Mercurial > repos > kkonganti > cfsan_centriflaken

changeset 132:cbb06f201be5

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planemo upload
author kkonganti
date Mon, 08 Jul 2024 09:46:28 -0400
parents 45900148ca9e
children 258448f18171
files 0.4.2/conf/modules.config cfsan_centriflaken.xml
diffstat 2 files changed, 38 insertions(+), 14 deletions(-) [+]
line wrap: on
line diff
--- a/0.4.2/conf/modules.config	Fri Jul 05 09:31:14 2024 -0400
+++ b/0.4.2/conf/modules.config	Mon Jul 08 09:46:28 2024 -0400
@@ -14,54 +14,78 @@
         ![0].contains(task.exitStatus) ? dynamic_retry(task.attempt, 10) : 'finish'
     }
 
-    maxRetries = 5
+    maxRetries = 3
 
     withLabel: 'process_femto' {
-        cpus = 2
+        cpus = { 1 * task.attempt }
+        memory = { 1.GB * task.attempt }
+        time = { 1.h * task.attempt }
     }
 
     withLabel: 'process_pico' {
-        cpus = 2
+        cpus = { 2 * task.attempt }
+        memory = { 4.GB * task.attempt }
+        time = { 2.h * task.attempt }
     }
 
     withLabel: 'process_nano' {
-        cpus = 4
+        cpus = { 4 * task.attempt }
+        memory = { 8.GB * task.attempt }
+        time = { 4.h * task.attempt }
     }
 
     withLabel: 'process_micro' {
-        cpus = 8
+        cpus = { 8 * task.attempt }
+        memory = { 16.GB * task.attempt }
+        time = { 8.h * task.attempt }
     }
 
     withLabel: 'process_only_mem_low' {
-        cpus = 2
+        cpus = { 1 * task.attempt }
+        memory = { 60.GB * task.attempt }
+        time = { 20.h * task.attempt }
     }
 
     withLabel: 'process_only_mem_medium' {
-        cpus = 2
+        cpus = { 1 * task.attempt }
+        memory = { 100.GB * task.attempt }
+        time = { 30.h * task.attempt }
     }
 
     withLabel: 'process_only_mem_high' {
-        cpus = 2
+        cpus = { 1 * task.attempt }
+        memory = { 128.GB * task.attempt }
+        time = { 60.h * task.attempt }
     }
 
     withLabel: 'process_low' {
-        cpus = 8
+        cpus = { 10 * task.attempt }
+        memory = { 60.GB * task.attempt }
+        time = { 20.h * task.attempt }
     }
 
     withLabel: 'process_medium' {
-        cpus = 8
+        cpus = { 10 * task.attempt }
+        memory = { 100.GB * task.attempt }
+        time = { 30.h * task.attempt }
     }
 
     withLabel: 'process_high' {
-        cpus = 8
+        cpus = { 10 * task.attempt }
+        memory = { 128.GB * task.attempt }
+        time = { 60.h * task.attempt }
     }
 
     withLabel: 'process_higher' {
-        cpus = 8
+        cpus = { 10 * task.attempt }
+        memory = { 256.GB * task.attempt }
+        time = { 60.h * task.attempt }
     }
 
     withLabel: 'process_gigantic' {
-        cpus = 8
+        cpus = { 10 * task.attempt }
+        memory = { 512.GB * task.attempt }
+        time = { 60.h * task.attempt }
     }
 }
 
--- a/cfsan_centriflaken.xml	Fri Jul 05 09:31:14 2024 -0400
+++ b/cfsan_centriflaken.xml	Mon Jul 08 09:46:28 2024 -0400
@@ -1,4 +1,4 @@
-<tool id="cfsan_centriflaken" name="Centriflaken" version="0.4.2+galaxy1">
+<tool id="cfsan_centriflaken" name="Centriflaken" profile="23.0" version="0.4.2+galaxy1">
     <description>An automated pipeline to generate a MAG of interest (E.coli or Salmonella) and perform serotyping.</description>
     <requirements>
         <container type="docker">quay.io/biocontainers/nextflow:24.04.2--hdfd78af_0</container>