From 086ccdb83752a1d8b2ddc31e755a9fd0286e6254 Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Mon, 4 Mar 2019 17:29:35 +0100
Subject: [PATCH] salmon: add singularity files

---
 src/singularity_modules/salmon/0.8.2/build.sh |  3 +++
 .../salmon/0.8.2/salmon.def                   | 25 +++++++++++++++++++
 2 files changed, 28 insertions(+)
 create mode 100755 src/singularity_modules/salmon/0.8.2/build.sh
 create mode 100644 src/singularity_modules/salmon/0.8.2/salmon.def

diff --git a/src/singularity_modules/salmon/0.8.2/build.sh b/src/singularity_modules/salmon/0.8.2/build.sh
new file mode 100755
index 00000000..e9496bb6
--- /dev/null
+++ b/src/singularity_modules/salmon/0.8.2/build.sh
@@ -0,0 +1,3 @@
+#/bin/sh
+sudo singularity build --force bin/salmon:0.8.2.sif src/singularity_modules/salmon/0.8.2/salmon.def
+singularity sign bin/salmon:0.8.2.sif
diff --git a/src/singularity_modules/salmon/0.8.2/salmon.def b/src/singularity_modules/salmon/0.8.2/salmon.def
new file mode 100644
index 00000000..d23673a4
--- /dev/null
+++ b/src/singularity_modules/salmon/0.8.2/salmon.def
@@ -0,0 +1,25 @@
+Bootstrap: docker
+From: ubuntu:18.04
+
+%labels
+MAINTAINER Laurent Modolo
+
+%post
+SALMON_VERSION=0.8.2
+PACKAGES="curl \
+ca-certificates"
+
+apt-get update && \
+apt-get install -y --no-install-recommends ${PACKAGES} && \
+apt-get clean
+
+curl -k -L  https://github.com/COMBINE-lab/salmon/releases/download/v${SALMON_VERSION}/Salmon-${SALMON_VERSION}_linux_x86_64.tar.gz -o Salmon-${SALMON_VERSION}_linux_x86_64.tar.gz && \
+tar xzf Salmon-${SALMON_VERSION}_linux_x86_64.tar.gz && \
+mv Salmon-${SALMON_VERSION}_linux_x86_64/bin/* /usr/bin/ && \
+rm -Rf Salmon-${SALMON_VERSION}*
+
+%environment
+export SALMON_VERSION=0.8.2
+
+%runscript
+exec /bin/bash "$@"
-- 
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