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Commit abf9e212 authored by Peng Lian's avatar Peng Lian
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Update R containers

parent aafac160
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......@@ -64,7 +64,7 @@ RUN yum -y install https://cdn.rstudio.com/r/centos-7/pkgs/R-${R_VERSION}-1-1.x8
yum clean all && \
ln -s /opt/R/${R_VERSION}/bin/R /usr/local/bin/R && \
ln -s /opt/R/${R_VERSION}/bin/Rscript /usr/local/bin/Rscript && \
/usr/local/bin/R -e "install.packages(c('BiocManager'), repos='https://cloud.r-project.org')" && \
/usr/local/bin/R -e "install.packages(c('BiocManager', 'shiny', 'shinyFiles'), repos='https://cloud.r-project.org')" && \
R --version
# set default CRAN mirror
......
......@@ -64,7 +64,7 @@ RUN yum -y install https://cdn.rstudio.com/r/centos-7/pkgs/R-${R_VERSION}-1-1.x8
yum clean all && \
ln -s /opt/R/${R_VERSION}/bin/R /usr/local/bin/R && \
ln -s /opt/R/${R_VERSION}/bin/Rscript /usr/local/bin/Rscript && \
/usr/local/bin/R -e "install.packages(c('BiocManager'), repos='https://cloud.r-project.org')" && \
/usr/local/bin/R -e "install.packages(c('BiocManager', 'shiny', 'shinyFiles'), repos='https://cloud.r-project.org')" && \
R --version
# set default CRAN mirror
......
......@@ -64,7 +64,7 @@ RUN yum -y install https://cdn.rstudio.com/r/centos-7/pkgs/R-${R_VERSION}-1-1.x8
yum clean all && \
ln -s /opt/R/${R_VERSION}/bin/R /usr/local/bin/R && \
ln -s /opt/R/${R_VERSION}/bin/Rscript /usr/local/bin/Rscript && \
/usr/local/bin/R -e "install.packages(c('BiocManager'), repos='https://cloud.r-project.org')" && \
/usr/local/bin/R -e "install.packages(c('BiocManager', 'shiny', 'shinyFiles'), repos='https://cloud.r-project.org')" && \
R --version
# set default CRAN mirror
......
......@@ -64,7 +64,7 @@ RUN yum -y install https://cdn.rstudio.com/r/centos-7/pkgs/R-${R_VERSION}-1-1.x8
yum clean all && \
ln -s /opt/R/${R_VERSION}/bin/R /usr/local/bin/R && \
ln -s /opt/R/${R_VERSION}/bin/Rscript /usr/local/bin/Rscript && \
/usr/local/bin/R -e "install.packages(c('BiocManager'), repos='https://cloud.r-project.org')" && \
/usr/local/bin/R -e "install.packages(c('BiocManager', 'shiny', 'shinyFiles'), repos='https://cloud.r-project.org')" && \
R --version
# set default CRAN mirror
......
......@@ -64,7 +64,7 @@ RUN yum -y install https://cdn.rstudio.com/r/centos-7/pkgs/R-${R_VERSION}-1-1.x8
yum clean all && \
ln -s /opt/R/${R_VERSION}/bin/R /usr/local/bin/R && \
ln -s /opt/R/${R_VERSION}/bin/Rscript /usr/local/bin/Rscript && \
/usr/local/bin/R -e "install.packages(c('BiocManager'), repos='https://cloud.r-project.org')" && \
/usr/local/bin/R -e "install.packages(c('BiocManager', 'shiny', 'shinyFiles'), repos='https://cloud.r-project.org')" && \
R --version
# set default CRAN mirror
......
......@@ -64,7 +64,7 @@ RUN yum -y install https://cdn.rstudio.com/r/centos-7/pkgs/R-${R_VERSION}-1-1.x8
yum clean all && \
ln -s /opt/R/${R_VERSION}/bin/R /usr/local/bin/R && \
ln -s /opt/R/${R_VERSION}/bin/Rscript /usr/local/bin/Rscript && \
/usr/local/bin/R -e "install.packages(c('BiocManager'), repos='https://cloud.r-project.org')" && \
/usr/local/bin/R -e "install.packages(c('BiocManager', 'shiny', 'shinyFiles'), repos='https://cloud.r-project.org')" && \
R --version
# set default CRAN mirror
......
