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chore: update hgnc_complete_set download url #100

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2 changes: 1 addition & 1 deletion download_urls.yml
Original file line number Diff line number Diff line change
Expand Up @@ -251,7 +251,7 @@
count: 10000

- url: 'https://ensembl.org/biomart/martservice?query=<?xml version="1.0" encoding="UTF-8"?><!DOCTYPE Query><Query virtualSchemaName = "default" formatter = "TSV" header = "0" uniqueRows = "0" count = "" datasetConfigVersion = "0.6" ><Dataset name = "hsapiens_gene_ensembl" interface = "default" ><Attribute name = "ensembl_gene_id" /><Attribute name = "ensembl_transcript_id" /><Attribute name = "entrezgene_id" /><Attribute name = "external_gene_name" /></Dataset></Query>'
- url: 'https://ftp.ebi.ac.uk/pub/databases/genenames/hgnc/json/hgnc_complete_set.json'
- url: 'https://storage.googleapis.com/public-download-files/hgnc/json/json/hgnc_complete_set.json'
skip_upstream_check: true # does not work reliably in tests
excerpt_strategy:
strategy: manual
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2 changes: 1 addition & 1 deletion rules/work/genes/hgnc.smk
Original file line number Diff line number Diff line change
Expand Up @@ -14,7 +14,7 @@ rule genes_hgnc_download: # -- Download the HGNC data

wget --no-check-certificate \
-O {output.json} \
https://ftp.ebi.ac.uk/pub/databases/genenames/hgnc/json/hgnc_complete_set.json
https://storage.googleapis.com/public-download-files/hgnc/json/json/hgnc_complete_set.json

md5sum {output.json} > {output.json_md5}
"""
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