Initialize foldseek pipeline for WES

Dockerfile

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+FROM debian:bookworm-slim
+
+# Set environment variables
+ENV DEBIAN_FRONTEND=noninteractive
+
+# Install system dependencies
+RUN apt-get update -y && \
+    apt-get install -y --no-install-recommends \
+    wget \
+    curl \
+    aria2 \
+    tar \
+    gzip \
+    gawk \
+    bash \
+    grep \
+    procps \
+    ca-certificates \
+    libstdc++6 \
+    libgomp1 \
+    libatomic1 \
+    zlib1g \
+    libbz2-1.0 \
+    && rm -rf /var/lib/apt/lists/*
+
+# Create working directory
+WORKDIR /workspace
+
+# Download and install Foldseek binary
+RUN wget -q https://mmseqs.com/foldseek/foldseek-linux-avx2.tar.gz && \
+    tar xzf foldseek-linux-avx2.tar.gz && \
+    cp foldseek/bin/foldseek /usr/local/bin/foldseek && \
+    chmod +x /usr/local/bin/foldseek && \
+    rm -rf foldseek foldseek-linux-avx2.tar.gz
+
+# Create necessary directories
+RUN mkdir -p /workspace/input && \
+    mkdir -p /workspace/output && \
+    mkdir -p /workspace/databases && \
+    mkdir -p /workspace/tmp
+
+# Set environment variables
+ENV PATH="/usr/local/bin:${PATH}"
+ENV TMPDIR="/workspace/tmp"
+
+# Create wrapper script
+RUN echo '#!/bin/bash\n\
+cd /workspace && foldseek "$@"' > /usr/local/bin/run_foldseek && \
+    chmod +x /usr/local/bin/run_foldseek