artic-network / civet

Cluster Investigation & Virus Epidemiology Tool
https://cov-lineages.org/resources/civet.html
GNU General Public License v3.0
49 stars 14 forks source link

too big tree something or other #91

Closed aineniamh closed 3 years ago

aineniamh commented 3 years ago
---------------------------------------------------------------------------KeyError
Traceback (most recent call last)<ipython-input-1-a4371e5355ae> in
<module>
----> 1 too_tall_trees, overall_tree_number, colour_dict_dict,
overall_df_dict, tree_order, too_large_tree_dict,
tallest_height,tree_to_num_tips =
tree_viz.make_all_of_the_trees(treedir, tree_name_stem, full_tax_dict,
query_dict, tree_fields, label_fields, colour_by, tree_to_all_tip,
tree_to_tip, inserted_node_dict, svg_figdir,
safety_level=safety_level)
~/.conda/envs/civet/lib/python3.6/site-
packages/reportfunk/funks/tree_functions.py in
make_all_of_the_trees(input_dir, tree_name_stem, taxon_dict,
query_dict, desired_fields, custom_tip_labels, graphic_dict,
tree_to_all_tip, tree_to_querys, inserted_node_dict, svg_figdir,
safety_level, min_uk_taxa)
    390                 too_tall_trees.append(treename)
    391                 tips = tree_to_all_tip[treename]
--> 392                 too_large_tree_dict =
summarise_large_tree(tips, treename, query_dict, taxon_dict,
too_large_tree_dict, tree_to_querys)
    393
    394     return too_tall_trees, overall_tree_count,
colour_dict_dict, overall_df_dict, tree_order, too_large_tree_dict,
tallest_height, tree_to_num_tips
~/.conda/envs/civet/lib/python3.6/site-
packages/reportfunk/funks/tree_functions.py in
summarise_large_tree(tips, treename, query_dict, full_tax_dict,
df_dict, tree_to_querys)
    414             #     queries.append(tip)
    415
--> 416             tax_obj = full_tax_dict[tip]
    417
    418             if tax_obj.country != "NA":
KeyError: 'Spain/AS-IBV-98006627/2020'