fixes dataset names issue

Sage-Bionetworks · Nov 27, 2023 · 2224247 · 2224247
1 parent 7c36863
commit 2224247
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Showing 2 changed files with 6 additions and 8 deletions.
diff --git a/src/agoradatatools/etl/transform/gene_info.py b/src/agoradatatools/etl/transform/gene_info.py
@@ -15,9 +15,9 @@ def transform_gene_info(
     igap = datasets["igap"]
     eqtl = datasets["eqtl"]
     proteomics = datasets["proteomics"]
-    rna_change = datasets["rna_expression_change"]
-    proteomics_tmt = datasets["agora_proteomics_tmt"]
-    proteomics_srm = datasets["agora_proteomics_srm"]
+    rna_change = datasets["diff_exp_data"]
+    proteomics_tmt = datasets["proteomics_tmt"]
+    proteomics_srm = datasets["proteomics_srm"]
     target_list = datasets["target_list"]
     median_expression = datasets["median_expression"]
     druggability = datasets["druggability"]

diff --git a/test_config.yaml b/test_config.yaml
@@ -24,14 +24,14 @@ sources:
       - syn18689335.3
   - agora_proteomics_tmt:
     agora_proteomics_tmt_files: &agora_proteomics_tmt_files
-      - name: agora_proteomics_tmt
+      - name: proteomics_tmt
         id: syn35221005.2
         format: csv
     agora_proteomics_tmt_provenance: &agora_proteomics_tmt_provenance
       - syn35221005.2
   - agora_proteomics_srm:
     agora_proteomics_srm_files: &agora_proteomics_srm_files
-      - name: agora_proteomics_srm
+      - name: proteomics_srm
         id: syn52579640.3
         format: csv
     agora_proteomics_srm_provenance: &agora_proteomics_srm_provenance
@@ -141,9 +141,7 @@ datasets:
         - <<: *agora_proteomics_files
         - <<: *agora_proteomics_tmt_files
         - <<: *agora_proteomics_srm_files
-        - name: rna_expression_change
-          id: syn27211942.1
-          format: tsv
+        - <<: *rna_distribution_data_files
         - name: target_list
           id: syn12540368.41
           format: csv