From 155268f9ce3c979e2c6ac8ae9303fff5b3d00238 Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Tue, 11 Jun 2019 15:18:32 +0200
Subject: [PATCH] fastp singularity: fix sps and pbs path

---
 src/singularity_modules/fastp/0.19.7/build.sh  |  2 +-
 src/singularity_modules/fastp/0.19.7/fastp.def | 15 +++++++++++++++
 2 files changed, 16 insertions(+), 1 deletion(-)
 create mode 100644 src/singularity_modules/fastp/0.19.7/fastp.def

diff --git a/src/singularity_modules/fastp/0.19.7/build.sh b/src/singularity_modules/fastp/0.19.7/build.sh
index 58127ff0..be161e19 100755
--- a/src/singularity_modules/fastp/0.19.7/build.sh
+++ b/src/singularity_modules/fastp/0.19.7/build.sh
@@ -1,3 +1,3 @@
 #/bin/sh
-sudo singularity build --force bin/fastp:0.19.7.img docker://quay.io/biocontainers/fastp:0.19.7--hdbcaa40_0 && \
+sudo singularity build --force bin/fastp:0.19.7.img src/singularity_modules/fastp/0.19.7/fastp.def && \
 singularity sign bin/fastp:0.19.7.img
diff --git a/src/singularity_modules/fastp/0.19.7/fastp.def b/src/singularity_modules/fastp/0.19.7/fastp.def
new file mode 100644
index 00000000..eca9d45f
--- /dev/null
+++ b/src/singularity_modules/fastp/0.19.7/fastp.def
@@ -0,0 +1,15 @@
+Bootstrap: docker
+From: docker://quay.io/biocontainers/fastp:0.19.7--hdbcaa40_0
+
+%labels
+MAINTAINER Laurent Modolo
+
+%post
+mkdir -p /sps /pbs /scratch
+FASTP_VERSION=0.19.7
+
+%environment
+export FASTP_VERSION=0.19.7
+
+%runscript
+exec /bin/bash "$@"
-- 
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