r example failing to build

[DaveEdge1]

I am getting the following error when launching the r example as well as my own R projects.
"
Step 42/69 : RUN export EXPANDED_CRAN_MIRROR_URL="$(. /etc/os-release && echo https://packagemanager.posit.co/all/__linux__/${VERSION_CODENAME}/2024-01-10+kZwhsmgb | envsubst)" && R --quiet -e "install.packages(c('devtools', 'IRkernel', 'shiny'), repos=Sys.getenv("EXPANDED_CRAN_MIRROR_URL"))" && R --quiet -e "IRkernel::installspec(prefix=Sys.getenv("NB_PYTHON_PREFIX"))"
---> Running in 74182db1a7fa

install.packages(c('devtools', 'IRkernel', 'shiny'), repos=Sys.getenv("EXPANDED_CRAN_MIRROR_URL"))
�[91mInstalling packages into ‘/srv/rlibs’
(as ‘lib’ is unspecified)
�[0m�[91mWarning: unable to access index for repository https://packagemanager.posit.co/all/linux/jammy/2024-01-10+kZwhsmgb/src/contrib:
cannot open URL 'https://packagemanager.posit.co/all/linux/jammy/2024-01-10+kZwhsmgb/src/contrib/PACKAGES'
�[0m�[91mWarning message:
packages ‘devtools’, ‘IRkernel’, ‘shiny’ are not available for this version of R

Versions of these packages for your version of R might be available elsewhere,
see the ideas at
https://cran.r-project.org/doc/manuals/r-patched/R-admin.html#Installing-packages
�[0m>

IRkernel::installspec(prefix=Sys.getenv("NB_PYTHON_PREFIX"))
�[91mError in loadNamespace(x) : there is no package called ‘IRkernel’
Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
�[0m ---> Removed intermediate container 74182db1a7fa
The command '/bin/sh -c export EXPANDED_CRAN_MIRROR_URL="$(. /etc/os-release && echo https://packagemanager.posit.co/all/linux/${VERSION_CODENAME}/2024-01-10+kZwhsmgb | envsubst)" && R --quiet -e "install.packages(c('devtools', 'IRkernel', 'shiny'), repos=Sys.getenv("EXPANDED_CRAN_MIRROR_URL"))" && R --quiet -e "IRkernel::installspec(prefix=Sys.getenv("NB_PYTHON_PREFIX"))"' returned a non-zero code: 1Error in event stream: Error
"

[lionelvoirol]

Any idea on how to solve this problem ?
I have the same problem when trying to launch a binder from: https://github.com/SMAC-Group/course_data_analytics/tree/binder
This is the log returned by binder:

