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feat: simplify unify containers #959

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feat: simplify unify containers #959

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Commits on Feb 9, 2024

  1. initial migration of container infra from bioconda-containers

    @daler
    daler committed Feb 9, 2024
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  2. first draft of build script

    @daler
    daler committed Feb 9, 2024
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Commits on Feb 11, 2024

  1. rename/reorganize

    @daler
    daler committed Feb 11, 2024
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  2. parameterize busybox image to copy from

    @daler
    daler committed Feb 11, 2024
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  3. git checkout parameterized branch

    @daler
    daler committed Feb 11, 2024
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  4. parameterize busybox image

    @daler
    daler committed Feb 11, 2024
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  5. depend on passed-in conda/mamba versions

    @daler
    daler committed Feb 11, 2024
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  6. first round of refactoring build-images.yml

    @daler
    daler committed Feb 11, 2024
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  7. move generic build to top, and adjust workflow

    @daler
    daler committed Feb 11, 2024
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Commits on Feb 12, 2024

  1. split out base-debian into an independent job

    @daler
    daler committed Feb 12, 2024
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  2. factor out archs

    @daler
    daler committed Feb 12, 2024
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  3. add build-env and create-env

    @daler
    daler committed Feb 12, 2024
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  4. try using branch name for now

    @daler
    daler committed Feb 12, 2024
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Commits on Feb 13, 2024

  1. fix path

    @daler
    daler committed Feb 13, 2024
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  2. rm redundant if clause

    @daler
    daler committed Feb 13, 2024
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  3. parameterize create-env test to use local images

    @daler
    daler committed Feb 13, 2024
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  4. check for existing tags

    @daler
    daler committed Feb 13, 2024
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  5. allow missing repository on quay.io if configured

    @daler
    daler committed Feb 13, 2024
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  6. add ARG for next FROM context

    @daler
    daler committed Feb 13, 2024
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  7. add build script for local testing (may be moved later)

    @daler
    daler committed Feb 13, 2024
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  8. add docs

    @daler
    daler committed Feb 13, 2024
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  9. parameterize archs

    @daler
    daler committed Feb 13, 2024
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  10. rm manifests by default before building locally

    @daler
    daler committed Feb 13, 2024
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  11. add switches to build each container

    @daler
    daler committed Feb 13, 2024
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Commits on Feb 15, 2024

  1. fix arg

    @daler
    daler committed Feb 15, 2024
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  2. use python (which will come from conda-forge) 

    rather than bioconda package, which is not yet built for arm
    @daler
    daler committed Feb 15, 2024
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Commits on Feb 17, 2024

  1. improve comments in build.sh

    @daler
    daler committed Feb 17, 2024
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  2. warn -> error

    @daler
    daler committed Feb 17, 2024
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  3. move test build-args closer to actual test

    @daler
    daler committed Feb 17, 2024
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  4. clean up buildah inspect output

    @daler
    daler committed Feb 17, 2024
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  5. overhaul how tests are run, plus notes & comments

    @daler
    daler committed Feb 17, 2024
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  6. warn -> error in workflow

    @daler
    daler committed Feb 17, 2024
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  7. rm build docker container from prev workflow

    @daler
    daler committed Feb 17, 2024
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  8. first attempt at pushing base-debian

    @daler
    daler committed Feb 17, 2024
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  9. for now always try pushing

    @daler
    daler committed Feb 17, 2024
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  10. hard code registry like bioconda-containers

    @daler
    daler committed Feb 17, 2024
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  11. add comments and ids to workflow

    @daler
    daler committed Feb 17, 2024
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  12. start support for logging

    @daler
    daler committed Feb 17, 2024
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  13. attempt to control github actions via log

    @daler
    daler committed Feb 17, 2024
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  14. mess with conditionals

    @daler
    daler committed Feb 17, 2024
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  15. single-quote to match others

    @daler
    daler committed Feb 17, 2024
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  16. no env var

    @daler
    daler committed Feb 17, 2024
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  17. now try version bump

    @daler
    daler committed Feb 17, 2024
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  18. more conditional

