From 9fb4e109b398ec01988f5aaebde8d149849e0a6d Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Fri, 12 Apr 2019 14:39:34 +0200
Subject: [PATCH] rm umitools modules to only keep umi_tools
---
src/docker_modules/umitools/0.3.4/Dockerfile | 2 --
.../umitools/0.3.4/docker_init.sh | 2 --
src/psmn_modules | 2 +-
.../umitools/0.3.4/build.sh | 3 --
.../umitools/0.3.4/umitools.def | 28 -------------------
5 files changed, 1 insertion(+), 36 deletions(-)
delete mode 100644 src/docker_modules/umitools/0.3.4/Dockerfile
delete mode 100755 src/docker_modules/umitools/0.3.4/docker_init.sh
delete mode 100755 src/singularity_modules/umitools/0.3.4/build.sh
delete mode 100644 src/singularity_modules/umitools/0.3.4/umitools.def
diff --git a/src/docker_modules/umitools/0.3.4/Dockerfile b/src/docker_modules/umitools/0.3.4/Dockerfile
deleted file mode 100644
index c5e417b2..00000000
--- a/src/docker_modules/umitools/0.3.4/Dockerfile
+++ /dev/null
@@ -1,2 +0,0 @@
-FROM quay.io/biocontainers/umitools:0.3.4--py37_1
-MAINTAINER Laurent Modolo
diff --git a/src/docker_modules/umitools/0.3.4/docker_init.sh b/src/docker_modules/umitools/0.3.4/docker_init.sh
deleted file mode 100755
index 4a5b59ae..00000000
--- a/src/docker_modules/umitools/0.3.4/docker_init.sh
+++ /dev/null
@@ -1,2 +0,0 @@
-#!/bin/sh
-docker build src/docker_modules/umitools/0.3.4 -t 'umitools:0.3.4'
diff --git a/src/psmn_modules b/src/psmn_modules
index 0c034f5b..7941cf21 160000
--- a/src/psmn_modules
+++ b/src/psmn_modules
@@ -1 +1 @@
-Subproject commit 0c034f5bbeb8e91cecc04466b74654503a94ac7c
+Subproject commit 7941cf21b2ec744bb8d2eae0a623305c4ee23ced
diff --git a/src/singularity_modules/umitools/0.3.4/build.sh b/src/singularity_modules/umitools/0.3.4/build.sh
deleted file mode 100755
index 8ccd233e..00000000
--- a/src/singularity_modules/umitools/0.3.4/build.sh
+++ /dev/null
@@ -1,3 +0,0 @@
-#/bin/sh
-sudo singularity build --force bin/umitools:0.3.4.sif docker://quay.io/biocontainers/umitools:0.3.4--py37_1 && \
-singularity sign bin/umitools:0.3.4.sif
diff --git a/src/singularity_modules/umitools/0.3.4/umitools.def b/src/singularity_modules/umitools/0.3.4/umitools.def
deleted file mode 100644
index 4d1dd2af..00000000
--- a/src/singularity_modules/umitools/0.3.4/umitools.def
+++ /dev/null
@@ -1,28 +0,0 @@
-Bootstrap: docker
-From: ubuntu:18.04
-%labels
-MAINTAINER Laurent Modolo
-%post
-
-UMITOOLS_VERSION=0.3.4
-PACKAGES="git \
-build-essential \
-python-pip \
-ca-certificates \
-python-setuptools \
-python-dev \
-python-numpy \
-python-wheel \
-zlib1g-dev"
-
-apt-get update && \
-apt-get install -y --no-install-recommends ${PACKAGES} && \
-apt-get clean
-
-pip install umitools==${UMITOOLS_VERSION}
-
-%environment
-export UMITOOLS_VERSION=0.3.4
-
-%runscript
-exec /bin/bash "$@"
--
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