remove unused arguments

openpipelines-bio · Dec 18, 2024 · 6d7a587 · 6d7a587
1 parent 856187d
commit 6d7a587
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diff --git a/src/integrate/scvi/config.vsh.yaml b/src/integrate/scvi/config.vsh.yaml
@@ -43,12 +43,6 @@ argument_groups:
         description: .var field containing the gene names, if the .var index is not to be used.
         type: string
         required: false
-      - name: "--input_reference_gene_overlap"
-        type: integer
-        default: 100
-        min: 1
-        description: | 
-          The minimum number of genes present in both the reference and query datasets.
       - name: "--obs_labels"
         type: string
         required: false

diff --git a/src/integrate/scvi/script.py b/src/integrate/scvi/script.py
@@ -42,7 +42,6 @@
     "var_input_gene_names": None,
     "scvi_reference_model": "scvi",
     "unknown_celltype": "Unknown",
-    "input_reference_gene_overlap": 100,
 }
 
 meta = {"resources_dir": "src/utils"}