There are blast failures we don't know how to fix. Just ignore for now

sanger-tol · Jul 15, 2024 · b83f05c · b83f05c
1 parent 310a812
commit b83f05c
Showing 1 changed file with 4 additions and 0 deletions.
diff --git a/conf/base.config b/conf/base.config
@@ -105,6 +105,10 @@ process {
     }
 
     withName: "BLAST_BLASTN" {
+
+        // There are blast failures we don't know how to fix. Just ignore for now
+        errorStrategy = { task.exitStatus in ((130..145) + 104) ? (task.attempt == process.maxRetries ? 'ignore' : 'retry') : 'finish' }
+
         // Most jobs complete quickly but some need a lot longer. For those outliers,
         // the CPU usage remains usually low, often nearing a single CPU
         cpus   = { check_max( 6    -            (task.attempt-1), 'cpus'   ) }