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biobakery / humann

HUMAnN is the next generation of HUMAnN 1.0 (HMP Unified Metabolic Analysis Network).
http://huttenhower.sph.harvard.edu/humann
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humann_genefamilies_genus_level error: 'dict' object has no attribute 'iteritems' #32

Closed pooranis closed 2 years ago

pooranis commented 2 years ago

Hello. Got this error when trying to run humann v3.0.0:

humann_genefamilies_genus_level -i humann_genefamilies.tsv -o out_genus_genefamilies.tsv

Traceback (most recent call last):
  File "/opt/conda/envs/app/bin/humann_genefamilies_genus_level", line 10, in <module>
    sys.exit(main())
  File "/opt/conda/envs/app/lib/python3.9/site-packages/humann/tools/genefamilies_genus_level.py", line 87, in main
    create_table(args.input,args.output)
  File "/opt/conda/envs/app/lib/python3.9/site-packages/humann/tools/genefamilies_genus_level.py", line 50, in create_table
    for gene_taxonomy, values in genus_values.iteritems():
AttributeError: 'dict' object has no attribute 'iteritems'

python 3 uses dict.items instead of dict.iteritems

https://github.com/biobakery/humann/blob/ac2e691d792673b56a3c2585cf43211d439d3326/humann/tools/genefamilies_genus_level.py#L50

Thanks!

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