Update hictk-bench Dockerfile

containers/hictk-bench__v2.0.0.Dockerfile

@@ -2,39 +2,14 @@
 #
 # SPDX-License-Identifier: MIT
 
-FROM curlimages/curl:8.2.0 AS downloader
-
-ARG CONTAINER_VERSION
-ARG HICTOOLS_VER=3.30.00
-
-
-ARG HICTOOLS_URL="https://github.com/aidenlab/HiCTools/releases/download/v${HICTOOLS_VER}/hic_tools.${HICTOOLS_VER}.jar"
-ARG HICTOOLS_SHA256='2b09b0642a826ca5730fde74e022461a708caf62ed292bc5baaa841946721867'
-
-RUN cd /tmp \
-&& curl -LO "$HICTOOLS_URL" \
-&& curl -L 'https://raw.githubusercontent.com/aidenlab/HiCTools/6b2fab8e78685deae199c33bbb167dcab1dbfbb3/LICENSE' -o hic_tools.LICENSE \
-&& echo "$HICTOOLS_SHA256  $(basename "$HICTOOLS_URL")" >> checksum.sha256 \
-&& sha256sum -c checksum.sha256 \
-&& chmod 644 *.jar *LICENSE
-
-
-FROM ghcr.io/paulsengroup/hictk:0.0.5 AS base
+FROM ghcr.io/paulsengroup/hictk:0.0.7 AS base
 
 ARG CONTAINER_VERSION
 
 RUN if [ -z "$CONTAINER_VERSION" ]; then echo "Missing CONTAINER_VERSION --build-arg" && exit 1; fi
 
-COPY --from=downloader  --chown=root:root /tmp/hic_tools*.jar                 /usr/local/share/java/hic_tools/
-COPY --from=downloader  --chown=root:root /tmp/hic_tools.LICENSE              /usr/local/share/licenses/hic_tools/LICENSE
-
-RUN ln -s /usr/local/share/java/hic_tools/hic_tools*.jar /usr/local/share/java/hic_tools/hic_tools.jar
-ENV HICTOOLS_JAR=/usr/local/share/java/hic_tools/hic_tools.jar
-
 RUN apt-get update \
 && apt-get install -y \
-      openjdk-19-jre-headless \
-      pigz \
       procps \
       time \
       zstd \
@@ -43,7 +18,6 @@ RUN apt-get update \
 WORKDIR /data
 
 RUN hictk --version
-RUN java -jar "$HICTOOLS_JAR"
 
 LABEL org.opencontainers.image.authors='Roberto Rossini <roberros@uio.no>'
 LABEL org.opencontainers.image.url='https://github.com/paulsengroup/2023-hictk-paper'