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Fix docker build
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haessar committed Oct 2, 2024
1 parent 6dda4b5 commit 008d7f6
Showing 1 changed file with 2 additions and 8 deletions.
10 changes: 2 additions & 8 deletions Dockerfile
Original file line number Diff line number Diff line change
Expand Up @@ -93,7 +93,7 @@ RUN apt-get install tabix --yes
#
RUN apt-get install software-properties-common --yes
RUN add-apt-repository ppa:deadsnakes/ppa --yes
RUN apt-get install python3.9 python3-setuptools libpython3.9-dev libz-dev libbz2-dev \
RUN apt-get install python3.10 python3-setuptools python3.10-distutils libpython3.10-dev libz-dev libbz2-dev \
liblzma-dev libcurl4-openssl-dev pkg-config \
--yes

Expand All @@ -107,13 +107,7 @@ RUN cd /opt && \
cp minimap2-2.17_x64-linux/minimap2 /usr/local/bin/minimap2 && \
chmod 755 /usr/local/bin/minimap2
RUN apt-get -y install python3-pip
RUN cd /opt && \
git clone https://github.com/agshumate/Liftoff liftoff && \
cd liftoff && \
python3.9 setup.py install
# Numpy 1.24 currently breaks Liftoff
RUN python3.9 -m pip install "numpy<1.24"

RUN pip3 install Liftoff

#
# install ABACAS (keep up to date from build directory)
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