feat: migrate images from bioconda-containers#1109

Merged

bgruening merged 21 commits into

bioconda:masterfrom

paperbenni:new-container-overhaul

May 28, 2026

Commits on May 16, 2026

nomenclature: rename MULLED_CONDA_IMAGE to CREATE_ENV_IMAGE and DOCKER_BASE_IMAGE to BUILD_ENV_IMAGE

benjamin
authored and
paperbenni
committed
cli: use BUILD_ENV_IMAGE env var for docker_base_image fallback

benjamin
authored and
paperbenni
committed
chore: align gitignore with containers-overhaul

benjamin
authored and
paperbenni
committed
refactor: move images from bioconda/bioconda-containers to bioconda-utils

benjamin
authored and
paperbenni
committed
test: add shellcheck and shfmt for better bash checking

benjamin
authored and
paperbenni
committed
chore: change shfmt to 4 spaces instead of tabs

benjamin
authored and
paperbenni
committed
chore: make ruff happy

benjamin
authored and
paperbenni
committed
chore: run pyupgrade to align bot with modern syntax

benjamin
authored and
paperbenni
committed
chore: ruff formatting

benjamin
authored and
paperbenni
committed
chore: shellformat

benjamin
authored and
paperbenni
committed
tests: automated shell script discovery for linting

benjamin
authored and
paperbenni
committed
chore: make shellcheck happy

benjamin
authored and
paperbenni
committed
feat: init migration of building workflows for bioconda-containers

benjamin
authored and
paperbenni
committed
chore: rename main -> master, bioconda-utils and bioconda-containers have different default branches

benjamin
authored and
paperbenni
committed
fix: busybox migrated web source access to github to LLM crawl abuse
benjamin
committed
fix: change to github patch format
benjamin
committed
fix: old issue-responder python/mamba does not build anymore
benjamin
committed
fix: version parsing
benjamin
committed
fix: switch to skopeo to avoid REST rate limits
benjamin
committed
feat: multi arch manifests for build image, remove duplicated leftover dockerfile from bioconda-containers
benjamin
committed
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benjamin
committed

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feat: migrate images from bioconda-containers#1109

feat: migrate images from bioconda-containers#1109
bgruening merged 21 commits into
bioconda:masterfrom
paperbenni:new-container-overhaul

Commits on May 16, 2026

nomenclature: rename MULLED_CONDA_IMAGE to CREATE_ENV_IMAGE and DOCKER_BASE_IMAGE to BUILD_ENV_IMAGE

cli: use BUILD_ENV_IMAGE env var for docker_base_image fallback

chore: align gitignore with containers-overhaul

refactor: move images from bioconda/bioconda-containers to bioconda-utils

test: add shellcheck and shfmt for better bash checking

chore: change shfmt to 4 spaces instead of tabs

chore: make ruff happy

chore: run pyupgrade to align bot with modern syntax

chore: ruff formatting

chore: shellformat

tests: automated shell script discovery for linting

chore: make shellcheck happy

feat: init migration of building workflows for bioconda-containers

chore: rename main -> master, bioconda-utils and bioconda-containers have different default branches

fix: busybox migrated web source access to github to LLM crawl abuse

fix: change to github patch format

fix: old issue-responder python/mamba does not build anymore

fix: version parsing

fix: switch to skopeo to avoid REST rate limits

feat: multi arch manifests for build image, remove duplicated leftover dockerfile from bioconda-containers

skip checking tags on PRs