Merge pull request #18 from opentargets/szsz-remove-redundant-files

feat: remove redundant files from curation update command
opentargets · Oct 15, 2024 · 3de79b8 · 3de79b8
2 parents 108ea30 + f3fb1e8
commit 3de79b8
Showing 1 changed file with 3 additions and 15 deletions.
diff --git a/src/gentroutils/commands/update_gwas_curation_metadata.py b/src/gentroutils/commands/update_gwas_curation_metadata.py
@@ -21,27 +21,15 @@
 CURATED_INPUTS = (
     (
         "ftp://ftp.ebi.ac.uk/pub/databases/gwas/releases/latest/gwas-catalog-associations_ontology-annotated.tsv",
-        "gs://gwas_catalog_data/curated_inputs/gwas_catalog_associations_ontology_annotated.tsv",
+        "gs://gwas_catalog_inputs/gwas_catalog_associations_ontology_annotated.tsv",
     ),
     (
         "ftp://ftp.ebi.ac.uk/pub/databases/gwas/releases/latest/gwas-catalog-download-studies-v1.0.3.1.txt",
-        "gs://gwas_catalog_data/curated_inputs/gwas_catalog_download_studies.tsv",
-    ),
-    (
-        "ftp://ftp.ebi.ac.uk/pub/databases/gwas/releases/latest/gwas-catalog-unpublished-studies-v1.0.3.1.tsv",
-        "gs://gwas_catalog_data/curated_inputs/gwas_catalog_unpublished_studies.tsv",
+        "gs://gwas_catalog_inputs/gwas_catalog_download_studies.tsv",
     ),
     (
         "ftp://ftp.ebi.ac.uk/pub/databases/gwas/releases/latest/gwas-catalog-download-ancestries-v1.0.3.1.txt",
-        "gs://gwas_catalog_data/curated_inputs/gwas_catalog_download_ancestries.tsv",
-    ),
-    (
-        "ftp://ftp.ebi.ac.uk/pub/databases/gwas/releases/latest/gwas-catalog-unpublished-ancestries-v1.0.3.1.tsv",
-        "gs://gwas_catalog_data/curated_inputs/gwas_catalog_unpublished_ancestries.tsv",
-    ),
-    (
-        "ftp://ftp.ebi.ac.uk/pub/databases/gwas/summary_statistics/harmonised_list.txt",
-        "gs://gwas_catalog_data/curated_inputs/harmonised_list.txt",
+        "gs://gwas_catalog_inputs/gwas_catalog_download_ancestries.tsv",
     ),
 )