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QSMxT: Add dcm2niix support for openjpeg
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astewartau committed Aug 9, 2024
1 parent d3f60aa commit 8b10761
Showing 1 changed file with 7 additions and 1 deletion.
8 changes: 7 additions & 1 deletion recipes/qsmxt/build.sh
Original file line number Diff line number Diff line change
Expand Up @@ -51,7 +51,13 @@ neurodocker generate ${neurodocker_buildMode} \
--workdir="/opt" \
--env SUBJECTS_DIR="/tmp" \
--ants version=2.4.3 \
--dcm2niix method=source version=v1.0.20240202 \
--workdir="/opt/dcm2niix" \
--run="git clone --branch v1.0.20240202 --depth 1 https://github.com/rordenlab/dcm2niix.git . \
&& mkdir build && cd build \
&& cmake -DZLIB_IMPLEMENTATION=Cloudflare -DUSE_JPEGLS=ON -DUSE_OPENJPEG=ON .. \
&& make \
&& make install" \
--workdir="/opt" \
--miniconda version=4.7.12.1 conda_install='python=3.8' \
--run="rm -rf /usr/bin/python3.8 \
&& ln -s /opt/miniconda-latest/bin/python /usr/bin/python3.8 \
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