From b83f05c39ff9d9dbc3c54aad4f7d3951c9db7a70 Mon Sep 17 00:00:00 2001
From: Matthieu Muffato <mm49@sanger.ac.uk>
Date: Mon, 15 Jul 2024 09:23:12 +0100
Subject: [PATCH] There are blast failures we don't know how to fix. Just
 ignore for now

---
 conf/base.config | 4 ++++
 1 file changed, 4 insertions(+)

diff --git a/conf/base.config b/conf/base.config
index c1442675..75fa0d06 100644
--- 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'   ) }