Note for further updates

sanger-tol · Dec 12, 2024 · 4335b1e · 4335b1e
1 parent 4d3f395
commit 4335b1e
Showing 1 changed file with 15 additions and 1 deletion.
diff --git a/conf/base.config b/conf/base.config
@@ -25,7 +25,7 @@ process {
     }
 
     withName: 'MINIMAP2_ALIGN_SE' {
-        cpus   = { check_max( 6        * task.attempt, 'cpus'    ) }
+        cpus   = { check_max( 16       * task.attempt, 'cpus'    ) }
         memory = { check_max( 2.GB     * ( reference.size() < 2e9 ? 70 : Math.ceil( ( reference.size() / 1e+9 ) * 50 ) * Math.ceil( task.attempt * 1 ) ) , 'memory') }
         time   = { check_max( 10.h     * task.attempt, 'time'    ) }
     }
@@ -86,6 +86,13 @@ process {
         time    = { check_max( task.attempt == 1 ? 12.h : ( task.attempt == 2 ? 47.h : 167.h ), 'time' ) }
     }
 
+    withLabel:KRAKEN2_KRAKEN2 {
+        // Scalling based on the size of the input genome.
+        cpus   = { check_max( 12    * task.attempt, 'cpus'    ) }
+        memory = { check_max( 72.GB * task.attempt, 'memory'  ) }
+        time   = { check_max( 16.h  * task.attempt, 'time'    ) }
+    }
+
     // Process-specific resource requirements
     // NOTE - Please try and re-use the labels below as much as possible.
     //        These labels are used and recognised by default in DSL2 files hosted on nf-core/modules.
@@ -98,30 +105,37 @@ process {
         memory = { check_max( 6.GB * task.attempt, 'memory'  ) }
         time   = { check_max( 4.h  * task.attempt, 'time'    ) }
     }
+
     withLabel:process_low {
         cpus   = { check_max( 2     * task.attempt, 'cpus'    ) }
         memory = { check_max( 12.GB * task.attempt, 'memory'  ) }
         time   = { check_max( 4.h   * task.attempt, 'time'    ) }
     }
+
     withLabel:process_medium {
         cpus   = { check_max( 6     * task.attempt, 'cpus'    ) }
         memory = { check_max( 36.GB * task.attempt, 'memory'  ) }
         time   = { check_max( 8.h   * task.attempt, 'time'    ) }
     }
+
     withLabel:process_high {
         cpus   = { check_max( 12    * task.attempt, 'cpus'    ) }
         memory = { check_max( 72.GB * task.attempt, 'memory'  ) }
         time   = { check_max( 16.h  * task.attempt, 'time'    ) }
     }
+
     withLabel:process_long {
         time   = { check_max( 20.h  * task.attempt, 'time'    ) }
     }
+
     withLabel:process_high_memory {
         memory = { check_max( 200.GB * task.attempt, 'memory' ) }
     }
+
     withLabel:error_ignore {
         errorStrategy = 'ignore'
     }
+
     withLabel:error_retry {
         errorStrategy = 'retry'
         maxRetries    = 2