Binder repo stops building: python requires openssl

Binder
1

Without any substantial change, the GitLab repo fkohrt/bachelorarbeit-code suddenly stopped building on mybinder.org. Commit 9c6f208c (launch binder) has already been built and hence still runs, but the following commit d0bd23b5 (launch binder) fails:

Build logs 
Waiting for build to start...
Picked Git content provider.
Cloning into '/tmp/repo2docker2ek2_wc4'...
HEAD is now at d0bd23b Fix SPDX copyright text
Building conda environment for python=Using CondaBuildPack builder
Building conda environment for python=Building conda environment for python=Step 1/60 : FROM buildpack-deps:bionic
 ---> cb3fc72df6ea
Step 2/60 : ENV DEBIAN_FRONTEND=noninteractive
 ---> Using cache
 ---> bbf71041feb5
Step 3/60 : 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
 ---> 4c3f4df4fe9f
Step 4/60 : RUN echo "en_US.UTF-8 UTF-8" > /etc/locale.gen &&     locale-gen
 ---> Using cache
 ---> cf0ddb73b20a
Step 5/60 : ENV LC_ALL en_US.UTF-8
 ---> Using cache
 ---> e4a48698b2df
Step 6/60 : ENV LANG en_US.UTF-8
 ---> Using cache
 ---> 219c96346b39
Step 7/60 : ENV LANGUAGE en_US.UTF-8
 ---> Using cache
 ---> 8ea6f84dfe1b
Step 8/60 : ENV SHELL /bin/bash
 ---> Using cache
 ---> 519b9e11fdac
Step 9/60 : ARG NB_USER
 ---> Using cache
 ---> ace306e98486
Step 10/60 : ARG NB_UID
 ---> Using cache
 ---> e00a45e88442
Step 11/60 : ENV USER ${NB_USER}
 ---> Using cache
 ---> 386954376551
Step 12/60 : ENV HOME /home/${NB_USER}
 ---> Using cache
 ---> 379c0e0741d9
Step 13/60 : 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
 ---> 7d634b1c860f
Step 14/60 : RUN apt-get -qq update &&     apt-get -qq install --yes --no-install-recommends        less        unzip        > /dev/null &&     apt-get -qq purge &&     apt-get -qq clean &&     rm -rf /var/lib/apt/lists/*
 ---> Using cache
 ---> 3a4b31b577c7
Step 15/60 : EXPOSE 8888
 ---> Using cache
 ---> 9f9275f1ce01
Step 16/60 : ENV APP_BASE /srv
 ---> Using cache
 ---> 416963c82e96
Step 17/60 : ENV CONDA_DIR ${APP_BASE}/conda
 ---> Using cache
 ---> 791680a13480
Step 18/60 : ENV NB_PYTHON_PREFIX ${CONDA_DIR}/envs/notebook
 ---> Using cache
 ---> b1e704210958
Step 19/60 : ENV NPM_DIR ${APP_BASE}/npm
 ---> Using cache
 ---> 41a53fdedb2f
Step 20/60 : ENV NPM_CONFIG_GLOBALCONFIG ${NPM_DIR}/npmrc
 ---> Using cache
 ---> e5cd64cb9c34
Step 21/60 : ENV NB_ENVIRONMENT_FILE /tmp/env/environment.lock
 ---> Using cache
 ---> 9259680e2411
Step 22/60 : ENV KERNEL_PYTHON_PREFIX ${NB_PYTHON_PREFIX}
 ---> Using cache
 ---> 187cd0243cbc
Step 23/60 : ENV PATH ${NB_PYTHON_PREFIX}/bin:${CONDA_DIR}/bin:${NPM_DIR}/bin:${PATH}
 ---> Using cache
 ---> 2bf035e29842
Step 24/60 : COPY --chown=1000:1000 build_script_files/-2fusr-2flib-2fpython3-2e8-2fsite-2dpackages-2frepo2docker-2fbuildpacks-2fconda-2factivate-2dconda-2esh-391af5 /etc/profile.d/activate-conda.sh
 ---> Using cache
 ---> 9ce1f99adb4e
Step 25/60 : COPY --chown=1000:1000 build_script_files/-2fusr-2flib-2fpython3-2e8-2fsite-2dpackages-2frepo2docker-2fbuildpacks-2fconda-2fenvironment-2elock-1dbdca /tmp/env/environment.lock
 ---> Using cache
 ---> c05ccc6d0ac3
Step 26/60 : COPY --chown=1000:1000 build_script_files/-2fusr-2flib-2fpython3-2e8-2fsite-2dpackages-2frepo2docker-2fbuildpacks-2fconda-2finstall-2dminiforge-2ebash-514214 /tmp/install-miniforge.bash
 ---> Using cache
 ---> 7e89804a0fe3
Step 27/60 : RUN TIMEFORMAT='time: %3R' bash -c 'time /tmp/install-miniforge.bash' && rm -rf /tmp/install-miniforge.bash /tmp/env
 ---> Using cache
 ---> 7f77c71775e1
Step 28/60 : RUN mkdir -p ${NPM_DIR} && chown -R ${NB_USER}:${NB_USER} ${NPM_DIR}
 ---> Using cache
 ---> 14443ad48096
Step 29/60 : ARG REPO_DIR=${HOME}
 ---> Using cache
 ---> 09630022a293
Step 30/60 : ENV REPO_DIR ${REPO_DIR}
 ---> Using cache
 ---> d932173aeb30
Step 31/60 : WORKDIR ${REPO_DIR}
 ---> Using cache
 ---> c9854f1cc8d4
Step 32/60 : RUN chown ${NB_USER}:${NB_USER} ${REPO_DIR}
 ---> Using cache
 ---> 3908ce93da62
Step 33/60 : ENV PATH ${HOME}/.local/bin:${REPO_DIR}/.local/bin:${PATH}
 ---> Using cache
 ---> d2e12bf430e9
Step 34/60 : ENV CONDA_DEFAULT_ENV ${KERNEL_PYTHON_PREFIX}
 ---> Using cache
 ---> 79ce095417df
Step 35/60 : COPY --chown=1000:1000 src/binder/environment.yml ${REPO_DIR}/binder/environment.yml
 ---> Using cache
 ---> 0c681e0c1be6
Step 36/60 : USER ${NB_USER}
 ---> Using cache
 ---> 16b562415000
Step 37/60 : RUN TIMEFORMAT='time: %3R' bash -c 'time mamba env update -p ${NB_PYTHON_PREFIX} -f "binder/environment.yml" && time mamba clean --all -f -y && mamba list -p ${NB_PYTHON_PREFIX} '
 ---> Running in 5d8a96736d33


