From 2c69d031fbfbf2edcf47f296ec70ab6d6c1c4bc3 Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Mon, 4 Mar 2019 15:50:01 +0100
Subject: [PATCH] kallisto: add singularity files
---
.../kallisto/0.43.1/build.sh | 3 +++
.../kallisto/0.43.1/kallisto.def | 25 +++++++++++++++++++
.../kallisto/0.44.0/build.sh | 3 +++
.../kallisto/0.44.0/kallisto.def | 25 +++++++++++++++++++
4 files changed, 56 insertions(+)
create mode 100755 src/singularity_modules/kallisto/0.43.1/build.sh
create mode 100644 src/singularity_modules/kallisto/0.43.1/kallisto.def
create mode 100755 src/singularity_modules/kallisto/0.44.0/build.sh
create mode 100644 src/singularity_modules/kallisto/0.44.0/kallisto.def
diff --git a/src/singularity_modules/kallisto/0.43.1/build.sh b/src/singularity_modules/kallisto/0.43.1/build.sh
new file mode 100755
index 0000000..7618631
--- /dev/null
+++ b/src/singularity_modules/kallisto/0.43.1/build.sh
@@ -0,0 +1,3 @@
+#/bin/sh
+sudo singularity build --force bin/kallisto:0.43.1.sif src/singularity_modules/kallisto/0.43.1/kallisto.def
+singularity sign bin/kallisto:0.43.1.sif
diff --git a/src/singularity_modules/kallisto/0.43.1/kallisto.def b/src/singularity_modules/kallisto/0.43.1/kallisto.def
new file mode 100644
index 0000000..3b9899a
--- /dev/null
+++ b/src/singularity_modules/kallisto/0.43.1/kallisto.def
@@ -0,0 +1,25 @@
+Bootstrap: docker
+From: ubuntu:18.04
+
+%labels
+MAINTAINER Laurent Modolo
+
+%post
+KALLISTO_VERSION=0.43.1
+PACKAGES="curl \
+ca-certificates"
+
+apt-get update && \
+apt-get install -y --no-install-recommends ${PACKAGES} && \
+apt-get clean
+
+curl -k -L https://github.com/pachterlab/kallisto/releases/download/v${KALLISTO_VERSION}/kallisto_linux-v${KALLISTO_VERSION}.tar.gz -o kallisto_linux-v${KALLISTO_VERSION}.tar.gz && \
+tar xzf kallisto_linux-v${KALLISTO_VERSION}.tar.gz && \
+cp kallisto_linux-v${KALLISTO_VERSION}/kallisto /usr/bin && \
+rm -Rf kallisto_linux-v${KALLISTO_VERSION}*
+
+%environment
+export KALLISTO_VERSION=0.44.0
+
+%runscript
+exec /bin/bash "$@"
diff --git a/src/singularity_modules/kallisto/0.44.0/build.sh b/src/singularity_modules/kallisto/0.44.0/build.sh
new file mode 100755
index 0000000..537303d
--- /dev/null
+++ b/src/singularity_modules/kallisto/0.44.0/build.sh
@@ -0,0 +1,3 @@
+#/bin/sh
+sudo singularity build --force bin/kallisto:0.44.0.sif src/singularity_modules/kallisto/0.44.0/kallisto.def
+singularity sign bin/kallisto:0.44.0.sif
diff --git a/src/singularity_modules/kallisto/0.44.0/kallisto.def b/src/singularity_modules/kallisto/0.44.0/kallisto.def
new file mode 100644
index 0000000..613218a
--- /dev/null
+++ b/src/singularity_modules/kallisto/0.44.0/kallisto.def
@@ -0,0 +1,25 @@
+Bootstrap: docker
+From: ubuntu:18.04
+
+%labels
+MAINTAINER Laurent Modolo
+
+%post
+KALLISTO_VERSION=0.44.0
+PACKAGES="curl \
+ca-certificates"
+
+apt-get update && \
+apt-get install -y --no-install-recommends ${PACKAGES} && \
+apt-get clean
+
+curl -k -L https://github.com/pachterlab/kallisto/releases/download/v${KALLISTO_VERSION}/kallisto_linux-v${KALLISTO_VERSION}.tar.gz -o kallisto_linux-v${KALLISTO_VERSION}.tar.gz && \
+tar xzf kallisto_linux-v${KALLISTO_VERSION}.tar.gz && \
+cp kallisto_linux-v${KALLISTO_VERSION}/kallisto /usr/bin && \
+rm -Rf kallisto_linux-v${KALLISTO_VERSION}*
+
+%environment
+export KALLISTO_VERSION=0.44.0
+
+%runscript
+exec /bin/bash "$@"
--
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