Open turbomam opened 2 years ago
python linkml_model_enrichment/annotators/enum_annotator.py \
--modelfile availabilities.yaml \
--tabular_outputfile mapping.log \
--ontoprefix NCBITaxon \
--enum_list strained_enum \
--replaced_chars Z
hopefully the enum names don't contain and Z
s! I wanted to be sure not to drop _
s or -
s
poetry run python md2tsvs/md2tsvs.py \
--mdfile ../synbio-schema/handcrafted/generated/docs/binomial_name_enum.md \
--distcol0 0 --distcol1 1 \
--static_table_num 1
Note that some strains aren't getting valid meaning assignments because NCBI hasn't recorded many strains for the organism, like https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=4952&lvl=3&lin=f&keep=1&srchmode=1&unlock
Especially enums that have meaning added with
linkml_model_enrichment/annotators/enum_annotator.py