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Unable to initialize bia-binder environments #35

@yulewu

Description

@yulewu

Dear developers and maintainers of Bia-binder,

I am unable to initialize bia-binder environments, including all the examples listed on https://bia-binder.readthedocs.io/en/latest/ and my personal repo.

Example: Bia-binder demo for BioStudies notebooks fails to launch

https://bia-binder.readthedocs.io/en/latest/

URL: https://binder.bioimagearchive.org/v2/gh/EBIBioStudies/biostudies-notebooks/HEAD

Description:
I tried to launch the Binder demo for Reading BioStudies images using the link above, but the build fails during environment setup with a mamba installation error.

Error output:

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

Looking for: ['mamba==0.7.4']

pkgs/main/noarch
time: 1.116
time: 25.032
building at STEP "RUN TIMEFORMAT='time: %3R' bash -c 'time /tmp/install-miniforge.bash' && rm -rf /tmp/install-miniforge.bash /tmp/env": while running runtime: exit status 1

The complete log cab found here: biaimage_log.txt

Additional notes:

  • The Binder build log shows mamba (0.7.4) being used.
  • It appears that the environment setup script (install-miniforge.bash) fails while installing dependencies.
  • This prevents the notebook from launching successfully.

Steps to reproduce:

  1. Go to https://binder.bioimagearchive.org/v2/gh/EBIBioStudies/biostudies-notebooks/HEAD
  2. Wait for the environment to build.
  3. Observe that the build fails with the error above.

Expected behavior:
The Binder instance should build successfully and open the demo notebook for reading BioStudies images.

Environment:

  • Tried in Chrome Version 141.0.7390.109 (Official Build) (64-bit)
  • Tested on 24 Oct 2025

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