restrict to conda frontend

mamba causing errors: libmamba Non-conda folder exists at prefix
AroneyS · Nov 26, 2024 · 6c664fc · 6c664fc
1 parent d1c5c40
commit 6c664fc
Showing 1 changed file with 2 additions and 0 deletions.
diff --git a/binchicken/workflow/coassemble.smk b/binchicken/workflow/coassemble.smk
@@ -834,6 +834,7 @@ rule aviary_assemble:
         "-n {threads} "
         "-t {threads} "
         "-m {resources.mem_gb} "
+        "--conda-frontend conda " # Mamba is causing errors: libmamba Non-conda folder exists at prefix
         "--skip-qc "
         "{resources.assembler} "
         "{params.dryrun} "
@@ -889,6 +890,7 @@ rule aviary_recover:
         "-n {params.threads} "
         "-t {params.threads} "
         "-m {resources.mem_gb} "
+        "--conda-frontend conda " # Mamba is causing errors: libmamba Non-conda folder exists at prefix
         "--skip-qc "
         "{params.snakemake_profile} "
         "{params.cluster_retries} "