From 71f96b7c8ae0a2bfbd791ec8bf5003eef5cf6acf Mon Sep 17 00:00:00 2001
From: peguerin <pierre-edouard.guerin@cefe.cnrs.fr>
Date: Mon, 2 Dec 2019 16:52:06 +0100
Subject: [PATCH] test folder flexbar

---
 02_demultiplex/test/02_flexbar/.gitkeep         |  0
 02_demultiplex/test/test_demultiplex_flexbar.sh | 13 +++++++++++++
 2 files changed, 13 insertions(+)
 create mode 100644 02_demultiplex/test/02_flexbar/.gitkeep
 create mode 100644 02_demultiplex/test/test_demultiplex_flexbar.sh

diff --git a/02_demultiplex/test/02_flexbar/.gitkeep b/02_demultiplex/test/02_flexbar/.gitkeep
new file mode 100644
index 0000000..e69de29
diff --git a/02_demultiplex/test/test_demultiplex_flexbar.sh b/02_demultiplex/test/test_demultiplex_flexbar.sh
new file mode 100644
index 0000000..76e9c44
--- /dev/null
+++ b/02_demultiplex/test/test_demultiplex_flexbar.sh
@@ -0,0 +1,13 @@
+source 98_infos/config.sh
+flexbar=${SINGULARITY_EXEC_CMD}" "${EDNATOOLS_SIMG}" flexbar"
+
+## Prefix for all generated files
+
+pref="grinder_teleo1"
+## Path to the directory containing forward and reverse reads
+R1_fastq="${DATA_PATH}"/"$pref"/"$pref"_R1.fastq
+R2_fastq="${DATA_PATH}"/"$pref"/"$pref"_R2.fastq
+## path to 'tags.fasta'
+Tags=`pwd`"/02_demultiplex/Tags.fasta"
+
+$flexbar -r $R1_fastq -p $R2_fastq --barcodes $Tags --barcodes2 $Tags -bt 0 -t 02_demultiplex/test/02_flexbar/flex
-- 
GitLab