Looking for: ['r-base=4.0', 'r-matrixstats=0.59', 'r-tinytex=0.32', 'r-rmarkdown=2.9', 'r-bookdown=0.22', 'pandoc=2.14', 'r-formatr=1.11', 'r-here=1.0.1', 'panflute=2.1.0', 'librsvg=2.50.7', 'r-rsvg=2.1.2', 'r-sysfonts=0.8.3', 'r-showtext=0.9', 'r-ggplot2=3.3.5', 'r-tidyr=1.1.3', 'r-dplyr=1.0.7', 'ghostscript=9.54.0', 'r-rcolorbrewer=1.1_2', 'r-scales=1.1.1', 'r-glue=1.4.2', 'r-rlang=0.4.11', 'r-sf=1.0_1', 'r-png=0.1_7', 'imagemagick=7.1.0_4', 'udunits2=2.2.27.6', 'sqlite=3.36.0', 'geos=3.9.1', 'openssl=1.1.1k', 'libgdal=3.3.1', 'proj=8.0.1', 'r-patchwork=1.1.1', 'r-remotes=2.4.0', 'r-fs=1.5.0', 'r-kableextra=1.3.4', 'r-targets=0.6.0', 'r-withr=2.4.2']


Encountered problems while solving.
Problem: package python-3.7.12-hb7a2778_100_cpython requires openssl >=1.1.1l,<1.1.2a, but none of the providers can be installed

pkgs/main/noarch          
pkgs/r/linux-64           
pkgs/r/noarch             
pkgs/main/linux-64        
conda-forge/noarch        
conda-forge/linux-64      
e[91mtime: 22.492
e[0mRemoving intermediate container 5d8a96736d33
The command '/bin/sh -c TIMEFORMAT='time: %3R' bash -c 'time mamba env update -p ${NB_PYTHON_PREFIX} -f "binder/environment.yml" && time mamba clean --all -f -y && mamba list -p ${NB_PYTHON_PREFIX} '' returned a non-zero code: 1Built image, launching...
Failed to connect to event stream

It “encountered problems while solving”: package python-3.7.12-hb7a2778_100_cpython requires openssl >=1.1.1l,<1.1.2a, but none of the providers can be installed

Building with repo2docker however still works. As there haven’t been any relevant changes to the repository, this must have been caused by some of the underlying software, but I don’t know which. Do you have any ideas?

2

Can you try running repo2docker locally with no cache, and also pull the latest base image buildpack-deps:bionic?

Which version of repo2docker are you testing with? Can you see if the problem is reproducible with the latest repo2docker git commit GitHub - jupyterhub/repo2docker: Turn repositories into Jupyter-enabled Docker images ?

Thanks!

3

I have not a lot experience with repo2docker and hence do not know exactly how to change the base image, but what worked was installing Docker CE, repo2docker and building the repository locally:

curl -fsSL https://get.docker.com -o get-docker.sh
sh get-docker.sh
pip install jupyter-repo2docker
jupyter-repo2docker https://gitlab.com/fkohrt/bachelorarbeit-code.git

jupyter-repo2docker --version leads 2021.08.0.

Yes, this indeed reproduces with the latest git commit, i.e. after installing repo2docker with

git clone https://github.com/jupyterhub/repo2docker.git
cd repo2docker
pip install -e .
4

I have created a corresponding issue at GitHub: Binder repo stops building: python requires openssl · Issue #1101 · jupyterhub/repo2docker · GitHub