update anglerfish command used

kedhammar · Aug 16, 2024 · eaf9828 · eaf9828
1 parent 49d11af
commit eaf9828
Showing 1 changed file with 2 additions and 0 deletions.
diff --git a/taca/nanopore/ONT_run_classes.py b/taca/nanopore/ONT_run_classes.py
@@ -530,10 +530,12 @@ def run_anglerfish(self):
 
         anglerfish_command = [
             self.anglerfish_path,
+            "run",
             f"--samplesheet {self.anglerfish_samplesheet}",
             f"--out_fastq {self.run_abspath}",
             f"--run_name {anglerfish_run_name}",
             f"--threads {n_threads}",
+            "--max_distance 1",
             "--lenient",
             "--skip_demux",
         ]