Fix input path to s3://omic/eureka/prodigy/*.pdb

.gitignore

@@ -10,4 +10,3 @@ __pycache__/
 .idea/
 *.tmp
 *.swp
-tests/test_data/dataset.tgz

main.nf

@@ -3,7 +3,7 @@
 nextflow.enable.dsl=2
 
 // Default parameters
-params.pdb = 's3://omic/eureka/prodigy/input/*.pdb'
+params.pdb = 's3://omic/eureka/prodigy/*.pdb'
 params.outdir = 's3://omic/eureka/prodigy/output'
 params.distance_cutoff = 5.5
 params.acc_threshold = 0.05

nextflow.config

@@ -15,7 +15,7 @@ manifest {
 
 // Global default parameters
 params {
-    pdb = 's3://omic/eureka/prodigy/input/*.pdb'
+    pdb = 's3://omic/eureka/prodigy/*.pdb'
     outdir = 's3://omic/eureka/prodigy/output'
     distance_cutoff = 5.5
     acc_threshold = 0.05

params.json

@@ -3,13 +3,13 @@
         "pdb": {
             "type": "file",
             "description": "Path to input PDB or mmCIF structure file(s) for binding affinity prediction",
-            "default": "s3://omic/eureka/prodigy/input/*.pdb",
+            "default": "s3://omic/eureka/prodigy/*.pdb",
             "required": true,
             "pipeline_io": "input",
             "var_name": "params.pdb",
             "examples": [
-                "s3://omic/eureka/prodigy/input/3bzd.pdb",
-                "s3://omic/eureka/prodigy/input/*.pdb"
+                "s3://omic/eureka/prodigy/3bzd.pdb",
+                "s3://omic/eureka/prodigy/*.pdb"
             ],
             "pattern": ".*\\.(pdb|cif)$",
             "enum": [],