fix: add parameters setting to change MASH sketch size

NBChub · May 6, 2024 · dc3aae0 · dc3aae0
1 parent df1d541
commit dc3aae0
Showing 1 changed file with 3 additions and 1 deletion.
diff --git a/workflow/rules/mash.smk b/workflow/rules/mash.smk
@@ -7,6 +7,8 @@ rule mash:
     conda:
         "../envs/mash.yaml"
     threads: 32
+    params:
+        sketch_size=1000,
     log:
         "logs/mash/mash-triangle-{name}.log",
     shell:
@@ -15,7 +17,7 @@ rule mash:
         do
             echo $fna >> {output.mash_infile}
         done
-        (mash triangle -p {threads} -l {output.mash_infile} >> {output.triangle_dist}) 2>> {log}
+        (mash triangle -s {params.sketch_size} -p {threads} -l {output.mash_infile} >> {output.triangle_dist}) 2>> {log}
         """