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add EH-expansion-evaluator tool as a docker image #96

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Merge branch 'main' of github.com:populationgenomics/images into eh-e…
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1 change: 1 addition & 0 deletions images.toml
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Expand Up @@ -4,6 +4,7 @@ bedtools = '2.30.0'
bwa = '0.7.17'
cellregmap = '0.0.3'
dragmap = '1.3.0-tokenizer-next-fix'
eh-expansion-evaluator = 'eb982ae41f83aaf44d4a8142980f7a41ac33e979'
ensembl-vep = 'release_110.1'
expansionhunter = '5.0.0'
expansionhunter_bw2 = 'b85cba004fba4e0223e632fae576bc7fad0da804'
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22 changes: 22 additions & 0 deletions images/eh-expansion-evaluator/Dockerfile
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@@ -0,0 +1,22 @@
FROM ubuntu:20.04

@jmarshall jmarshall Sep 10, 2023

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This is pretty old by now.

Suggested change
FROM ubuntu:20.04
FROM ubuntu:22.04

ARG DEBIAN_FRONTEND=noninteractive
ARG VERSION=${VERSION:-eb982ae41f83aaf44d4a8142980f7a41ac33e979}

# Install Git to clone the repository
RUN apt-get update && apt-get install --no-install-recommends -qqy \
python3-dev=3.8.2-0ubuntu2 \
python3-pip=20.0.2-5ubuntu1.9 \
python3.6\
git \
&& \
apt-get clean -y \
&& rm -rf /var/lib/apt/lists/*

# Install Python packages
RUN pip3 install --no-cache-dir numpy==1.24.4 pandas==2.0.3 scikit-learn==1.3.0

# Clone the repository
RUN git clone https://github.com/oscarlr/EH-expansion-evaluator && cd EH-expansion-evaluator && git checkout $VERSION

# Container should start in git repository
WORKDIR /EH-expansion-evaluator