From fa61a528ae15cbcce6497f110806e8c1c609aba0 Mon Sep 17 00:00:00 2001
From: Vanni Benvenga <vanni.benvenga@gmail.com>
Date: Thu, 23 Mar 2023 17:17:05 +0100
Subject: [PATCH] Update file panaroo.sh

---
 exercises/Pangenome_analysis/panaroo.sh | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/exercises/Pangenome_analysis/panaroo.sh b/exercises/Pangenome_analysis/panaroo.sh
index ae6f9ef..0741f8d 100644
--- a/exercises/Pangenome_analysis/panaroo.sh
+++ b/exercises/Pangenome_analysis/panaroo.sh
@@ -39,5 +39,5 @@ echo Starting panaroo $(date +"%T")
 cd $wd/panaroo
 $singpath/panaroo_1.3.0--pyhdfd78af_0.sif \
 panaroo -i ./annotation_files/*.gff -o ./panaroo_output/ \
---clean-mode strict --remove-invalid-genes --core_threshold 0.95 -t $SLURM_CPUS_PER_TASK
+--clean-mode strict --remove-invalid-genes -a 'core' -t $SLURM_CPUS_PER_TASK
 echo Done $(date +"%T")
\ No newline at end of file
-- 
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