build: add dockerfile

.dockerignore

@@ -0,0 +1,12 @@
+.git*
+target/
+tmp*/
+benchmark
+ci
+clippy.toml
+codecov.yml
+data
+img
+scripts
+.ide*
+cog.toml

Dockerfile

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+FROM rust:1.74 AS builder
+
+COPY . /nohuman
+
+WORKDIR /nohuman
+
+RUN apt update \
+    && apt install -y musl-tools libssl-dev pkg-config \
+    && cargo build --release \
+    && strip target/release/nohuman
+
+FROM ubuntu:jammy as kraken
+
+# for easy upgrade later. ARG variables only persist during build time.
+ARG K2VER="2.1.3"
+
+LABEL base.image="ubuntu:jammy"
+LABEL dockerfile.version="2"
+LABEL software="Kraken2"
+LABEL software.version="${K2VER}"
+LABEL description="Taxonomic sequence classifier"
+LABEL website="https://github.com/DerrickWood/kraken2"
+LABEL license="https://github.com/DerrickWood/kraken2/blob/master/LICENSE"
+LABEL maintainer="Curtis Kapsak"
+LABEL maintainer.email="[email protected]"
+LABEL maintainer2="Erin Young"
+LABEL maintainer2.email="[email protected]"
+
+# install dependencies and cleanup apt garbage
+RUN apt-get update && apt-get -y --no-install-recommends install \
+    wget \
+    ca-certificates \
+    zlib1g-dev \
+    make \
+    g++ \
+    rsync \
+    cpanminus \
+    ncbi-blast+ && \
+    rm -rf /var/lib/apt/lists/* && apt-get autoclean
+
+# perl module required for kraken2-build
+RUN cpanm Getopt::Std
+
+# DL Kraken2, unpack, and install
+RUN wget https://github.com/DerrickWood/kraken2/archive/v${K2VER}.tar.gz && \
+    tar -xzf v${K2VER}.tar.gz && \
+    rm -rf v${K2VER}.tar.gz && \
+    cd kraken2-${K2VER} && \
+    ./install_kraken2.sh /bin
+
+
+FROM ubuntu:jammy
+
+COPY --from=builder /nohuman/target/release/nohuman /bin/
+COPY --from=kraken /bin/kraken2* /bin/
+
+RUN nohuman --version
+# print help and versions
+RUN kraken2 --help && \
+    kraken2-build --help && \
+    kraken2 --version
+
+
+ENTRYPOINT [ "nohuman" ]