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FROM ubuntu:xenial | |
ENV ANVIO_VERSION 2.3.0 | |
ENV DEBIAN_FRONTEND noninteractive | |
RUN locale-gen en_US.UTF-8 && echo "export LC_ALL=\"en_US.UTF-8\"" >> /root/.bashrc | |
RUN apt-get update \ | |
&& apt-get install -y --no-install-recommends \ | |
build-essential \ | |
gsl-bin \ | |
hmmer \ | |
libgsl-dbg \ | |
libgsl-dev \ | |
libgsl2 \ | |
python3 \ | |
python3-pip \ | |
python3-dev \ | |
python3-numpy \ | |
python3-scipy \ | |
sqlite3 \ | |
wget \ | |
bsdmainutils \ | |
libblas-dev \ | |
liblapack-dev \ | |
libatlas-base-dev \ | |
gfortran \ | |
zlib1g-dev \ | |
libhdf5-serial-dev \ | |
libhdf5-dev \ | |
mcl \ | |
ncbi-blast+ \ | |
muscle \ | |
&& mkdir -p /tmp/build \ | |
&& wget https://github.com/bbuchfink/diamond/releases/download/v0.8.38/diamond-linux64.tar.gz -O /tmp/build/diamond-linux64.tar.gz \ | |
&& tar -zxvf /tmp/build/diamond-linux64.tar.gz -C /tmp/build/ \ | |
&& cp /tmp/build/diamond /usr/bin/ \ | |
&& wget https://github.com/hyattpd/Prodigal/archive/v2.6.3.tar.gz -O /tmp/build/v2.6.3.tar.gz \ | |
&& tar -zxvf //tmp/build/v2.6.3.tar.gz -C /tmp/build/ \ | |
&& make -C /tmp/build/Prodigal-2.6.3/ \ | |
&& cp /tmp/build/Prodigal-2.6.3/prodigal /usr/bin/ \ | |
&& pip3 install --upgrade pip \ | |
&& pip3 install setuptools==35.0.1 \ | |
&& pip3 install \ | |
cython==0.25.2 \ | |
bottle==0.12.9 \ | |
pysam==0.9.1.4 \ | |
ete3==3.0.0b35 \ | |
scikit-learn==0.17.1 \ | |
django==1.9.7 \ | |
h5py==2.6.0 \ | |
cherrypy==8.9.1 \ | |
requests==2.10.0 \ | |
psutil==5.0.1 \ | |
mistune==0.7.4 \ | |
&& pip3 install --no-deps anvio==$ANVIO_VERSION \ | |
&& apt-get remove -y \ | |
binutils \ | |
build-essential \ | |
g++ \ | |
g++-4.8 \ | |
gcc \ | |
gcc-4.8 \ | |
make \ | |
patch \ | |
&& apt-get -y autoremove \ | |
&& apt-get -y autoclean \ | |
&& rm -rf /var/lib/apt/lists/* /tmp/* /var/tmp/* /root/.cache/* | |
RUN echo "export PS1=\"\[\e[0m\e[47m\e[1;30m\] :: anvi'o :: \[\e[0m\e[0m \[\e[1;34m\]\]\w\[\e[m\] \[\e[1;32m\]>>>\[\e[m\] \[\e[0m\]\"" >> /root/.bashrc | |
CMD /bin/bash -l |
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