RuntimeError: Could not set URL

[stammler]

I keep getting an error on a repository that used to work previously: github.com/stammler/spp1992_summerschool23.

Click here to reproduce:

This is from the build log:

# >>>>>>>>>>>>>>>>>>>>>> ERROR REPORT <<<<<<<<<<<<<<<<<<<<<<

    Traceback (most recent call last):
      File "/srv/conda/lib/python3.11/site-packages/conda/exception_handler.py", line 16, in __call__
        return func(*args, **kwargs)
               ^^^^^^^^^^^^^^^^^^^^^
      File "/srv/conda/lib/python3.11/site-packages/conda_env/cli/main.py", line 49, in do_call
        exit_code = getattr(module, func_name)(args, parser)
                    ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
      File "/srv/conda/lib/python3.11/site-packages/conda/notices/core.py", line 123, in wrapper
        return func(*args, **kwargs)
               ^^^^^^^^^^^^^^^^^^^^^
      File "/srv/conda/lib/python3.11/site-packages/conda_env/cli/main_update.py", line 139, in execute
        result[installer_type] = installer.install(prefix, specs, args, env)
                                 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
      File "/srv/conda/lib/python3.11/site-packages/mamba/mamba_env.py", line 153, in mamba_install
        transaction.fetch_extract_packages()
    RuntimeError: Could not set URL (code: 14 - url = /wheel-0.40.0-pyhd8ed1ab_0.conda)

`$ /srv/conda/bin/mamba update -p /srv/conda/envs/notebook --file environment.yml`

  environment variables:
                 CIO_TEST=<not set>
  CONDA_AUTO_UPDATE_CONDA=false
        CONDA_DEFAULT_ENV=/srv/conda/envs/notebook
                CONDA_DIR=/srv/conda
           CONDA_PLATFORM=linux-64
               CONDA_ROOT=/srv/conda
           CURL_CA_BUNDLE=<not set>
               LD_PRELOAD=<not set>
                     PATH=/home/jovyan/.local/bin:/home/jovyan/.local/bin:/srv/conda/envs/notebo
                          ok/bin:/srv/conda/bin:/srv/npm/bin:/usr/local/sbin:/usr/local/bin:/usr
                          /sbin:/usr/bin:/sbin:/bin
       REQUESTS_CA_BUNDLE=<not set>
            SSL_CERT_FILE=<not set>

     active environment : None
       user config file : /home/jovyan/.condarc
 populated config files : /srv/conda/.condarc
          conda version : 23.5.2
    conda-build version : not installed
         python version : 3.11.4.final.0
       virtual packages : __archspec=1=x86_64
                          __glibc=2.27=0
                          __linux=5.15.0=0
                          __unix=0=0
       base environment : /srv/conda  (writable)
      conda av data dir : /srv/conda/etc/conda
  conda av metadata url : None
           channel URLs : https://conda.anaconda.org/conda-forge/linux-64
                          https://conda.anaconda.org/conda-forge/noarch
                          https://repo.anaconda.com/pkgs/main/linux-64
                          https://repo.anaconda.com/pkgs/main/noarch
                          https://repo.anaconda.com/pkgs/r/linux-64
                          https://repo.anaconda.com/pkgs/r/noarch
          package cache : /srv/conda/pkgs
                          /home/jovyan/.conda/pkgs
       envs directories : /srv/conda/envs
                          /home/jovyan/.conda/envs
               platform : linux-64
             user-agent : conda/23.5.2 requests/2.31.0 CPython/3.11.4 Linux/5.15.0-69-generic ubuntu/18.04.6 glibc/2.27
                UID:GID : 1000:1000
             netrc file : None
           offline mode : False


An unexpected error has occurred. Conda has prepared the above report.

time: 47.398
Removing intermediate container 75ebb7066260
The command '/bin/sh -c TIMEFORMAT='time: %3R' bash -c 'time ${MAMBA_EXE} env update -p ${NB_PYTHON_PREFIX} --file "environment.yml" && time ${MAMBA_EXE} clean --all -f -y && ${MAMBA_EXE} list -p ${NB_PYTHON_PREFIX} '' returned a non-zero code: 1

I cannot make sense of it. Is that a problem on my side?
Or is there an issue with Binder right now, which is out of my control?

Many thanks in advance!

