Add wiggletools Dockerfile

paulsengroup · Aug 13, 2023 · fcaa522 · fcaa522
1 parent c39cde6
commit fcaa522
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diff --git a/.github/workflows/build-wiggletools-dockerfile.yml b/.github/workflows/build-wiggletools-dockerfile.yml
@@ -0,0 +1,29 @@
+# Copyright (c) 2023 Roberto Rossini ([email protected])
+# SPDX-License-Identifier: MIT
+
+name: Build wiggletools Dockerfile
+
+on:
+  push:
+    branches: [ main ]
+    paths:
+      - ".github/workflows/build-wiggletools-dockerfile.yml"
+      - ".github/workflows/build-dockerfile.yml"
+      - "containers/wiggletools*.Dockerfile"
+  pull_request:
+    branches: [ main ]
+    paths:
+      - ".github/workflows/build-wiggletools-dockerfile.yml"
+      - ".github/workflows/build-dockerfile.yml"
+      - "containers/wiggletools*.Dockerfile"
+
+jobs:
+  build-wiggletools-dockerfile:
+    name: Build wiggletools Dockerfile
+    uses: paulsengroup/2022-mcf10a-cancer-progression/.github/workflows/build-dockerfile.yml@main
+    with:
+      dockerfile-glob: "containers/wiggletools*.Dockerfile"
+
+    permissions:
+      contents: read
+      packages: write
diff --git a/containers/wiggletools__v1.2.11.Dockerfile b/containers/wiggletools__v1.2.11.Dockerfile
@@ -0,0 +1,37 @@
+# Copyright (C) 2023 Roberto Rossini <[email protected]>
+#
+# SPDX-License-Identifier: MIT
+
+FROM mambaorg/micromamba:1.4.3 AS base
+
+ARG CONTAINER_VERSION
+ARG MAMBA_DOCKERFILE_ACTIVATE=1
+
+RUN if [ -z "$CONTAINER_VERSION" ]; then echo "Missing CONTAINER_VERSION --build-arg" && exit 1; fi
+
+RUN micromamba install -y                         \
+               -c conda-forge                     \
+               -c bioconda                        \
+               procps-ng                          \
+               ucsc-wigtobigwig                   \
+               "wiggletools=${CONTAINER_VERSION}" \
+&& micromamba clean --all -y
+
+
+WORKDIR /data
+
+ENV PATH="/opt/conda/bin:$PATH"
+ENTRYPOINT ["/usr/local/bin/_entrypoint.sh"]
+CMD ["/bin/bash"]
+WORKDIR /data
+
+RUN wiggletools --help
+RUN whereis wigToBigWig
+
+LABEL org.opencontainers.image.authors='Roberto Rossini <[email protected]>'
+LABEL org.opencontainers.image.url='https://github.com/paulsengroup/2022-mcf10a-cancer-progression'
+LABEL org.opencontainers.image.documentation='https://github.com/paulsengroup/2022-mcf10a-cancer-progression'
+LABEL org.opencontainers.image.source='https://github.com/paulsengroup/2022-mcf10a-cancer-progression'
+LABEL org.opencontainers.image.licenses='MIT'
+LABEL org.opencontainers.image.title="${CONTAINER_TITLE:-wiggletools}"
+LABEL org.opencontainers.image.version="${CONTAINER_VERSION:-latest}"