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  • edna
  • custom_reference_databasecustom_reference_database
  • Issues
  • #8

Closed
Open
Created Dec 13, 2021 by mbruno@mbrunoOwner

Bug - step 2 Curation generation - 'Catalogue of Life database not found'

mkbdr curegen --fasta res_raw_faulty_taxon.fasta \
--database_globalnames 'Catalogue of Life' \
--output_prefix res_raw 

Results - 10/12/2021

current_name;ncbi_name;genus;family;ncbi_rank;method
Albula forsteri;Albula argentea;Albula;Albulidae;species;NCBI synonym score=1.0
Amphiprion fuscocaudatus;NA;NA;NA;NA;FAILURE: Catalogue of Life database not found in globalNames query
Atherinomorus lineatus;NA;NA;NA;NA;FAILURE: Catalogue of Life database not found in globalNames query
...

Results - 15/05/2021

current_name;ncbi_name;genus;family;ncbi_rank;method
Albula forsteri;Albula argentea;Albula;Albulidae;species;NCBI synonym score=1.0
Amphiprion fuscocaudatus;NA;Amphiprion;Pomacentridae;genus;Catalogue of Life
Atherinomorus lineatus;NA;Atherinomorus;Atherinidae;genus;Catalogue of Life
...
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