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FROM hbpmip/r-base-build:3.4.2-2 as r-build-env
RUN install.r randomForest leaps car MASS cluster clusterCrit magrittr
RUN install.r svglite
RUN install.r aurelius
ENV CCC_VERSION=master
RUN installGithub.r HBPMedical/CCC
FROM hbpmip/r-mip:0.5.1
MAINTAINER ludovic.claude54@gmail.com
# packages dependencies for CCC
COPY --from=r-build-env /usr/local/lib/R/site-library/car/ /usr/local/lib/R/site-library/car
COPY --from=r-build-env /usr/local/lib/R/site-library/clusterCrit/ /usr/local/lib/R/site-library/clusterCrit
COPY --from=r-build-env /usr/local/lib/R/site-library/leaps/ /usr/local/lib/R/site-library/leaps
COPY --from=r-build-env /usr/local/lib/R/site-library/lme4/ /usr/local/lib/R/site-library/lme4
COPY --from=r-build-env /usr/local/lib/R/site-library/magrittr/ /usr/local/lib/R/site-library/magrittr
COPY --from=r-build-env /usr/local/lib/R/site-library/MatrixModels/ /usr/local/lib/R/site-library/MatrixModels
COPY --from=r-build-env /usr/local/lib/R/site-library/minqa/ /usr/local/lib/R/site-library/minqa
COPY --from=r-build-env /usr/local/lib/R/site-library/nloptr/ /usr/local/lib/R/site-library/nloptr
COPY --from=r-build-env /usr/local/lib/R/site-library/pbkrtest/ /usr/local/lib/R/site-library/pbkrtest
COPY --from=r-build-env /usr/local/lib/R/site-library/quantreg/ /usr/local/lib/R/site-library/quantreg
COPY --from=r-build-env /usr/local/lib/R/site-library/randomForest/ /usr/local/lib/R/site-library/randomForest
COPY --from=r-build-env /usr/local/lib/R/site-library/Rcpp/ /usr/local/lib/R/site-library/Rcpp
COPY --from=r-build-env /usr/local/lib/R/site-library/RcppEigen/ /usr/local/lib/R/site-library/RcppEigen
COPY --from=r-build-env /usr/local/lib/R/site-library/SparseM/ /usr/local/lib/R/site-library/SparseM
#COPY --from=r-build-env /usr/local/lib/R/site-library/MASS/ /usr/local/lib/R/site-library/MASS
#COPY --from=r-build-env /usr/local/lib/R/site-library/cluster/ /usr/local/lib/R/site-library/cluster
COPY --from=r-build-env /usr/local/lib/R/site-library/CCC/ /usr/local/lib/R/site-library/CCC
# packages dependencies for aurelius
COPY --from=r-build-env /usr/local/lib/R/site-library/aurelius/ /usr/local/lib/R/site-library/aurelius
COPY --from=r-build-env /usr/local/lib/R/site-library/foreach/ /usr/local/lib/R/site-library/foreach
COPY --from=r-build-env /usr/local/lib/R/site-library/gbm/ /usr/local/lib/R/site-library/gbm
COPY --from=r-build-env /usr/local/lib/R/site-library/glmnet/ /usr/local/lib/R/site-library/glmnet
COPY --from=r-build-env /usr/local/lib/R/site-library/iterators/ /usr/local/lib/R/site-library/iterators
COPY --from=r-build-env /usr/local/lib/R/site-library/jsonlite/ /usr/local/lib/R/site-library/jsonlite
# packages dependencies for svglite
COPY --from=r-build-env /usr/local/lib/R/site-library/BH/ /usr/local/lib/R/site-library/BH
COPY --from=r-build-env /usr/local/lib/R/site-library/gdtools/ /usr/local/lib/R/site-library/gdtools
COPY --from=r-build-env /usr/local/lib/R/site-library/svglite/ /usr/local/lib/R/site-library/svglite
COPY --from=r-build-env /usr/local/lib/R/site-library/withr/ /usr/local/lib/R/site-library/withr
COPY main.R /src/
COPY tests/testthat.R /src/tests/
COPY tests/testthat/ /src/tests/testthat/
ENV DOCKER_IMAGE=hbpmip/r-3c:0.1.0 \
FUNCTION=r-3c
RUN chown -R compute:compute /src/ \
&& chown -R root:www-data /var/www/html/
LABEL eu.humanbrainproject.function=r-3c \
eu.humanbrainproject.function.location=node \
eu.humanbrainproject.function.version=0.1 \
eu.humanbrainproject.function.author="Shay Yaacoby, Ludovic Claude" \
eu.humanbrainproject.function.organisation="" \
eu.humanbrainproject.function.date="" \
org.label-schema.build-date=$BUILD_DATE \
org.label-schema.name="hbpmip/r-3c" \
org.label-schema.description="3C-strategy implementation" \
org.label-schema.url="" \
org.label-schema.vcs-type="git" \
org.label-schema.vcs-url="https://github.com/HBPMedical/algorithm-repository.git" \
org.label-schema.vcs-ref=$VCS_REF \
org.label-schema.version="$VERSION" \
org.label-schema.vendor="" \
org.label-schema.license="Apache2.0" \
org.label-schema.docker.dockerfile="Dockerfile" \
org.label-schema.schema-version="1.0"