From a56d377107a470e4e1386407ef70b3bd83a597e6 Mon Sep 17 00:00:00 2001
From: Vanni Benvenga <vanni.benvenga@gmail.com>
Date: Fri, 24 Mar 2023 09:53:23 +0100
Subject: [PATCH] Update file panaroo.sh
---
exercises/Pangenome_analysis/panaroo.sh | 5 ++---
1 file changed, 2 insertions(+), 3 deletions(-)
diff --git a/exercises/Pangenome_analysis/panaroo.sh b/exercises/Pangenome_analysis/panaroo.sh
index 0741f8d..b7a710b 100644
--- a/exercises/Pangenome_analysis/panaroo.sh
+++ b/exercises/Pangenome_analysis/panaroo.sh
@@ -12,9 +12,9 @@
module load singularityce
# Declare variables
-# input data folder
+# input data folder (01_data_upec)
datadir=
-# results folder (03_output_mrsa)
+# results folder (03_output_upec)
wd=
# Path to singularity images folder
singpath=/shares/amr.imm.uzh/bioinfo/singularity/
@@ -27,7 +27,6 @@ cd $wd
mkdir -p panaroo/annotation_files
mkdir -p panaroo/panaroo_output
-
# generate soft links to the .gff files while looping through the sample names
for sample_id in "${array[@]}"
do
--
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