Waiting for build to start...
Picked Git content provider.
Cloning into '/tmp/repo2docker_xa7bmsy'...
HEAD is now at c35b830 change r snapshot
Python version unspecified, using current default Python version 3.10. This will change in the future.Building conda environment for python=3.10
Using RBuildPack builder
Step 1/69 : FROM docker.io/library/buildpack-deps:jammy
 ---> f693ae883e32
Step 2/69 : ENV DEBIAN_FRONTEND=noninteractive
 ---> Using cache
 ---> 600c6171a47b
Step 3/69 : RUN apt-get -qq update &&     apt-get -qq install --yes --no-install-recommends locales > /dev/null &&     apt-get -qq purge &&     apt-get -qq clean &&     rm -rf /var/lib/apt/lists/*
 ---> Using cache
 ---> 1457c724fafe
Step 4/69 : RUN echo "en_US.UTF-8 UTF-8" > /etc/locale.gen &&     locale-gen
 ---> Using cache
 ---> f5b9b939c47a
Step 5/69 : ENV LC_ALL=en_US.UTF-8     LANG=en_US.UTF-8     LANGUAGE=en_US.UTF-8
 ---> Using cache
 ---> 334cf391baee
Step 6/69 : ENV SHELL=/bin/bash
 ---> Using cache
 ---> f7a06264f7a5
Step 7/69 : ARG NB_USER
 ---> Using cache
 ---> 339e8123145e
Step 8/69 : ARG NB_UID
 ---> Using cache
 ---> 5d09fae2888a
Step 9/69 : ENV USER=${NB_USER}     HOME=/home/${NB_USER}
 ---> Using cache
 ---> dd65a7a5b4a4
Step 10/69 : RUN groupadd         --gid ${NB_UID}         ${NB_USER} &&     useradd         --comment "Default user"         --create-home         --gid ${NB_UID}         --no-log-init         --shell /bin/bash         --uid ${NB_UID}         ${NB_USER}
 ---> Using cache
 ---> 216c2c1103bd
Step 11/69 : RUN apt-get -qq update &&     apt-get -qq install --yes --no-install-recommends        gettext-base        less        unzip        > /dev/null &&     apt-get -qq purge &&     apt-get -qq clean &&     rm -rf /var/lib/apt/lists/*
 ---> Using cache
 ---> 3f7a4412a017
Step 12/69 : RUN apt-get -qq update &&     apt-get -qq install --yes        libapparmor1        libssl-dev        lsb-release        psmisc        sudo        > /dev/null &&     apt-get -qq purge &&     apt-get -qq clean &&     rm -rf /var/lib/apt/lists/*
 ---> Using cache
 ---> b005565a12b4
Step 13/69 : EXPOSE 8888
 ---> Using cache
 ---> 1b9bab4970f6
Step 14/69 : ENV APP_BASE=/srv
 ---> Using cache
 ---> c183e6458bc3
Step 15/69 : ENV CONDA_DIR=${APP_BASE}/conda
 ---> Using cache
 ---> 4bcf46e1e57b
Step 16/69 : ENV NB_PYTHON_PREFIX=${CONDA_DIR}/envs/notebook
 ---> Using cache
 ---> 3e594fb08ce0
Step 17/69 : ENV NPM_DIR=${APP_BASE}/npm
 ---> Using cache
 ---> 5a85cc43186f
Step 18/69 : ENV NPM_CONFIG_GLOBALCONFIG=${NPM_DIR}/npmrc
 ---> Using cache
 ---> b5c92eec77c9
Step 19/69 : ENV NB_ENVIRONMENT_FILE=/tmp/env/environment.lock
 ---> Using cache
 ---> 961c256fb18b
Step 20/69 : ENV MAMBA_ROOT_PREFIX=${CONDA_DIR}
 ---> Using cache
 ---> a5780e46fdd7
Step 21/69 : ENV MAMBA_EXE=${CONDA_DIR}/bin/mamba
 ---> Using cache
 ---> 75dbcd5c7f95
Step 22/69 : ENV CONDA_PLATFORM=linux-64
 ---> Using cache
 ---> ebddf05ea390
Step 23/69 : ENV KERNEL_PYTHON_PREFIX=${NB_PYTHON_PREFIX}
 ---> Using cache
 ---> 52c0c6e40680
Step 24/69 : ENV R_LIBS_USER=${APP_BASE}/rlibs
