Configure ImmuneBuilder pipeline for WES execution

- Update container image to harbor.cluster.omic.ai/omic/immunebuilder:latest
- Update input/output paths to S3 (s3://omic/eureka/immunebuilder/)
- Remove local mount containerOptions (not needed in k8s)
- Update homepage to Gitea repo URL
- Clean history to remove large model weight blobs

params.json

@@ -0,0 +1,83 @@
+{
+    "params": {
+        "fasta": {
+            "type": "file",
+            "description": "Path to input FASTA file(s) containing immune protein sequences",
+            "default": "s3://omic/eureka/immunebuilder/antibody_test.fasta",
+            "required": true,
+            "pipeline_io": "input",
+            "var_name": "params.fasta",
+            "examples": [
+                "s3://omic/eureka/immunebuilder/antibody.fasta",
+                "s3://omic/eureka/immunebuilder/*.fasta"
+            ],
+            "pattern": ".*\\.(fasta|fa|faa)$",
+            "enum": [],
+            "validation": {},
+            "notes": "FASTA format requirements vary by mode. Antibody: >H (heavy chain) and >L (light chain). Nanobody: >H (heavy chain only). TCR: >A (alpha chain) and >B (beta chain)."
+        },
+        "outdir": {
+            "type": "folder",
+            "description": "Directory for ImmuneBuilder prediction output files",
+            "default": "s3://omic/eureka/immunebuilder/output",
+            "required": true,
+            "pipeline_io": "output",
+            "var_name": "params.outdir",
+            "examples": [
+                "s3://omic/eureka/immunebuilder/output",
+                "s3://omic/eureka/immunebuilder/custom_output"
+            ],
+            "pattern": ".*",
+            "enum": [],
+            "validation": {},
+            "notes": "Directory where predicted PDB structures and log files will be stored. Will be created if it doesn't exist."
+        },
+        "mode": {
+            "type": "string",
+            "description": "Prediction mode specifying the type of immune protein",
+            "default": "antibody",
+            "required": true,
+            "pipeline_io": "parameter",
+            "var_name": "params.mode",
+            "examples": [
+                "antibody",
+                "nanobody",
+                "tcr"
+            ],
+            "pattern": "^(antibody|nanobody|tcr)$",
+            "enum": ["antibody", "nanobody", "tcr"],
+            "validation": {},
+            "notes": "Determines which predictor to use: 'antibody' for ABodyBuilder2, 'nanobody' for NanoBodyBuilder2, 'tcr' for TCRBuilder2."
+        },
+        "verbose": {
+            "type": "boolean",
+            "description": "Enable verbose output during prediction",
+            "default": true,
+            "required": false,
+            "pipeline_io": "parameter",
+            "var_name": "params.verbose",
+            "examples": [
+                true,
+                false
+            ],
+            "enum": [true, false],
+            "validation": {},
+            "notes": "When enabled, provides detailed progress information during structure prediction."
+        },
+        "original_weights": {
+            "type": "boolean",
+            "description": "Use original TCRBuilder2 weights instead of TCRBuilder2+ weights",
+            "default": false,
+            "required": false,
+            "pipeline_io": "parameter",
+            "var_name": "params.original_weights",
+            "examples": [
+                true,
+                false
+            ],
+            "enum": [true, false],
+            "validation": {},
+            "notes": "Only applicable when mode is 'tcr'. By default, TCRBuilder2+ weights are used. Set to true to use the original TCRBuilder2 weights."
+        }
+    }
+}