Make module template and test_yml_builder default commands match.

See nf-core#1562
ewels · May 12, 2022 · 2eea6d6 · 2eea6d6
1 parent 5d4488f
commit 2eea6d6
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diff --git a/nf_core/module-template/tests/test.yml b/nf_core/module-template/tests/test.yml
@@ -1,7 +1,7 @@
 ## TODO nf-core: Please run the following command to build this file:
 #                nf-core modules create-test-yml {{ tool }}{%- if subtool %}/{{ subtool }}{%- endif %}
 - name: "{{ tool }}{{ ' '+subtool if subtool else '' }}"
-  command: nextflow run ./tests/modules/{{ tool_dir }} -entry test_{{ tool_name_underscore }} -c ./tests/config/nextflow.config -c ./tests/modules/{{ tool_dir }}/nextflow.config
+  command: nextflow run ./tests/modules/{{ tool_dir }} -entry test_{{ tool_name_underscore }} -c ./tests/config/nextflow.config
   tags:
     - "{{ tool }}"
     # {%- if subtool %}

diff --git a/nf_core/modules/test_yml_builder.py b/nf_core/modules/test_yml_builder.py
@@ -165,7 +165,7 @@ def build_single_test(self, entry_point):
 
         while ep_test["command"] == "":
             default_val = (
-                f"nextflow run tests/modules/{self.module_name} -entry {entry_point} -c tests/config/nextflow.config"
+                f"nextflow run ./tests/modules/{self.module_name} -entry {entry_point} -c ./tests/config/nextflow.config"
             )
             if self.no_prompts:
                 ep_test["command"] = default_val