Combine files from the aligned inputs
@@ -213,10 +213,10 @@ rule combine_sequences_for_subsampling:
# Similar to rule combine_input_metadata, this rule should only be run if multiple inputs are being used (i.e. multiple origins)
message:
"""
- Combine and deduplicate aligned & filtered FASTAs from multiple origins in preparation for subsampling.
+ Combine and deduplicate aligned FASTAs from multiple origins in preparation for subsampling.
"""
input:
- lambda w: [_get_path_for_input("filtered", origin) for origin in config.get("inputs", {})]
+ lambda w: [_get_path_for_input("aligned", origin) for origin in config.get("inputs", {})]
output:
"results/combined_sequences_for_subsampling.fasta.xz"
benchmark:
