fix more configs

src/control_methods/true_labels/config.vsh.yaml

@@ -3,7 +3,9 @@
 #   - The input/output files
 #   - Common parameters
 #   - A unit test
-__merge__: ../../api/comp_control_method.yaml
+
+# __merge__: ../../api/comp_control_method.yaml
+status: disabled
 
 # A unique identifier for your component (required).
 # Can contain only lowercase letters or underscores.

src/data_loaders/download_10x_xenium/config.vsh.yaml

@@ -8,7 +8,7 @@ argument_groups:
       - type: file
         name: --input
         required: true
-        description: A 10x xenium zip file
+        description: A 10x xenium directory
         multiple: true
       - type: string
         name: --replicate_id

src/data_loaders/download_allen_brain_cell_atlas/config.vsh.yaml

@@ -3,7 +3,7 @@ name: download_allen_brain_cell_atlas
 namespace: data_loaders
 
 argument_groups:
-  - name: Inputs
+  - name: Arguments
     arguments:
       - type: string
         name: --abca_version
@@ -26,14 +26,6 @@ argument_groups:
           - MB
           - OLF
           - TH
-  - name: Outputs
-    arguments:
-      - type: file
-        name: --output
-        required: true
-        direction: output
-        example: output.h5ad
-        description: Path to the output h5ad file.
 
 resources:
   - type: python_script

src/methods/logistic_regression/config.vsh.yaml

@@ -3,7 +3,9 @@
 #   - The input/output files
 #   - Common parameters
 #   - A unit test
-__merge__: ../../api/comp_method.yaml
+
+# __merge__: ../../api/comp_method.yaml
+status: disabled
 
 
 # A unique identifier for your component (required).

src/metrics/accuracy/config.vsh.yaml

@@ -3,7 +3,9 @@
 #   - The input/output files
 #   - Common parameters
 #   - A unit test
-__merge__: ../../api/comp_metric.yaml
+
+# __merge__: ../../api/comp_metric.yaml
+status: disabled
 
 
 # A unique identifier for your component (required).

src/workflows/run_benchmark/config.vsh.yaml

@@ -4,18 +4,13 @@ namespace: workflows
 argument_groups:
   - name: Inputs
     arguments:
-      - name: "--input_train"
-        __merge__: /src/api/file_train_h5ad.yaml
+      - name: "--input_sc"
+        __merge__: /src/api/file_singlecell.yaml
         type: file
         direction: input
         required: true
-      - name: "--input_test"
-        __merge__: /src/api/file_test_h5ad.yaml
-        type: file
-        direction: input
-        required: true
-      - name: "--input_solution"
-        __merge__: /src/api/file_solution.yaml
+      - name: "--input_sp"
+        __merge__: /src/api/file_spatialdata.yaml
         type: file
         direction: input
         required: true
@@ -62,13 +57,13 @@ resources:
     path: /_viash.yaml
 
 dependencies:
-  - name: common/check_dataset_schema
-    repository: openproblems-v2
-  - name: common/extract_metadata
-    repository: openproblems-v2
-  - name: control_methods/true_labels
-  - name: methods/logistic_regression
-  - name: metrics/accuracy
+  # - name: common/check_dataset_schema
+  #   repository: openproblems-v2
+  # - name: common/extract_metadata
+  #   repository: openproblems-v2
+  # - name: control_methods/true_labels
+  # - name: methods/logistic_regression
+  # - name: metrics/accuracy
 
 runners:
   - type: nextflow