Initial commit: digital-patients pipeline (clean, no large files)

Large reference/model files excluded from repo - to be staged to S3 or baked into Docker images.

k8s/gpu-test.yaml

@@ -0,0 +1,18 @@
+apiVersion: v1
+kind: Pod
+metadata:
+  name: gpu-test-pod
+  namespace: bioinformatics
+spec:
+  restartPolicy: Never
+  nodeSelector:
+    gpu: 'yes'
+    gpu-type: 'geforce-rtx-3090'
+  containers:
+  - name: cuda-test
+    # Using a standard, lightweight NVIDIA CUDA image to test the runtime
+    image: nvidia/cuda:11.8.0-base-ubuntu22.04
+    command: ["nvidia-smi"]
+    resources:
+      limits:
+        nvidia.com/gpu: 1