 ---> Using cache
 ---> 83219247796b
Step 25/69 : ENV PATH=${NB_PYTHON_PREFIX}/bin:${CONDA_DIR}/bin:${NPM_DIR}/bin:/usr/lib/rstudio-server/bin/:${PATH}
 ---> Using cache
 ---> 5f190af1a88a
Step 26/69 : COPY --chown=1000:1000 build_script_files/-2fopt-2fvenv-2flib-2fpython3-2e11-2fsite-2dpackages-2frepo2docker-2fbuildpacks-2fconda-2factivate-2dconda-2esh-e70a7b /etc/profile.d/activate-conda.sh
 ---> Using cache
 ---> e05385451286
Step 27/69 : COPY --chown=1000:1000 build_script_files/-2fopt-2fvenv-2flib-2fpython3-2e11-2fsite-2dpackages-2frepo2docker-2fbuildpacks-2fconda-2fenvironment-2epy-2d3-2e10-2dlinux-2d64-2elock-8fa955 /tmp/env/environment.lock
 ---> Using cache
 ---> 357013ea06d3
Step 28/69 : COPY --chown=1000:1000 build_script_files/-2fopt-2fvenv-2flib-2fpython3-2e11-2fsite-2dpackages-2frepo2docker-2fbuildpacks-2fconda-2finstall-2dbase-2denv-2ebash-6a6072 /tmp/install-base-env.bash
 ---> Using cache
 ---> ae5781133241
Step 29/69 : RUN TIMEFORMAT='time: %3R' bash -c 'time /tmp/install-base-env.bash' && rm -rf /tmp/install-base-env.bash /tmp/env
 ---> Using cache
 ---> 54a7d6379398
Step 30/69 : RUN mkdir -p ${NPM_DIR} && chown -R ${NB_USER}:${NB_USER} ${NPM_DIR}
 ---> Using cache
 ---> 70a62c711317
Step 31/69 : RUN apt-get update > /dev/null && apt-get install --yes --no-install-recommends         libclang-dev         libzmq3-dev > /dev/null && wget --quiet -O /tmp/r-4.4.deb     https://cdn.rstudio.com/r/ubuntu-$(. /etc/os-release && echo $VERSION_ID | sed 's/\.//')/pkgs/r-4.4_1_amd64.deb && apt install --yes --no-install-recommends /tmp/r-4.4.deb > /dev/null && rm /tmp/r-4.4.deb && apt-get -qq purge && apt-get -qq clean && rm -rf /var/lib/apt/lists/* && ln -s /opt/R/4.4/bin/R /usr/local/bin/R && ln -s /opt/R/4.4/bin/Rscript /usr/local/bin/Rscript && R --version
 ---> Running in 0f9369c356b2
debconf: delaying package configuration, since apt-utils is not installed
 ---> Removed intermediate container 0f9369c356b2
The command '/bin/sh -c apt-get update > /dev/null && apt-get install --yes --no-install-recommends         libclang-dev         libzmq3-dev > /dev/null && wget --quiet -O /tmp/r-4.4.deb     https://cdn.rstudio.com/r/ubuntu-$(. /etc/os-release && echo $VERSION_ID | sed 's/\.//')/pkgs/r-4.4_1_amd64.deb && apt install --yes --no-install-recommends /tmp/r-4.4.deb > /dev/null && rm /tmp/r-4.4.deb && apt-get -qq purge && apt-get -qq clean && rm -rf /var/lib/apt/lists/* && ln -s /opt/R/4.4/bin/R /usr/local/bin/R && ln -s /opt/R/4.4/bin/Rscript /usr/local/bin/Rscript && R --version' returned a non-zero code: 8Error in event stream: Error
Waiting for build to start...
Picked Git content provider.
Cloning into '/tmp/repo2dockernqkprkqj'...
HEAD is now at a938d29 change r snapshot
Python version unspecified, using current default Python version 3.10. This will change in the future.Building conda environment for python=3.10
Using RBuildPack builder
Step 1/69 : FROM docker.io/library/buildpack-deps:jammy
 ---> f693ae883e32
Step 2/69 : ENV DEBIAN_FRONTEND=noninteractive
 ---> Using cache
 ---> 600c6171a47b
