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humann_genefamilies_genus_level: Fix a dictionary parsing and add functional test #26

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humann_genefamilies_genus_level: Fix a dictionary parsing and add functional test #26

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6 changes: 6 additions & 0 deletions humann/tests/cfg.py
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Original file line number Diff line number Diff line change
Expand Up @@ -185,6 +185,11 @@
merge_abundance_output=os.path.join(data_folder, merge_abundance_folder, "merge_output.tsv")
merge_abundance_remove_taxonomy_output=os.path.join(data_folder, merge_abundance_folder, "merge_output_remove_taxonomy.tsv")

# Files for creating genefamilies genus level
genefamilies_genus_level_folder="tooltest-genefamilies_genus_level"
genefamilies_genus_level_input=os.path.join(data_folder, genefamilies_genus_level_folder, "demo_genefamilies.tsv")
genefamilies_genus_level_output=os.path.join(data_folder, genefamilies_genus_level_folder, "genus_level_genefamilies.tsv")

# Get the locations of the demo chocophlan and uniref databases
example_demo_data_folder=os.path.join(os.path.dirname(os.path.abspath(__file__)),os.pardir,"data")
chocophlan_example_demo_folder=os.path.join(example_demo_data_folder, "chocophlan_DEMO")
Expand All @@ -202,3 +207,4 @@
multi_sample_genefamilies_biom = os.path.join(data_folder, "multi_sample_genefamilies.biom")
multi_sample_genefamilies_split_basename_biom="multi_sample_biom_genefamilies_"
multi_sample_split_files_biom=["multi_sample_genefamilies_sample1.biom","multi_sample_genefamilies_sample2.biom"]

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