From 8cd0ebcb36d356a6d13958c0f3a95564d84c60d4 Mon Sep 17 00:00:00 2001
From: Botond Sipos/Compara <Botond.Sipos@ebi.ac.uk>
Date: Mon, 15 Apr 2024 11:04:52 +0100
Subject: [PATCH] Added alternative base config with no checking for partition
 resource limits and larger resource classes.

---
 conf/base_large.config | 72 ++++++++++++++++++++++++++++++++++++++++++
 1 file changed, 72 insertions(+)
 create mode 100644 conf/base_large.config

diff --git a/conf/base_large.config b/conf/base_large.config
new file mode 100644
index 0000000..3b441d2
--- /dev/null
+++ b/conf/base_large.config
@@ -0,0 +1,72 @@
+/*
+~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+    dessimozlab/FastOMA Nextflow base config file with no resource maximum checking
+~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+    A 'blank slate' config file, appropriate for general use on most high performance
+    compute environments. Assumes that all software is installed and available on
+    the PATH. Runs in `local` mode - all jobs will be run on the logged in environment.
+    This config does not check for maximum available resources on the partition to allow
+    the scheduling between partitions with different resource limits.
+----------------------------------------------------------------------------------------
+*/
+
+process {
+
+    cpus   = {  1    * task.attempt  }
+    memory = { 6.GB * task.attempt }
+    time   = { 4.h  * task.attempt }
+    shell  = ['/bin/bash', '-euo', 'pipefail']
+
+    //errorStrategy = { task.exitStatus in (130..145) ? 'retry' : 'finish' }
+    errorStrategy = 'retry'
+    maxRetries    = 4
+
+    withLabel:process_single {
+        cpus   = { 1 }
+        memory = { 12.GB * task.attempt }
+        time   = { 4.h   * task.attempt }
+    }
+    withLabel:process_single_big {
+        cpus   = { 2 }
+        memory = { 30.GB * task.attempt  }
+        time   = { 24.h   * task.attempt }
+    }
+    withLabel:process_single_bigger {
+        cpus   = { 2 }
+        memory = { 70.GB * task.attempt  }
+        time   = { 24.h   * task.attempt }
+    }
+    withLabel:process_single_huge {
+        cpus   = { 2 }
+        memory = { 250.GB * task.attempt }
+        time   = { 48.h   * task.attempt }
+    }
+    withLabel:process_low {
+        cpus   = { 2     * task.attempt }
+        memory = { 12.GB * task.attempt }
+        time   = { 4.h   * task.attempt }
+    }
+    withLabel:process_medium {
+        cpus   = { 6     * task.attempt }
+        memory = { 36.GB * task.attempt }
+        time   = { 8.h   * task.attempt }
+    }
+    withLabel:process_high {
+        cpus   = { 12    * task.attempt }
+        memory = { 72.GB * task.attempt }
+        time   = { 16.h  * task.attempt }
+    }
+    withLabel:process_long {
+        time   = { 20.h  * task.attempt }
+    }
+    withLabel:process_high_memory {
+        memory = { 200.GB * task.attempt }
+    }
+    withLabel:error_ignore {
+        errorStrategy = 'ignore'
+    }
+    withLabel:error_retry {
+        errorStrategy = 'retry'
+        maxRetries    = 2
+    }
+}