    @daler
    daler committed Feb 17, 2024
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  19. enable builds and pushes for other containers

    @daler
    daler committed Feb 17, 2024
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  20. swap out registry depending on if tag exists

    @daler
    daler committed Feb 17, 2024
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  21. do registry swap for create-env

    @daler
    daler committed Feb 17, 2024
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  22. lots o' comments

    @daler
    daler committed Feb 17, 2024
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  23. TIL GHA expressions work in comments

    @daler
    daler committed Feb 17, 2024
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  24. missing will now become error

    @daler
    daler committed Feb 17, 2024
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  25. bump just base version to test behavior

    @daler
    daler committed Feb 17, 2024
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  26. explicitly specify (single) tag, and add to bioconda-utils version

    @daler
    daler committed Feb 17, 2024
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Commits on Feb 18, 2024

  1. be better about tags

    @daler
    daler committed Feb 18, 2024
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  2. fix tags

    @daler
    daler committed Feb 18, 2024
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  3. add "base" to base version

    @daler
    daler committed Feb 18, 2024
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  4. add base prefix to upload steps

    @daler
    daler committed Feb 18, 2024
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  5. bump version to ensure 'latest' tags get pushed

    @daler
    daler committed Feb 18, 2024
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  6. move pushes to end

    @daler
    daler committed Feb 18, 2024
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  7. runs-on

    @daler
    daler committed Feb 18, 2024
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  8. don't depend on test

    @daler
    daler committed Feb 18, 2024
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  9. fix job outputs

    @daler
    daler committed Feb 18, 2024
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  10. better message when tag exists

    @daler
    daler committed Feb 18, 2024
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  11. comments cleanup

    @daler
    daler committed Feb 18, 2024
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  12. add test before push

    @daler
    daler committed Feb 18, 2024
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  13. typo

    @daler
    daler committed Feb 18, 2024
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  14. typo

    @daler
    daler committed Feb 18, 2024
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  15. keep recipes in work dir

    @daler
    daler committed Feb 18, 2024
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  16. activate env in test

    @daler
    daler committed Feb 18, 2024
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  17. eval hook

    @daler
    daler committed Feb 18, 2024
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  18. include output for bioconda-utils version in job

    @daler
    daler committed Feb 18, 2024
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  19. fix names

    @daler
    daler committed Feb 18, 2024
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  20. bump version for end-to-end testing

    @daler
    daler committed Feb 18, 2024
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  21. don't use "localhost" as registry for docker

    @daler
    daler committed Feb 18, 2024
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  22. registry includes the slash

    @daler
    daler committed Feb 18, 2024
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Commits on Feb 19, 2024

  1. convert back to steps rather than jobs 

    because containers can't (easily) be passed between jobs
    @daler
    daler committed Feb 19, 2024
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  2. need to podman push images to docker-daemon so docker can use

    @daler
    daler committed Feb 19, 2024
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  3. update build.sh for local tests

    @daler
    daler committed Feb 19, 2024
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  4. comments and cleanup

    @daler
    daler committed Feb 19, 2024
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  5. tags need bioconda-utils version

    @daler
    daler committed Feb 19, 2024
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  6. use correct output

    @daler
    daler committed Feb 19, 2024
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  7. attempt pushing to docker-daemon

    @daler
    daler committed Feb 19, 2024
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  8. disable some jobs so we can do some container pushing tests

    @daler
    daler committed Feb 19, 2024
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  9. try pushing to ghcr.io

    @daler
    daler committed Feb 19, 2024
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  10. rm push to docker daemon

    @daler
    daler committed Feb 19, 2024
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  11. login to ghcr

    @daler
    daler committed Feb 19, 2024
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  12. test pull from ghcr

    @daler
    daler committed Feb 19, 2024
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  13. yaml syntax

    @daler
    daler committed Feb 19, 2024
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  14. try building everything and pushing/pulling to/from ghcr.io

    @daler
    daler committed Feb 19, 2024
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  15. re-enable build-others job

    @daler
    daler committed Feb 19, 2024
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  16. get bioconda-utils version from step output

