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Create Dockerfile #1343

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sbassi Jul 24, 2024
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FROM python:3.10.14-slim-bullseye

LABEL software="spades" \
author="Sebastian Bassi <sebastian@toyoko.io>" \
base_image="python:3.10.14-slim-bullseye" \
container="spades" \
about.summary="genome assembler for single-cell and isolates data sets" \
about.home="https://ablab.github.io/spades/" \
software.version="4.0.0" \
extra.identifiers.biotools="spades" \
about.paper="Prjibelski A, Antipov D, Meleshko D, Lapidus A, Korobeynikov A (2020) Using SPAdes de novo assembler. Current Protocols in Bioinformatics 70(1): e102. https://doi.org/10.1002/cpbi.102" \
about.license="GPL-2+" \
about.tags="biology::nucleic-acids, field::biology, field::biology:bioinformatics,:c++,:python, interface::commandline,:program, scope::utility, works-with::biological-sequence,:file"

USER root

RUN apt-get update && apt-get install -y build-essential cmake wget libbz2-dev git

RUN wget https://github.com/ablab/spades/releases/download/v4.0.0/SPAdes-4.0.0.tar.gz

RUN tar xfz SPAdes-4.0.0.tar.gz && rm SPAdes-4.0.0.tar.gz && cd SPAdes-4.0.0/ && \
cmake -B build/ -S src/ -DSPADES_USE_NCBISDK=ON -DSPADES_ENABLE_PROJECTS=all && \
cmake --build build/ && cmake --install build/ && cd .. && rm -rf SPAdes-4.0.0/

CMD ["/bin/bash"]

# spades.py --test