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Dockerfile for PET2BIDS #359

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Merged
merged 2 commits into from
Jul 15, 2025
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Dockerfile for PET2BIDS #359

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Dockerfile for PET2BIDS
ramroomh Jul 11, 2025
5703789
Updated ReadMe with docker usage
ramroomh Jul 15, 2025
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39 changes: 39 additions & 0 deletions Dockerfile
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FROM python:3.11-slim

LABEL maintainer="OpenNeuroPET team"
LABEL description="PET2BIDS"

# Install system dependencies
RUN apt-get update && apt-get install -y \
git \
curl \
wget \
unzip \
cmake \
build-essential \
pkg-config \
libturbojpeg0-dev \
libopenjp2-7-dev \
libjpeg-dev \
libcharls-dev \
zlib1g-dev \
&& rm -rf /var/lib/apt/lists/*

WORKDIR /tmp
# Build and install dcm2niix
RUN git clone https://github.com/rordenlab/dcm2niix.git && \
cd dcm2niix && \
mkdir build && cd build && \
cmake -DCMAKE_INSTALL_PREFIX=/usr/local -DZLIB_IMPLEMENTATION=Cloudflare -DUSE_JPEGLS=ON -DUSE_OPENJPEG=ON .. && \
make && \
make install && \
ldconfig && \
cd / && rm -rf /tmp/dcm2niix

# Verify dcm2niix installation and ensure it's in PATH
RUN which dcm2niix && dcm2niix -h
ENV PATH="/usr/local/bin:${PATH}"

WORKDIR /out
# Install pypet2bids
RUN pip install pypet2bids
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