Match meta-predictor's working WES pattern

- Add executor, docker, k8s storage config to k8s profile
- Use val input instead of file channel (avoids S3 staging issue)
- Pass PDB path as string, copy from PVC mount inside script
- Add PVC mount debug logging
- Set default params to /omic/eureka paths

nextflow.config

@@ -8,36 +8,34 @@ manifest {
     version = '1.0.0'
 }
 
-// S3/MinIO plugin for direct S3 access
-plugins {
-    id 'nf-amazon'
-}
-
-aws {
-    client {
-        endpoint = 'http://datalake-hl.datalake.svc.cluster.local:9000'
-        s3PathStyleAccess = true
-    }
-}
-
 // Global default parameters
 params {
-    pdb = null
-    outdir = null
+    pdb = "/omic/eureka/Pocketminer/1HSG.pdb"
+    outdir = "/omic/eureka/Pocketminer/output"
     debug = false
 }
 
+// Profiles for different execution environments
 profiles {
     standard {
         docker {
             enabled = true
-            runOptions = '--rm'
+            temp = 'auto'
         }
     }
+
     k8s {
         process {
+            executor = 'k8s'
             container = 'harbor.cluster.omic.ai/omic/pocketminer:latest'
         }
+        docker {
+            enabled = true
+        }
+        k8s {
+            storageClaimName = 'eureka-pvc'
+            storageMountPath = '/omic/eureka'
+        }
     }
 }