From 236f735f610e229f6766dfc4efcfb324f5918b3c Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent@modolo.fr>
Date: Mon, 7 Sep 2020 09:44:19 +0200
Subject: [PATCH] add container helper scripts

---
 docker_analysis.sh      | 5 +++++
 singularity_analysis.sh | 3 +++
 2 files changed, 8 insertions(+)
 create mode 100755 docker_analysis.sh
 create mode 100755 singularity_analysis.sh

diff --git a/docker_analysis.sh b/docker_analysis.sh
new file mode 100755
index 0000000..d701a02
--- /dev/null
+++ b/docker_analysis.sh
@@ -0,0 +1,5 @@
+#!/bin/bash
+R_CMD="-e criblejurkat::analysis(\"/root/\")"
+docker run -it --volume $(pwd):/root/ lbmc/criblejurkat:1.0.0 R $R_CMD
+BASH_CMD="-e system(\"chown -R $(id -u ${USER}) /root/\")"
+docker run -it --volume $(pwd):/root/ lbmc/criblejurkat:1.0.0 R $BASH_CMD
diff --git a/singularity_analysis.sh b/singularity_analysis.sh
new file mode 100755
index 0000000..997b560
--- /dev/null
+++ b/singularity_analysis.sh
@@ -0,0 +1,3 @@
+#!/bin/bash
+R_CMD="-e criblejurkat::analysis(\"$(pwd)\")"
+singularity exec docker://lbmc/criblejurkat:1.0.0 R $R_CMD
-- 
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