test v0.1.11

docker/transigner/v1.1.1/Dockerfile

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+# Use Ubuntu 22.04 LTS as the base image
+FROM ubuntu:22.04
+
+# Set noninteractive installation to avoid getting stuck during build
+ARG DEBIAN_FRONTEND=noninteractive
+
+# Install necessary packages for Miniconda installation
+RUN apt-get update && \
+    apt-get install -y --no-install-recommends \
+    autoconf \
+    automake \
+    build-essential \
+    bzip2 \
+    ca-certificates \
+    cmake \
+    curl \
+    gcc-12 \
+    gfortran \
+    git \
+    libarchive-dev \
+    libncurses-dev \
+    libpng-dev \
+    libpcre3 \
+    libpcre3-dev \
+    libssl-dev \
+    libbz2-dev \
+    lzma-dev \
+    liblzma-dev \
+    libssl-dev \
+    libpcre2-dev \
+    libcurl4-openssl-dev \
+    make \
+    ncurses-dev \
+    openssl \
+    tzdata  \
+    wget \
+    zlib1g \
+    zlib1g-dev && \
+    apt-get clean && \
+    rm -rf /var/lib/apt/lists/*
+
+# Download and Install Miniconda
+RUN wget --quiet https://repo.anaconda.com/miniconda/Miniconda3-py311_24.7.1-0-Linux-x86_64.sh -O ~/miniconda.sh && \
+    /bin/bash ~/miniconda.sh -b -p /opt/conda && \
+    rm ~/miniconda.sh
+
+# Add Miniconda to PATH
+ENV PATH=/opt/conda/bin:$PATH
+ENV PATH=/opt/conda/lib:$PATH
+
+# Test conda installation by updating conda
+RUN conda update conda
+
+# Install samtools
+RUN wget https://github.com/samtools/samtools/releases/download/1.18/samtools-1.18.tar.bz2 && \
+    tar -xvjf samtools-1.18.tar.bz2 && \
+    cd samtools-1.18/ && \
+    mkdir bin && \
+    ./configure --prefix=$(pwd) && \
+    make && \
+    make install
+
+# Add samtools to PATH
+ENV PATH /samtools-1.18:$PATH
+
+# Install minimap2
+RUN conda install -c bioconda minimap2==2.22
+
+# Install transigner
+RUN conda config --set solver classic
+RUN conda install pandas==2.2.2
+RUN pip install transigner==1.1.1
+
+# Clean up to reduce Docker image size
+RUN apt-get clean