Merge pull request #5 from cpauvert/fix-4-with-conda

ensure conda execution is enabled in configuration

{{cookiecutter.project_slug}}/{{cookiecutter.project_slug}}/util.py

@@ -46,7 +46,7 @@ def append_config_block(nf_config="nextflow.config", scope=None, **kwargs):
     with open(nf_config, "a") as f:
         f.write(scope.rstrip() + "{" + "\n")
         for k in kwargs:
-            f.write(f"{k} = {kwargs[k]}\n")
+            f.write(f"\t{k} = {kwargs[k]}\n")
         f.write("}\n")
 
 
@@ -138,6 +138,9 @@ def run_nextflow(
 
         # Use conda
         if use_conda:
+            append_config_block(
+                scope="conda", enabled='"true"'
+            )
             if conda_frontend == "mamba":
                 append_config_block(
                     scope="conda", useMamba='"true"', cacheDir=f'"{conda_prefix}"'