Step 3/69 : RUN apt-get -qq update &&     apt-get -qq install --yes --no-install-recommends locales > /dev/null &&     apt-get -qq purge &&     apt-get -qq clean &&     rm -rf /var/lib/apt/lists/*
 ---> Using cache
 ---> 1457c724fafe
Step 4/69 : RUN echo "en_US.UTF-8 UTF-8" > /etc/locale.gen &&     locale-gen
 ---> Using cache
 ---> f5b9b939c47a
Step 5/69 : ENV LC_ALL=en_US.UTF-8     LANG=en_US.UTF-8     LANGUAGE=en_US.UTF-8
 ---> Using cache
 ---> 334cf391baee
Step 6/69 : ENV SHELL=/bin/bash
 ---> Using cache
 ---> f7a06264f7a5
Step 7/69 : ARG NB_USER
 ---> Using cache
 ---> 339e8123145e
Step 8/69 : ARG NB_UID
 ---> Using cache
 ---> 5d09fae2888a
Step 9/69 : ENV USER=${NB_USER}     HOME=/home/${NB_USER}
 ---> Using cache
 ---> dd65a7a5b4a4
Step 10/69 : RUN groupadd         --gid ${NB_UID}         ${NB_USER} &&     useradd         --comment "Default user"         --create-home         --gid ${NB_UID}         --no-log-init         --shell /bin/bash         --uid ${NB_UID}         ${NB_USER}
 ---> Using cache
 ---> 216c2c1103bd
Step 11/69 : RUN apt-get -qq update &&     apt-get -qq install --yes --no-install-recommends        gettext-base        less        unzip        > /dev/null &&     apt-get -qq purge &&     apt-get -qq clean &&     rm -rf /var/lib/apt/lists/*
 ---> Using cache
 ---> 3f7a4412a017
Step 12/69 : RUN apt-get -qq update &&     apt-get -qq install --yes        libapparmor1        libssl-dev        lsb-release        psmisc        sudo        > /dev/null &&     apt-get -qq purge &&     apt-get -qq clean &&     rm -rf /var/lib/apt/lists/*
 ---> Using cache
 ---> b005565a12b4
Step 13/69 : EXPOSE 8888
 ---> Using cache
 ---> 1b9bab4970f6
Step 14/69 : ENV APP_BASE=/srv
 ---> Using cache
 ---> c183e6458bc3
Step 15/69 : ENV CONDA_DIR=${APP_BASE}/conda
 ---> Using cache
 ---> 4bcf46e1e57b
Step 16/69 : ENV NB_PYTHON_PREFIX=${CONDA_DIR}/envs/notebook
 ---> Using cache
 ---> 3e594fb08ce0
Step 17/69 : ENV NPM_DIR=${APP_BASE}/npm
 ---> Using cache
 ---> 5a85cc43186f
Step 18/69 : ENV NPM_CONFIG_GLOBALCONFIG=${NPM_DIR}/npmrc
 ---> Using cache
 ---> b5c92eec77c9
Step 19/69 : ENV NB_ENVIRONMENT_FILE=/tmp/env/environment.lock
 ---> Using cache
 ---> 961c256fb18b
Step 20/69 : ENV MAMBA_ROOT_PREFIX=${CONDA_DIR}
 ---> Using cache
 ---> a5780e46fdd7
Step 21/69 : ENV MAMBA_EXE=${CONDA_DIR}/bin/mamba
 ---> Using cache
 ---> 75dbcd5c7f95
Step 22/69 : ENV CONDA_PLATFORM=linux-64
 ---> Using cache
 ---> ebddf05ea390
Step 23/69 : ENV KERNEL_PYTHON_PREFIX=${NB_PYTHON_PREFIX}
 ---> Using cache
 ---> 52c0c6e40680
Step 24/69 : ENV R_LIBS_USER=${APP_BASE}/rlibs
 ---> Using cache
 ---> 83219247796b
Step 25/69 : ENV PATH=${NB_PYTHON_PREFIX}/bin:${CONDA_DIR}/bin:${NPM_DIR}/bin:/usr/lib/rstudio-server/bin/:${PATH}
 ---> Using cache
 ---> 5f190af1a88a
Step 26/69 : COPY --chown=1000:1000 build_script_files/-2fopt-2fvenv-2flib-2fpython3-2e11-2fsite-2dpackages-2frepo2docker-2fbuildpacks-2fconda-2factivate-2dconda-2esh-e70a7b /etc/profile.d/activate-conda.sh
 ---> Using cache
 ---> e05385451286
