From ceabe4271ca1b6bcc760f1948a277642764ef85b Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Mon, 4 Mar 2019 15:45:24 +0100
Subject: [PATCH] htseq: add singularity files
---
src/singularity_modules/htseq/0.8.0/build.sh | 3 +++
src/singularity_modules/htseq/0.8.0/htseq.def | 27 +++++++++++++++++++
2 files changed, 30 insertions(+)
create mode 100755 src/singularity_modules/htseq/0.8.0/build.sh
create mode 100644 src/singularity_modules/htseq/0.8.0/htseq.def
diff --git a/src/singularity_modules/htseq/0.8.0/build.sh b/src/singularity_modules/htseq/0.8.0/build.sh
new file mode 100755
index 00000000..f5fe19ae
--- /dev/null
+++ b/src/singularity_modules/htseq/0.8.0/build.sh
@@ -0,0 +1,3 @@
+#/bin/sh
+sudo singularity build --force bin/htseq:0.8.0.sif src/singularity_modules/htseq/0.8.0/htseq.def
+singularity sign bin/htseq:0.8.0.sif
diff --git a/src/singularity_modules/htseq/0.8.0/htseq.def b/src/singularity_modules/htseq/0.8.0/htseq.def
new file mode 100644
index 00000000..d315b301
--- /dev/null
+++ b/src/singularity_modules/htseq/0.8.0/htseq.def
@@ -0,0 +1,27 @@
+Bootstrap: docker
+From: ubuntu:18.04
+
+%labels
+MAINTAINER Laurent Modolo
+
+%post
+HTSEQ_VERSION=0.8.0
+PACKAGES="build-essential \
+python3-pip \
+python3-setuptools \
+python3-dev \
+python3-wheel"
+
+apt-get update && \
+apt-get install -y --no-install-recommends ${PACKAGES} && \
+apt-get clean
+
+pip3 install numpy==1.14.3
+pip3 install pysam==0.15.0
+pip3 install HTSeq==${HTSEQ_VERSION}
+
+%environment
+export HTSEQ_VERSION=0.8.0
+
+%runscript
+exec /bin/bash "$@"
--
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