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[manics]

It's possible it's a bug in conda/mamba, which were recently updated in https://github.com/jupyterhub/repo2docker/pull/1299/files

Can you reproduce the error with the dev version of repo2docker installed from thre main branch? Does the last tagged release work? https://github.com/jupyterhub/repo2docker/tags

[rgaiacs]

The same is happening with https://github.com/gesiscss/css_methods_python

Full build log

Waiting for build to start...
Picked Git content provider.
Cloning into '/tmp/repo2dockercrurfb71'...
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Updating files: 100% (166/166), done.
HEAD is now at 481fd88 Update README.md
Building conda environment for python=3.9
Using CondaBuildPack builder
Step 1/50 : FROM docker.io/library/buildpack-deps:bionic
 ---> 0f137f206fa8
Step 2/50 : ENV DEBIAN_FRONTEND=noninteractive
 ---> Using cache
 ---> 6e4965def8f8
Step 3/50 : 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
 ---> a9807201b785
Step 4/50 : RUN echo "en_US.UTF-8 UTF-8" > /etc/locale.gen &&     locale-gen
 ---> Using cache
 ---> fa35955eae00
Step 5/50 : ENV LC_ALL=en_US.UTF-8     LANG=en_US.UTF-8     LANGUAGE=en_US.UTF-8
 ---> Using cache
 ---> 3fa7db7aba27
Step 6/50 : ENV SHELL=/bin/bash
 ---> Using cache
 ---> a628f25290d0
Step 7/50 : ARG NB_USER
 ---> Using cache
 ---> bb7fc95b5b7f
Step 8/50 : ARG NB_UID
 ---> Using cache
 ---> 26a1912a03ee
Step 9/50 : ENV USER=${NB_USER}     HOME=/home/${NB_USER}
 ---> Using cache
 ---> 9f68d60ba8c1
Step 10/50 : 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}         ${NB_USER}
 ---> Using cache
 ---> ab7ff1751ef1
Step 11/50 : RUN apt-get -qq update &&     apt-get -qq install --yes --no-install-recommends        gettext-base        less        unzip        > /dev/null &&     apt-get -qq purge &&     apt-get -qq clean &&     rm -rf /var/lib/apt/lists/*
 ---> Using cache
 ---> 9e1b8039cd59
Step 12/50 : EXPOSE 8888
 ---> Using cache
 ---> f9b5ef5e3083
Step 13/50 : ENV APP_BASE=/srv
 ---> Using cache
 ---> 64bdaf521b13
Step 14/50 : ENV CONDA_DIR=${APP_BASE}/conda
 ---> Using cache
 ---> a4c7a150df6e
Step 15/50 : ENV NB_PYTHON_PREFIX=${CONDA_DIR}/envs/notebook
 ---> Using cache
 ---> de47c1d216a9
Step 16/50 : ENV NPM_DIR=${APP_BASE}/npm
 ---> Using cache
 ---> 2c9160df334c
Step 17/50 : ENV NPM_CONFIG_GLOBALCONFIG=${NPM_DIR}/npmrc
 ---> Using cache
 ---> 00e06c0cc7a5
Step 18/50 : ENV NB_ENVIRONMENT_FILE=/tmp/env/environment.lock
 ---> Using cache
 ---> 878088b22e6b
Step 19/50 : ENV MAMBA_ROOT_PREFIX=${CONDA_DIR}
 ---> Using cache
 ---> 9cca0c5b561c
Step 20/50 : ENV MAMBA_EXE=${CONDA_DIR}/bin/mamba
 ---> Using cache
 ---> 8a147757acd7
Step 21/50 : ENV CONDA_PLATFORM=linux-64
 ---> Using cache
 ---> 344d72c7e2a4
Step 22/50 : ENV KERNEL_PYTHON_PREFIX=${NB_PYTHON_PREFIX}
 ---> Using cache
 ---> d0017cf8d635
Step 23/50 : ENV PATH=${NB_PYTHON_PREFIX}/bin:${CONDA_DIR}/bin:${NPM_DIR}/bin:${PATH}
 ---> Using cache
 ---> c58d50aae961
Step 24/50 : COPY --chown=1000:1000 build_script_files/-2fusr-2flib-2fpython3-2e10-2fsite-2dpackages-2frepo2docker-2fbuildpacks-2fconda-2factivate-2dconda-2esh-44e764 /etc/profile.d/activate-conda.sh
 ---> Using cache
 ---> 0b17568b0070
Step 25/50 : COPY --chown=1000:1000 build_script_files/-2fusr-2flib-2fpython3-2e10-2fsite-2dpackages-2frepo2docker-2fbuildpacks-2fconda-2fenvironment-2epy-2d3-2e9-2dlinux-2d64-2elock-3652dd /tmp/env/environment.lock
 ---> Using cache
 ---> 61b0b61b19dc
Step 26/50 : COPY --chown=1000:1000 build_script_files/-2fusr-2flib-2fpython3-2e10-2fsite-2dpackages-2frepo2docker-2fbuildpacks-2fconda-2finstall-2dbase-2denv-2ebash-e5509f /tmp/install-base-env.bash
 ---> Using cache
 ---> 1695ebbc634f
Step 27/50 : RUN TIMEFORMAT='time: %3R' bash -c 'time /tmp/install-base-env.bash' && rm -rf /tmp/install-base-env.bash /tmp/env
 ---> Using cache
 ---> 9e079ffb58e1
Step 28/50 : RUN mkdir -p ${NPM_DIR} && chown -R ${NB_USER}:${NB_USER} ${NPM_DIR}
 ---> Using cache
 ---> e696839c9ec2
Step 29/50 : USER root
 ---> Using cache
 ---> c306d40887dd
Step 30/50 : ARG REPO_DIR=${HOME}
 ---> Using cache
 ---> a386c93bebac
Step 31/50 : ENV REPO_DIR=${REPO_DIR}
 ---> Using cache
 ---> 4988c2d8f8d3
Step 32/50 : RUN if [ ! -d "${REPO_DIR}" ]; then         /usr/bin/install -o ${NB_USER} -g ${NB_USER} -d "${REPO_DIR}";     fi
 ---> Using cache
 ---> 2d08f3a0929a
Step 33/50 : WORKDIR ${REPO_DIR}
 ---> Using cache
 ---> 2cb12d17a38c
Step 34/50 : RUN chown ${NB_USER}:${NB_USER} ${REPO_DIR}
 ---> Using cache
 ---> 82c3de0bfd7b
Step 35/50 : ENV PATH=${HOME}/.local/bin:${REPO_DIR}/.local/bin:${PATH}
 ---> Using cache
 ---> 084587a8f72a
Step 36/50 : ENV CONDA_DEFAULT_ENV=${KERNEL_PYTHON_PREFIX}
 ---> Using cache
 ---> bafbebf82055
Step 37/50 : COPY --chown=1000:1000 src/binder/environment.yml ${REPO_DIR}/binder/environment.yml
 ---> Using cache
 ---> 73d4c94e2b5e
Step 38/50 : USER ${NB_USER}
 ---> Using cache
 ---> d8b9407739e6
Step 39/50 : RUN TIMEFORMAT='time: %3R' bash -c 'time ${MAMBA_EXE} env update -p ${NB_PYTHON_PREFIX} --file "binder/environment.yml" && time ${MAMBA_EXE} clean --all -f -y && ${MAMBA_EXE} list -p ${NB_PYTHON_PREFIX} '
 ---> Running in d49ceb6301e1


