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Move v0.19.4 to Debian bookworm - #58
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Notebooks are moving to E2B sandboxes, and E2B installs systemd, openssh and a few other packages into every template image with apt. bullseye's security packages have been pruned from deb.debian.org, so that install now 404s and the v0.19.x images can no longer be built as E2B templates. The v1 line already moved to bookworm (#56); this does the same for v0.19.4: - python:3.13-slim-bullseye -> python:3.13-slim-bookworm - libffi7 -> libffi8 - drop python-dev, which bookworm doesn't have (the python image ships headers) - pin setuptools<81: jupyter_contrib_nbextensions imports pkg_resources, which setuptools 81 removed, and the slim image no longer ships setuptools (as in v1.1.0) Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>
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Moves the (not yet released) v0.19.4 image from Debian bullseye to bookworm, on top of #53's bump to
onecodex==0.19.4and pigz (bullseye no longer gets security updates).Changes (same as #56 and v1.1.0 did for the v1 line):
python:3.13-slim-bullseye→python:3.13-slim-bookwormlibffi7→libffi8python-dev(not in bookworm; the Python image already has the headers)setuptools<81(jupyter_contrib_nbextensionsneedspkg_resources)After merging: publish with
make releaseon thev0.19.4branch (it tags the image with the branch name), then tagv0.19.4.Note that unpinned requirements (awscli, biopython, statsmodels, ...) will resolve to current versions; the example-notebook test in CI should catch obvious breakage.
🤖 Generated with Claude Code, edited and reviewed by 🧑🔧