Allow annotation jobs to fail (#38)

BCCDC-PHL · Aug 30, 2023 · a646dc6 · a646dc6
1 parent ac29bdc
commit a646dc6
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Showing 3 changed files with 5 additions and 1 deletion.
diff --git a/modules/bakta.nf b/modules/bakta.nf
@@ -2,6 +2,8 @@ process bakta {
 
     tag { sample_id + ' / ' + assembly_mode }
 
+    errorStrategy 'ignore'
+
     publishDir params.versioned_outdir ? "${params.outdir}/${sample_id}/${params.pipeline_short_name}-v${params.pipeline_minor_version}-output" : "${params.outdir}/${sample_id}", pattern: "${sample_id}*.{gbk,gff,json,log}", mode: 'copy'
 
     input:

diff --git a/modules/prokka.nf b/modules/prokka.nf
@@ -2,6 +2,8 @@ process prokka {
 
     tag { sample_id + ' / ' + assembly_mode}
 
+    errorStrategy 'ignore'
+
     publishDir params.versioned_outdir ? "${params.outdir}/${sample_id}/${params.pipeline_short_name}-v${params.pipeline_minor_version}-output" : "${params.outdir}/${sample_id}", pattern: "${sample_id}_${assembler}_prokka.{gbk,gff}", mode: 'copy'
 
     input:

diff --git a/nextflow.config b/nextflow.config
@@ -1,7 +1,7 @@
 manifest {
   author = 'Dan Fornika'
   name = 'BCCDC-PHL/routine-assembly'
-  version = '0.4.3'
+  version = '0.4.4'
   description = 'BCCDC-PHL Routine Assembly'
   mainScript = 'main.nf'
   nextflowVersion = '>=20.01.0'