From 1a0710d4e6178334ff67fb10d0331691732a2fe1 Mon Sep 17 00:00:00 2001 From: Kevin Schaper Date: Wed, 13 Dec 2023 08:53:02 -0800 Subject: [PATCH] Update the gene mapping file to match the new name with the .sssom.tsv suffix. --- src/monarch_ingest/cli_utils.py | 2 +- src/monarch_ingest/download.yaml | 4 ++-- 2 files changed, 3 insertions(+), 3 deletions(-) diff --git a/src/monarch_ingest/cli_utils.py b/src/monarch_ingest/cli_utils.py index 6a013a9a..7bbe8ad5 100644 --- a/src/monarch_ingest/cli_utils.py +++ b/src/monarch_ingest/cli_utils.py @@ -302,7 +302,7 @@ def merge_files( mappings = [] mappings.append("data/monarch/mondo.sssom.tsv") - mappings.append("data/monarch/gene_mappings.tsv") + mappings.append("data/monarch/gene_mappings.sssom.tsv") mappings.append("data/monarch/chebi-mesh.biomappings.sssom.tsv") logger.info("Merging knowledge graph...") diff --git a/src/monarch_ingest/download.yaml b/src/monarch_ingest/download.yaml index 4f0c91ee..2bd5feed 100644 --- a/src/monarch_ingest/download.yaml +++ b/src/monarch_ingest/download.yaml @@ -295,9 +295,9 @@ ### Monarch - - url: 'http://data.monarchinitiative.org/monarch-gene-mapping/latest/gene_mappings.tsv' + url: 'http://data.monarchinitiative.org/monarch-gene-mapping/latest/gene_mappings.sssom.tsv' # url: 'http://storage.googleapis.com/data-public-monarchinitiative/monarch-gene-mapping/latest/gene_mappings.tsv' - local_name: data/monarch/gene_mappings.tsv + local_name: data/monarch/gene_mappings.sssom.tsv tag: mapping - url: https://raw.githubusercontent.com/monarch-initiative/mondo/master/src/ontology/mappings/mondo.sssom.tsv