Step 27/69 : COPY --chown=1000:1000 build_script_files/-2fopt-2fvenv-2flib-2fpython3-2e11-2fsite-2dpackages-2frepo2docker-2fbuildpacks-2fconda-2fenvironment-2epy-2d3-2e10-2dlinux-2d64-2elock-8fa955 /tmp/env/environment.lock
 ---> Using cache
 ---> 357013ea06d3
Step 28/69 : COPY --chown=1000:1000 build_script_files/-2fopt-2fvenv-2flib-2fpython3-2e11-2fsite-2dpackages-2frepo2docker-2fbuildpacks-2fconda-2finstall-2dbase-2denv-2ebash-6a6072 /tmp/install-base-env.bash
 ---> Using cache
 ---> ae5781133241
Step 29/69 : RUN TIMEFORMAT='time: %3R' bash -c 'time /tmp/install-base-env.bash' && rm -rf /tmp/install-base-env.bash /tmp/env
 ---> Using cache
 ---> 54a7d6379398
Step 30/69 : RUN mkdir -p ${NPM_DIR} && chown -R ${NB_USER}:${NB_USER} ${NPM_DIR}
 ---> Using cache
 ---> 70a62c711317
Step 31/69 : RUN apt-get update > /dev/null && apt-get install --yes --no-install-recommends         libclang-dev         libzmq3-dev > /dev/null && wget --quiet -O /tmp/r-4.2.1.deb     https://cdn.rstudio.com/r/ubuntu-$(. /etc/os-release && echo $VERSION_ID | sed 's/\.//')/pkgs/r-4.2.1_1_amd64.deb && apt install --yes --no-install-recommends /tmp/r-4.2.1.deb > /dev/null && rm /tmp/r-4.2.1.deb && apt-get -qq purge && apt-get -qq clean && rm -rf /var/lib/apt/lists/* && ln -s /opt/R/4.2.1/bin/R /usr/local/bin/R && ln -s /opt/R/4.2.1/bin/Rscript /usr/local/bin/Rscript && R --version
 ---> Using cache
 ---> 91dbc3bcd36e
Step 32/69 : RUN apt-get update > /dev/null && if apt-cache search libssl3 | grep -q libssl3; then   RSTUDIO_URL="https://download2.rstudio.org/server/jammy/amd64/rstudio-server-2022.12.0-353-amd64.deb" ;  RSTUDIO_HASH="a5aa2202786f9017a6de368a410488ea2e4fc6c739f78998977af214df0d6288" ;else   RSTUDIO_URL="https://download2.rstudio.org/server/bionic/amd64/rstudio-server-2022.12.0-353-amd64.deb" ;  RSTUDIO_HASH="bb88e37328c304881e60d6205d7dac145525a5c2aaaf9da26f1cb625b7d47e6e" ;fi && curl --silent --location --fail ${RSTUDIO_URL} > /tmp/rstudio.deb && curl --silent --location --fail https://download3.rstudio.org/ubuntu-14.04/x86_64/shiny-server-1.5.17.973-amd64.deb > /tmp/shiny.deb && echo "${RSTUDIO_HASH} /tmp/rstudio.deb" | sha256sum -c - && echo '80f1e48f6c824be7ef9c843bb7911d4981ac7e8a963e0eff823936a8b28476ee /tmp/shiny.deb' | sha256sum -c - && apt install -y --no-install-recommends /tmp/rstudio.deb /tmp/shiny.deb && rm /tmp/*.deb && apt-get -qq purge && apt-get -qq clean && rm -rf /var/lib/apt/lists/*
 ---> Using cache
 ---> 9716d029d8cf
Step 33/69 : USER ${NB_USER}
 ---> Using cache
 ---> 7daffc248138
Step 34/69 : RUN pip install --no-cache     jupyter-rsession-proxy==2.2.0     jupyter-shiny-proxy==1.1
 ---> Using cache
 ---> 76362a7fb8c8
Step 35/69 : USER root
 ---> Using cache
 ---> 5f5184dd1323
Step 36/69 : RUN install -o ${NB_USER} -g ${NB_USER} -d /var/log/shiny-server && install -o ${NB_USER} -g ${NB_USER} -d /var/lib/shiny-server && install -o ${NB_USER} -g ${NB_USER} /dev/null /var/log/shiny-server.log && install -o ${NB_USER} -g ${NB_USER} /dev/null /var/run/shiny-server.pid
 ---> Using cache
 ---> db88a4be05dd
Step 37/69 : RUN mkdir -p ${R_LIBS_USER} && chown -R ${NB_USER}:${NB_USER} ${R_LIBS_USER}
