9
|
1 # Galaxy - SMALT
|
|
2 # From https://toolshed.g2.bx.psu.edu/repository/view_repository?sort=Repository.name&operation=view_or_manage_repository&changeset_revision=54855bd8d107&id=ec70d959cc6d865d
|
|
3
|
|
4 FROM debian:wheezy
|
|
5
|
|
6 MAINTAINER Aaron Petkau, aaron.petkau@gmail.com
|
|
7
|
|
8 # make sure the package repository is up to date
|
|
9 RUN DEBIAN_FRONTEND=noninteractive apt-get -qq update
|
|
10
|
|
11 RUN DEBIAN_FRONTEND=noninteractive apt-get install -y python
|
|
12 RUN DEBIAN_FRONTEND=noninteractive apt-get install -y wget
|
|
13 RUN DEBIAN_FRONTEND=noninteractive apt-get install -y mercurial
|
|
14
|
|
15 RUN mkdir /tmp/smalt
|
|
16 WORKDIR /tmp/smalt
|
|
17
|
|
18 RUN wget ftp://ftp.sanger.ac.uk/pub4/resources/software/smalt/smalt-0.7.3.tgz
|
|
19 RUN tar -xvvzf smalt-0.7.3.tgz
|
|
20 RUN cp smalt-0.7.3/smalt_x86_64 /usr/bin/smalt_unknown
|
|
21
|
|
22 RUN hg clone https://toolshed.g2.bx.psu.edu/repos/cjav/smalt smalt_deps
|
|
23 RUN cp smalt_deps/smalt_wrapper.py /usr/bin/smalt_wrapper.py
|
|
24 RUN chmod a+x /usr/bin/smalt_wrapper.py
|
|
25
|
|
26 RUN apt-get clean && rm -rf /tmp/smalt && rm -rf /var/lib/apt/lists/* /tmp/* /var/tmp/*
|