Tiny fixes

.github/workflows/lint-pipelines.yml

@@ -30,6 +30,10 @@ on:
         description: "Skip linting subworkflows"
         type: boolean
         default: false
+      no_cache:
+        description: "Skip linting cache to force fresh linting of all files"
+        type: boolean
+        default: false
 
 permissions:
   contents: write
@@ -145,6 +149,9 @@ jobs:
           if [[ "${{ inputs.skip_subworkflows }}" == "true" ]]; then
             CMD="$CMD --skip-subworkflows"
           fi
+          if [[ "${{ inputs.no_cache }}" == "true" ]]; then
+            CMD="$CMD --no-cache"
+          fi
 
           # Add specific filters if provided
           if [[ -n "${{ inputs.pipelines }}" ]]; then

lint_results/module-results/snpsift_annmem_lint.md

@@ -2,4 +2,4 @@
 
 - Generated: 2026-02-06T00:20:52.532814+00:00
 - Nextflow version: 25.12.0-edge
-- Summary: No issues found
+- Summary: No issues found

src/strict_syntax_health/cli.py

@@ -1014,12 +1014,10 @@ def _run_subworkflows_lint_bulk(subworkflows: list[dict], nextflow_version: str)
     return results
 
 
-def display_results(
-    results: list[dict], title: str = "nf-core Strict Syntax Health", show_prints_help: bool = False
-) -> None:
+def display_results(results: list[dict], type_name: str, show_prints_help: bool = False) -> None:
     """Display results in a rich table."""
-    table = Table(title=title)
-    table.add_column("Pipeline", style="cyan")
+    table = Table(f"nf-core {type_name.capitalize()} Strict Syntax Health")
+    table.add_column(type_name.capitalize(), style="cyan")
     table.add_column("Parse Error", justify="right")
     table.add_column("Errors", justify="right")
     table.add_column("Warnings", justify="right")
@@ -1737,7 +1735,7 @@ def main(
             console.print(f"Filtering to {len(pipelines)} pipeline(s): {', '.join(p['name'] for p in pipelines)}")
 
         pipeline_results = run_pipeline_lint(pipelines, no_cache=no_cache)
-        display_results(pipeline_results, title="nf-core Pipeline Strict Syntax Health", show_prints_help=True)
+        display_results(pipeline_results, type_name="pipeline", show_prints_help=True)
         # Save results for aggregation (only when not filtering specific pipelines)
         if not pipeline:
             save_results_for_type("pipelines", pipeline_results)
@@ -1788,7 +1786,7 @@ def main(
 
                 module_results = run_modules_lint(modules, nextflow_version)
 
-            display_results(module_results, title="nf-core Module Strict Syntax Health")
+            display_results(module_results, type_name="module")
             # Save results for aggregation (only when not filtering specific modules)
             if not module:
                 save_results_for_type("modules", module_results, repo_commit=repo_commit)
@@ -1820,7 +1818,7 @@ def main(
 
                 subworkflow_results = run_subworkflows_lint(subworkflows, nextflow_version)
 
-            display_results(subworkflow_results, title="nf-core Subworkflow Strict Syntax Health")
+            display_results(subworkflow_results, type_name="subworkflow")
             # Save results for aggregation (only when not filtering specific subworkflows)
             if not subworkflow:
                 save_results_for_type("subworkflows", subworkflow_results, repo_commit=repo_commit)