Merge pull request #10 from snakemake-workflows/cleanup-scenarios

fix: move scenarios into `workflow/resources`
snakemake-workflows · May 12, 2023 · ccd556a · ccd556a
2 parents 9d44078 + c0472f8
commit ccd556a
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Showing 5 changed files with 9 additions and 62 deletions.
diff --git a/resources/report-table-formatter.js b/resources/report-table-formatter.js
diff --git a/...s/scenarios/illumina_circle_scenario.yaml → ...s/scenarios/illumina_circle_scenario.yaml b/...s/scenarios/illumina_circle_scenario.yaml → ...s/scenarios/illumina_circle_scenario.yaml
diff --git a/...s/scenarios/nanopore_circle_scenario.yaml → ...s/scenarios/nanopore_circle_scenario.yaml b/...s/scenarios/nanopore_circle_scenario.yaml → ...s/scenarios/nanopore_circle_scenario.yaml
diff --git a/...opore_illumina_joint_circle_scenario.yaml → ...opore_illumina_joint_circle_scenario.yaml b/...opore_illumina_joint_circle_scenario.yaml → ...opore_illumina_joint_circle_scenario.yaml
diff --git a/workflow/rules/common.smk b/workflow/rules/common.smk
@@ -175,11 +175,17 @@ def scenario_name(wildcards):
 def get_scenario(wildcards):
     scenario = scenario_name(wildcards)
     if scenario == "nanopore_only":
-        return "resources/scenarios/nanopore_circle_scenario.yaml"
+        return workflow.source_path(
+            "../resources/scenarios/nanopore_circle_scenario.yaml"
+        )
     elif scenario == "illumina_only":
-        return "resources/scenarios/illumina_circle_scenario.yaml"
+        return workflow.source_path(
+            "../resources/scenarios/illumina_circle_scenario.yaml"
+        )
     elif scenario == "nanopore_with_illumina_support":
-        return "resources/scenarios/nanopore_illumina_joint_circle_scenario.yaml"
+        return workflow.source_path(
+            "../resources/scenarios/nanopore_illumina_joint_circle_scenario.yaml"
+        )
     else:
         raise ValueError(f"Unknown scenario: {scenario}")