fix tests

loculus-project · Feb 27, 2025 · c582912 · c582912
1 parent 6adbbf0
commit c582912
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Showing 2 changed files with 5 additions and 4 deletions.
diff --git a/ingest/Snakefile b/ingest/Snakefile
@@ -35,9 +35,9 @@ dataset_server_map = {}
 dataset_name_map = {}
 
 if SEGMENTED:
-    if config.get("nextclade_sort"):
+    if config.get("nextclade_sort", None):
         ALIGN = False
-    elif config.get("nextclade_align"):
+    elif config.get("nextclade_align", None):
         ALIGN = True
         nextclade_align_params = config["nextclade_align"]
         for segment in config["nucleotide_sequences"]:

diff --git a/ingest/tests/config_cchf/config.yaml b/ingest/tests/config_cchf/config.yaml
@@ -6,8 +6,9 @@ insdc_segment_specific_fields:
   - insdcAccessionFull
   - insdcRawReadsAccession
 keycloak_token_url: http://localhost:8083/realms/loculus/protocol/openid-connect/token
-nextclade_dataset_name: nextstrain/cchfv/linked
-nextclade_dataset_server: https://raw.githubusercontent.com/nextstrain/nextclade_data/cornelius-cchfv/data_output
+nextclade_align:
+  nextclade_dataset_name: nextstrain/cchfv/linked
+  nextclade_dataset_server: https://raw.githubusercontent.com/nextstrain/nextclade_data/cornelius-cchfv/data_output
 nucleotide_sequences:
   - L
   - M