lca repo script "lca.py", but if the header is missing, it throws an error:
However, manually adding the header back in like so resolves the error:
Here's the input file for reproducing the problem: CO1_ASV_sequences.combined.blast.out.gz
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