......@@ -64,7 +64,7 @@ RUN yum -y install https://cdn.rstudio.com/r/centos-7/pkgs/R-${R_VERSION}-1-1.x8
yum clean all && \
ln -s /opt/R/${R_VERSION}/bin/R /usr/local/bin/R && \
ln -s /opt/R/${R_VERSION}/bin/Rscript /usr/local/bin/Rscript && \
/usr/local/bin/R -e "install.packages(c('BiocManager'), repos='https://cloud.r-project.org')" && \
/usr/local/bin/R -e "install.packages(c('BiocManager', 'shiny', 'shinyFiles'), repos='https://cloud.r-project.org')" && \
R --version
# set default CRAN mirror
......
......@@ -64,7 +64,7 @@ RUN yum -y install https://cdn.rstudio.com/r/centos-7/pkgs/R-${R_VERSION}-1-1.x8
yum clean all && \
ln -s /opt/R/${R_VERSION}/bin/R /usr/local/bin/R && \
ln -s /opt/R/${R_VERSION}/bin/Rscript /usr/local/bin/Rscript && \
/usr/local/bin/R -e "install.packages(c('BiocManager'), repos='https://cloud.r-project.org')" && \
/usr/local/bin/R -e "install.packages(c('BiocManager', 'shiny', 'shinyFiles'), repos='https://cloud.r-project.org')" && \
R --version
# set default CRAN mirror
......
......@@ -64,7 +64,7 @@ RUN yum -y install https://cdn.rstudio.com/r/centos-7/pkgs/R-${R_VERSION}-1-1.x8
yum clean all && \
ln -s /opt/R/${R_VERSION}/bin/R /usr/local/bin/R && \
ln -s /opt/R/${R_VERSION}/bin/Rscript /usr/local/bin/Rscript && \
/usr/local/bin/R -e "install.packages(c('BiocManager'), repos='https://cloud.r-project.org')" && \
/usr/local/bin/R -e "install.packages(c('BiocManager', 'shiny', 'shinyFiles'), repos='https://cloud.r-project.org')" && \
R --version
# set default CRAN mirror
......
......@@ -64,7 +64,7 @@ RUN yum -y install https://cdn.rstudio.com/r/centos-7/pkgs/R-${R_VERSION}-1-1.x8
yum clean all && \
ln -s /opt/R/${R_VERSION}/bin/R /usr/local/bin/R && \
ln -s /opt/R/${R_VERSION}/bin/Rscript /usr/local/bin/Rscript && \
/usr/local/bin/R -e "install.packages(c('BiocManager'), repos='https://cloud.r-project.org')" && \
/usr/local/bin/R -e "install.packages(c('BiocManager', 'shiny', 'shinyFiles'), repos='https://cloud.r-project.org')" && \
R --version
# set default CRAN mirror
......
#!/bin/bash
R_VERSION="4.0.5"
CONTAINER_TAG="r:${R_VERSION}"
PACKAGE="r"
VERSION="$1"
CONTAINER_TAG="${PACKAGE}:${VERSION}"
CONTAINER_NAME="git.biohpc.swmed.edu:5050/biohpc/astrocyte-container-images/${CONTAINER_TAG}"
DOCKER_USERNAME="docker-push"
DOCKER_PASSWORD="AA4KRFCeEg8XSmwyoaAN"
export DOCKER_BUILDKIT=0
export COMPOSE_DOCKER_CLI_BUILD=0
# build with proxy settings
DOCKER_BUILDKIT=1 \
docker build \
-f ./${R_VERSION}/Dockerfile \
docker build \
-f ./${VERSION}/Dockerfile \
-t ${CONTAINER_TAG} \
./${R_VERSION}
./${VERSION}
# Tag and push
docker tag ${CONTAINER_TAG} ${CONTAINER_NAME}
......
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