 ---> Using cache
 ---> 06e0c8b75440
Step 38/69 : RUN sed -i -e '/^R_LIBS_USER=/s/^/#/' /opt/R/4.2.1/lib/R/etc/Renviron && echo "R_LIBS_USER=${R_LIBS_USER}" >> /opt/R/4.2.1/lib/R/etc/Renviron
 ---> Using cache
 ---> a9bd778f0dd2
Step 39/69 : RUN R RHOME && mkdir -p /etc/rstudio && EXPANDED_CRAN_MIRROR_URL="$(. /etc/os-release && echo https://packagemanager.posit.co/all/__linux__/${VERSION_CODENAME}/2024-01-01+x466SziB | envsubst)" && echo "options(repos = c(CRAN = \"${EXPANDED_CRAN_MIRROR_URL}\"))" > /opt/R/4.2.1/lib/R/etc/Rprofile.site && echo "r-cran-repos=${EXPANDED_CRAN_MIRROR_URL}" > /etc/rstudio/rsession.conf
 ---> Running in 2f696df96f58
/opt/R/4.2.1/lib/R
 ---> Removed intermediate container 2f696df96f58
 ---> 48006a27290d
Step 40/69 : RUN printf '[*]\nlog-level=info\nlogger-type=stderr\n' > /etc/rstudio/logging.conf
 ---> Running in 65a066290838
 ---> Removed intermediate container 65a066290838
 ---> e818dfbe510c
Step 41/69 : USER ${NB_USER}
 ---> Running in 215f83eaf895
 ---> Removed intermediate container 215f83eaf895
 ---> 9f44cfd0bc0c
Step 42/69 : RUN export EXPANDED_CRAN_MIRROR_URL="$(. /etc/os-release && echo https://packagemanager.posit.co/all/__linux__/${VERSION_CODENAME}/2024-01-01+x466SziB | envsubst)" && R --quiet -e "install.packages(c('devtools', 'IRkernel', 'shiny'), repos=Sys.getenv(\"EXPANDED_CRAN_MIRROR_URL\"))" && R --quiet -e "IRkernel::installspec(prefix=Sys.getenv(\"NB_PYTHON_PREFIX\"))"
 ---> Running in 38b19bc53a2b
> install.packages(c('devtools', 'IRkernel', 'shiny'), repos=Sys.getenv("EXPANDED_CRAN_MIRROR_URL"))
Installing packages into ‘/srv/rlibs’
(as ‘lib’ is unspecified)
Warning: unable to access index for repository https://packagemanager.posit.co/all/__linux__/jammy/2024-01-01+x466SziB/src/contrib:
  cannot open URL 'https://packagemanager.posit.co/all/__linux__/jammy/2024-01-01+x466SziB/src/contrib/PACKAGES'
> 
> 
Warning message:
packages ‘devtools’, ‘IRkernel’, ‘shiny’ are not available for this version of R

Versions of these packages for your version of R might be available elsewhere,
see the ideas at
https://cran.r-project.org/doc/manuals/r-patched/R-admin.html#Installing-packages 
> IRkernel::installspec(prefix=Sys.getenv("NB_PYTHON_PREFIX"))
Error in loadNamespace(x) : there is no package called ‘IRkernel’
Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
 ---> Removed intermediate container 38b19bc53a2b
The command '/bin/sh -c export EXPANDED_CRAN_MIRROR_URL="$(. /etc/os-release && echo https://packagemanager.posit.co/all/__linux__/${VERSION_CODENAME}/2024-01-01+x466SziB | envsubst)" && R --quiet -e "install.packages(c('devtools', 'IRkernel', 'shiny'), repos=Sys.getenv(\"EXPANDED_CRAN_MIRROR_URL\"))" && R --quiet -e "IRkernel::installspec(prefix=Sys.getenv(\"NB_PYTHON_PREFIX\"))"' returned a non-zero code: 1Error in event stream: Error

[DaveEdge1]

I switched to the rocker template: https://github.com/rocker-org/binder

This can also be modified to use with renv, like this: https://github.com/DaveEdge1/Devils_Hole2