From a219f18adaae3a8590309ca6f8e9587fa1bd6670 Mon Sep 17 00:00:00 2001 From: Laura Blum Date: Mon, 20 Apr 2026 09:36:50 -0400 Subject: [PATCH] add arabidopsis and t2t_chm13_v2+meth_controls+m13+phix --- conf/references.config | 10 ++++++++++ 1 file changed, 10 insertions(+) diff --git a/conf/references.config b/conf/references.config index 28b4f1e..7e56eee 100644 --- a/conf/references.config +++ b/conf/references.config @@ -16,6 +16,16 @@ params { genome_fa: "/mnt/galaxy/galaxyworks/tool-data/t2t_2.0_eschColi_K12_bs_controls/bwameth_index/t2t_2.0_eschColi_K12_bs_controls/t2t_2.0_eschColi_K12_bs_controls.fa", genome_fai: "/mnt/galaxy/galaxyworks/tool-data/t2t_2.0_eschColi_K12_bs_controls/bwameth_index/t2t_2.0_eschColi_K12_bs_controls/t2t_2.0_eschColi_K12_bs_controls.fa.fai", ], + 'arabidopsis_thaliana_TAIR12_bs_controls': [ + bwa_index: "/bioinfo/ref/arabidopsis_thaliana_TAIR12_bs_controls/bwameth/arabidopsis_thaliana_TAIR12_bs_controls.fa", + genome_fa: "/bioinfo/ref/arabidopsis_thaliana_TAIR12_bs_controls/bwameth/arabidopsis_thaliana_TAIR12_bs_controls.fa", + genome_fai: "/bioinfo/ref/arabidopsis_thaliana_TAIR12_bs_controls/bwameth/arabidopsis_thaliana_TAIR12_bs_controls.fa.fai", + ], + 't2t_chm13_v2+meth_controls+m13+phix': [ + bwa_index: "/bioinfo/ref/t2t_chm13_v2+meth_controls+m13+phix/bwameth/t2t_chm13_v2+meth_controls+m13+phix.fa", + genome_fa: "/bioinfo/ref/t2t_chm13_v2+meth_controls+m13+phix/bwameth/t2t_chm13_v2+meth_controls+m13+phix.fa", + genome_fai: "/bioinfo/ref/t2t_chm13_v2+meth_controls+m13+phix/bwameth/t2t_chm13_v2+meth_controls+m13+phix.fa.fai", + ], 'test': [ bwa_index: "${projectDir}/tests/fixtures/reference_files/reference.fa", genome_fa: "${projectDir}/tests/fixtures/reference_files/reference.fa",