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Merged
merged 3 commits into from
Sep 13, 2024
Merged

ADD minc tools install in gitactions #1179

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a165559
todo install loris mri
kongtiaowang Sep 4, 2024
23d6368
test
kongtiaowang Sep 4, 2024
d1f80b5
Merge branch 'main' into 2024-09-04-mri-docker
kongtiaowang Sep 13, 2024
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58 changes: 47 additions & 11 deletions test/Dockerfile.test.php8
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Original file line number Diff line number Diff line change
@@ -1,14 +1,7 @@
FROM php:8.3

RUN cat /etc/os-release
ENV DEBIAN_FRONTEND=noninteractive

RUN apt-get update && \
apt-get install -y mariadb-client libzip-dev

RUN docker-php-ext-install pdo_mysql && \
docker-php-ext-install zip

# todo install loris-mri here

# Update the package list and install build-essential, checkinstall, and cmake
RUN apt-get update && \
Expand All @@ -25,6 +18,49 @@ RUN apt-get install -y perl && \
# Update the package list and install required packages

RUN apt-get update && \
apt-get install -y python3.11 python3.11-dev python3.11-venv python3-pip \
libmariadb-dev-compat \
libmariadb-dev \
apt-get install -y mariadb-client libzip-dev

RUN docker-php-ext-install pdo_mysql && \
docker-php-ext-install zip

ARG projectname=Loris-MRI
RUN useradd -ms /bin/bash lorisadmin \
&& mkdir -p /data/${projectname} \
&& mkdir -p /opt/${projectname}/bin/mri \

# Update packages and install necessary tools and libraries
RUN apt-get update \
&& apt-get install -y \
python3.11 \
wget \
imagemagick \
python3.11-dev \
python3-pip \
default-libmysqlclient-dev \
virtualenv \
&& rm -rf /var/lib/apt/lists/*


########################
# Install MINC Toolkit #
########################

# Install MINC Toolkit dependencies
RUN apt-get install -y libc6 libstdc++6 imagemagick perl

# Download the MINC Toolkit package
RUN wget -P /tmp http://packages.bic.mni.mcgill.ca/minc-toolkit/Debian/minc-toolkit-1.9.18-20200813-Debian_10-x86_64.deb

# Install the MINC Toolkit package
RUN dpkg -i /tmp/minc-toolkit-1.9.18-20200813-Debian_10-x86_64.deb

# Run the MINC Toolkit configuration script
RUN . /opt/minc/1.9.18/minc-toolkit-config.sh
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Will we update the config path in a separate PR?

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Yes, we will do it in a separate PR.


RUN wget -P /tmp https://packages.bic.mni.mcgill.ca/minc-toolkit/Debian/minc-toolkit-testsuite-0.1.3-20131212.deb
RUN wget -P /tmp https://packages.bic.mni.mcgill.ca/minc-toolkit/Debian/bic-mni-models-0.1.1-20120421.deb
RUN wget -P /tmp https://packages.bic.mni.mcgill.ca/minc-toolkit/Debian/beast-library-1.1.0-20121212.deb
RUN dpkg -i /tmp/bic-mni-models-0.1.1-20120421.deb
RUN dpkg -i /tmp/bic-mni-models-0.1.1-20120421.deb
RUN dpkg -i /tmp/beast-library-1.1.0-20121212.deb

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