fix nextflow test errors (#261)

* fix denoising * fix match modality metrics input
openproblems-bio · Oct 12, 2023 · 4d7d9f6 · 4d7d9f6
1 parent 8881f59
commit 4d7d9f6
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Showing 2 changed files with 5 additions and 5 deletions.
diff --git a/src/tasks/denoising/workflows/run_benchmark/main.nf b/src/tasks/denoising/workflows/run_benchmark/main.nf
@@ -50,7 +50,7 @@ workflow run_wf {
 
       // define a new 'id' by appending the method name to the dataset id
       id: { id, state, comp ->
-        id + "." + comp.functionality.name
+        id + "." + comp.config.functionality.name
       },
 
       // use 'fromState' to fetch the arguments the component requires from the overall state
@@ -63,7 +63,7 @@ workflow run_wf {
       // use 'toState' to publish that component's outputs to the overall state
       toState: { id, output, state, comp ->
         state + [
-          method_id: comp.functionality.name,
+          method_id: comp.config.functionality.name,
           method_output: output.output
         ]
       }
@@ -80,7 +80,7 @@ workflow run_wf {
       // use 'toState' to publish that component's outputs to the overall state
       toState: { id, output, state, comp ->
         state + [
-          metric_id: comp.functionality.name,
+          metric_id: comp.config.functionality.name,
           metric_output: output.output
         ]
       }

diff --git a/src/tasks/match_modalities/workflows/run_benchmark/main.nf b/src/tasks/match_modalities/workflows/run_benchmark/main.nf
@@ -91,8 +91,8 @@ workflow run_wf {
       components: metrics,
       // use 'fromState' to fetch the arguments the component requires from the overall state
       fromState: [
-        input_mod1: "method_output_mod1",
-        input_mod2: "method_output_mod2",
+        input_integrated_mod1: "method_output_mod1",
+        input_integrated_mod2: "method_output_mod2",
         input_solution_mod1: "input_solution_mod1",
         input_solution_mod2: "input_solution_mod2"
       ],