Looking for: ['beautifulsoup4=4.11.1', 'emoji=2.2.0', 'factor-analyzer=0.4.1', 'feedparser=6.0.8', 'gensim=4.1.2', 'ipywidgets=7.6.5', 'matplotlib=3.5.2', 'networkx=2.8.4', 'nltk=3.7', 'numpy=1.21.5', 'openpyxl=3.0.10', 'pandas=1.4.4', 'pip=22.2.2', 'powerlaw=1.4.6', 'pygraphviz=1.9', 'pyldavis=3.4.1', 'python=3.9.13', 'requests=2.28.1', 'scikit-learn=1.0.2', 'scipy=1.9.1', 'seaborn=0.11.2', 'selenium=3.9.0', 'spacy=3.5.3', 'sqlalchemy=1.4.39', 'statsmodels=0.13.2', 'textacy=0.11.0', 'wikipedia=1.4.0', 'xlsxwriter=3.0.3']


�[91mbash: line 1:     9 Killed                  ${MAMBA_EXE} env update -p ${NB_PYTHON_PREFIX} --file "binder/environment.yml"
time: 1628.928
�[0mRemoving intermediate container d49ceb6301e1
The command '/bin/sh -c TIMEFORMAT='time: %3R' bash -c 'time ${MAMBA_EXE} env update -p ${NB_PYTHON_PREFIX} --file "binder/environment.yml" && time ${MAMBA_EXE} clean --all -f -y && ${MAMBA_EXE} list -p ${NB_PYTHON_PREFIX} '' returned a non-zero code: 137

[rgaiacs]

@stammler do you continue to encounter this error? I can not reproduce it.

Regarding https://github.com/gesiscss/css_methods_python, I created #2728 as the issue is in the user repository but we could improve the log.

[stammler]

I forced it to use Python 3.10, which solved the problem. I haven't tried it without specifying a version since then. I will try it as soon as possible and report back.

[rgaiacs]

I'm closing this in favour of #2728.