migrate random_features component

src/control_methods/random_features/config.vsh.yaml

@@ -0,0 +1,23 @@
+__merge__: ../../api/comp_control_method.yaml
+name: "random_features"
+label: Random Features
+summary: "Negative control by randomly embedding into a 2D space."
+description: "This method serves as a negative control, where the data is randomly embedded into a two-dimensional space, with no attempt to preserve the original structure."
+info:
+  v1:
+    path: openproblems/tasks/dimensionality_reduction/methods/baseline.py
+    commit: 80b37e7a6aa27df4436f400397564c01276817e0
+  preferred_normalization: counts
+  variants:
+    random_features:
+resources:
+  - type: python_script
+    path: script.py
+engines:
+  - type: docker
+    image: openproblems/base_python:1.0.0
+runners:
+  - type: executable
+  - type: nextflow
+    directives: 
+      label: [midtime, highmem, highcpu]

src/control_methods/random_features/script.py

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+import anndata as ad
+import numpy as np
+
+## VIASH START
+par = {
+    "input": "resources_test/dimensionality_reduction/pancreas/test.h5ad",
+    "output": "reduced.h5ad",
+}
+meta = {
+    "functionality_name": "random_features",
+}
+## VIASH END
+
+print("Load input data", flush=True)
+input = ad.read_h5ad(par["input"])
+
+print("Create random embedding", flush=True)
+X_emb = np.random.normal(0, 1, (input.shape[0], 2))
+
+print("Create output AnnData", flush=True)
+output = ad.AnnData(
+    obs=input.obs[[]],
+    obsm={
+        "X_emb": X_emb
+    },
+    uns={
+        "dataset_id": input.uns["dataset_id"],
+        "normalization_id": input.uns["normalization_id"],
+        "method_id": meta["functionality_name"]
+    }
+)
+
+print("Write output to file", flush=True)
+output.write_h5ad(par["output"], compression="gzip")