Add rbp-maps v1.1.0 image

CHANGELOG.md

@@ -50,6 +50,9 @@
 
 ### Added
 
+- rbp-maps v1.1.0 image (`images/rbp-maps/v1.1.0/Dockerfile`), built from the
+  upstream release tag with Miniforge and the release's own `environment.yml`;
+  publishes `ghcr.io/yeolab/rbp-maps:v1.1.0`.
 - Versioned Mandalorion 4.6, ESPRESSO 1.6.0, and Isosceles 0.2.1 containers
   with build-time installation checks and Singularity pull documentation.
 - Latest stable containers for the PacBio full-length isoform sequencing

images/rbp-maps/v1.1.0/Dockerfile

@@ -0,0 +1,48 @@
+################## BASE IMAGE ######################
+
+FROM debian:trixie
+
+################## METADATA ######################
+
+LABEL base_image="debian:trixie"
+LABEL version="2"
+LABEL software="rbp-maps"
+LABEL software.version="v1.1.0"
+LABEL about.summary="RNA-binding protein splicing and feature maps from CLIP-seq density or peaks"
+LABEL about.url="https://github.com/YeoLab/rbp-maps"
+LABEL about.license="MIT"
+LABEL about.license_file=""
+LABEL about.publication="https://www.ncbi.nlm.nih.gov/pubmed/30413564"
+LABEL about.tags="Genomics,Transcriptomics,CLIP-seq,Splicing"
+
+ARG RBP_MAPS_VERSION=v1.1.0
+
+# Builds the tagged release with its own environment.yml (Python 3.13 plus
+# samtools, bedtools, bedGraphToBigWig and bedToBigBed from bioconda), using
+# Miniforge so only conda-forge/bioconda channels are involved. JupyterLab is
+# included so the image can serve notebooks (e.g. via galyleo --sif).
+RUN apt-get update \
+    && apt-get install -y --no-install-recommends \
+       ca-certificates \
+       curl \
+       git \
+       procps \
+    && rm -rf /var/lib/apt/lists/* \
+    && curl -L 'https://github.com/conda-forge/miniforge/releases/latest/download/Miniforge3-Linux-x86_64.sh' -o /tmp/miniforge.sh \
+    && bash /tmp/miniforge.sh -b -p /opt/conda \
+    && rm /tmp/miniforge.sh \
+    && git clone --depth 1 --branch "${RBP_MAPS_VERSION}" 'https://github.com/YeoLab/rbp-maps.git' /rbp-maps \
+    && /opt/conda/bin/mamba env create -y -p /opt/rbp-maps -f /rbp-maps/environment.yml \
+    && /opt/rbp-maps/bin/python -m pip install --no-cache-dir /rbp-maps \
+    && /opt/conda/bin/mamba install -y -p /opt/rbp-maps -c conda-forge jupyterlab ipykernel \
+    && /opt/conda/bin/conda clean -afy
+
+ENV PATH=/opt/rbp-maps/bin:${PATH}
+ENV MPLBACKEND=Agg
+
+# Set defaults for running the image.
+# The ENTRYPOINT and CMD are empty to be compatible with
+# CWL and WDL implementations that cannot override those values
+WORKDIR /rbp-maps
+ENTRYPOINT []
+CMD []