From a82bedab08e46b5c17a668a0ffeee231a2c35887 Mon Sep 17 00:00:00 2001 From: Young Date: Tue, 24 Oct 2023 11:31:58 -0600 Subject: [PATCH 1/2] Update amrfinder to 3.11.20-2023-09-26.1 --- modules/amrfinderplus.nf | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/modules/amrfinderplus.nf b/modules/amrfinderplus.nf index 1e2a888..1c93f2e 100644 --- a/modules/amrfinderplus.nf +++ b/modules/amrfinderplus.nf @@ -2,7 +2,7 @@ process amrfinderplus { tag "${sample}" label "medcpus" publishDir params.outdir, mode: 'copy' - container 'staphb/ncbi-amrfinderplus:3.11.18-2023-08-08.2' + container 'staphb/ncbi-amrfinderplus:3.11.20-2023-09-26.1' maxForks 10 //#UPHLICA errorStrategy { task.attempt < 2 ? 'retry' : 'ignore'} //#UPHLICA cpus 7 From 98c93b1fa1565e9028cb2deaf656b3d613fd4c0a Mon Sep 17 00:00:00 2001 From: Young Date: Tue, 24 Oct 2023 11:33:00 -0600 Subject: [PATCH 2/2] Update to version 3.5.20231024 --- nextflow.config | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/nextflow.config b/nextflow.config index 11f8b31..bf22bcc 100644 --- a/nextflow.config +++ b/nextflow.config @@ -3,7 +3,7 @@ manifest { author = 'Erin Young' homePage = 'https://github.com/UPHL-BioNGS/Grandeur' mainScript = 'grandeur.nf' - version = '3.5.20231017' + version = '3.5.20231024' defaultBranch = 'main' description = 'Grandeur is short-read de novo assembly pipeline with serotyping.' }