From 10840a0562a5c12bf838ff873670cf4a4a496983 Mon Sep 17 00:00:00 2001 From: Rike Date: Wed, 18 May 2022 14:26:21 +0200 Subject: [PATCH] Conda not suported --- modules/gatk4/cnnscorevariants/main.nf | 5 ++++- 1 file changed, 4 insertions(+), 1 deletion(-) diff --git a/modules/gatk4/cnnscorevariants/main.nf b/modules/gatk4/cnnscorevariants/main.nf index 74039a06..c02c6035 100644 --- a/modules/gatk4/cnnscorevariants/main.nf +++ b/modules/gatk4/cnnscorevariants/main.nf @@ -2,7 +2,10 @@ process GATK4_CNNSCOREVARIANTS { tag "$meta.id" label 'process_low' - conda (params.enable_conda ? "bioconda::gatk4=4.2.6.1" : null) + //Conda is not supported at the moment: https://github.com/broadinstitute/gatk/issues/7811 + if (params.enable_conda) { + exit 1, "Conda environments cannot be used for GATK4/CNNScoreVariants at the moment. Please use docker or singularity containers." + } container 'broadinstitute/gatk:4.2.6.1' //Biocontainers is missing a package input: