feat(nextclade): workaround for nextstrain/nextclade#1422 no longer n…

…eeded

Nextclade now doesn't error when input sequence file empty

workflow/snakemake_rules/nextclade.smk

@@ -187,14 +187,6 @@ rule run_wuhan_nextclade:
         ],
     shell:
         """
-        # If there are no sequences to run Nextclade on, create empty output files
-        if [[ ! -s {input.sequences} ]]; then
-            touch {output.info}
-            touch {output.alignment}
-            touch {output.translations}
-            exit 0
-        fi
-
         ./{input.nextclade_path} run \
         {input.sequences}\
         --input-dataset={input.dataset} \
@@ -216,12 +208,6 @@ rule run_21L_nextclade:
         info=f"data/{database}/nextclade_21L_new_raw.tsv",
     shell:
         """
-        # If there are no sequences to run Nextclade on, create empty output files
-        if [[ ! -s {input.sequences} ]]; then
-            touch {output.info}
-            exit 0
-        fi
-
         ./{input.nextclade_path} run \
         {input.sequences} \
         --input-dataset={input.dataset} \