From 57084d59d2ecc95af6b927a610275df8b5ca495a Mon Sep 17 00:00:00 2001
From: dchalopi <domitille.chalopin@ens-lyon.fr>
Date: Wed, 20 Jun 2018 13:12:35 +0000
Subject: [PATCH] Dockerfile trinity
---
src/docker_modules/Trinity/2.6.6/Dockerfile | 36 +++++++++++++++++++++
1 file changed, 36 insertions(+)
create mode 100644 src/docker_modules/Trinity/2.6.6/Dockerfile
diff --git a/src/docker_modules/Trinity/2.6.6/Dockerfile b/src/docker_modules/Trinity/2.6.6/Dockerfile
new file mode 100644
index 0000000..8a559dd
--- /dev/null
+++ b/src/docker_modules/Trinity/2.6.6/Dockerfile
@@ -0,0 +1,36 @@
+FROM ubuntu:18.04
+MAINTAINER Laurent Modolo
+
+ENV TRINITY_VERSION=2.6.6
+ENV TRINITY_CO="06f284a"
+ENV BOWTIE2_VERSION=2.3.4.1
+ENV PACKAGES bowtie2=${BOWTIE2_VERSION}* \
+ENV SALMON_VERSION=0.7.2
+ENV PACKAGES curl=7.58.0* \
+ ca-certificates=20180409
+
+
+RUN apt-get update && \
+ apt-get install -y --no-install-recommends ${PACKAGES} && \
+ apt-get clean
+
+RUN curl -k -L https://github.com/COMBINE-lab/salmon/releases/download/v${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}*
+
+RUN wget https://github.com/gmarcais/Jellyfish/releases/download/v2.2.7/jellyfish-2.2.7.tar.gz && \
+tar xvf jellyfish-2.2.7.tar.gz && \
+cd jellyfish-2.2.7/ && \
+./configure && make && make install
+
+RUN git clone https://github.com/trinityrnaseq/trinityrnaseq.git && \
+ cd trinityrnaseq && \
+ git checkout $TRINITY_CO && \
+ make && make plugins && \
+ make install && \
+cd ../ && rm -r trinityrnaseq
+
+
+
+
--
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