Merge pull request #557 from monarch-initiative/rename-gene-mapping-file

Update the gene mapping file to match the new name with the .sssom.tsv suffix.
monarch-initiative · Dec 13, 2023 · 3d1b0a8 · 3d1b0a8
2 parents a7c4c9f + 1a0710d
commit 3d1b0a8
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Showing 2 changed files with 3 additions and 3 deletions.
diff --git 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
@@ -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