    @daler
    daler committed Feb 19, 2024
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Commits on Feb 20, 2024

  1. get bioconda-utils version from build-other job

    @daler
    daler committed Feb 20, 2024
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  2. aaaand use right output

    @daler
    daler committed Feb 20, 2024
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  3. push the right image

    @daler
    daler committed Feb 20, 2024
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  4. add additional label to tie to bioconda-utils

    @daler
    daler committed Feb 20, 2024
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  5. fix label

    @daler
    daler committed Feb 20, 2024
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  6. new version number to see if ghcr will make public

    @daler
    daler committed Feb 20, 2024
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  7. ensure all tags are pulled

    @daler
    daler committed Feb 20, 2024
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  8. ensure latest manifest is pushed in the first place

    @daler
    daler committed Feb 20, 2024
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  9. use job-level tag

    @daler
    daler committed Feb 20, 2024
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  10. use jobs not steps

    @daler
    daler committed Feb 20, 2024
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Commits on Feb 22, 2024

  1. typo in missing argument handling

    @daler
    daler committed Feb 22, 2024
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  2. re-enable library tests

    @daler
    daler committed Feb 22, 2024
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Commits on Feb 27, 2024

  1. create & store local version of locale 

    to reduce inter-image dependencies
    @daler
    daler committed Feb 27, 2024
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  2. overhaul how everything is configured

    @daler
    daler committed Feb 27, 2024
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  3. cleanup

    @daler
    daler committed Feb 27, 2024
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  4. copied bioconda-utils version expected to be already checked out

    @daler
    daler committed Feb 27, 2024
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  5. simplify creating requirements

    @daler
    daler committed Feb 27, 2024
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  6. first pass overhauling simplified & unified builds GH Actions

    @daler
    daler committed Feb 27, 2024
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  7. Merge branch 'master' into simplify-unify-containers

    @daler
    daler authored Feb 27, 2024
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  8. reenable

    @daler
    daler committed Feb 27, 2024
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  9. disable main tests

    @daler
    daler committed Feb 27, 2024
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  10. fix job names

    @daler
    daler committed Feb 27, 2024
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  11. move ghcr login back to main workflow

    @daler
    daler committed Feb 27, 2024
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  12. log in to and use ghcr.io, not localhost registry

    @daler
    daler committed Feb 27, 2024
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Commits on Feb 28, 2024

  1. don't use localhost

    @daler
    daler committed Feb 28, 2024
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  2. disable test for now

    @daler
    daler committed Feb 28, 2024
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  3. manifest push

    @daler
    daler committed Feb 28, 2024
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  4. be explicit about base vs bioconda tags

    @daler
    daler committed Feb 28, 2024
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  5. still need TAG for build.sh

    @daler
    daler committed Feb 28, 2024
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Commits on Mar 2, 2024

  1. add function to move manifests from ghcr to quay.io

    @daler
    daler committed Mar 2, 2024
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  2. don't use "latest"

    @daler
    daler committed Mar 2, 2024
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  3. re-enable tests

    @daler
    daler committed Mar 2, 2024
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  4. back to podman

    @daler
    daler committed Mar 2, 2024
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  5. fix path

    @daler
    daler committed Mar 2, 2024
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  6. fix path

    @daler
    daler committed Mar 2, 2024
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  7. still need to clone repo for versions.sh

    @daler
    daler committed Mar 2, 2024
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  8. now try moving from ghcr to quay

    @daler
    daler committed Mar 2, 2024
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  9. login to quay

    @daler
    daler committed Mar 2, 2024
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  10. use right creds

    @daler
    daler committed Mar 2, 2024
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  11. re-enable orig tests

    @daler
    daler committed Mar 2, 2024
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Commits on Mar 17, 2024

  1. Merge branch 'master' into simplify-unify-containers

    @daler
    daler authored Mar 17, 2024
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Commits on Mar 19, 2024

  1. Merge branch 'master' into simplify-unify-containers

    @daler
    daler authored Mar 19, 2024
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Commits on Aug 10, 2024

  1. A round of comments and documentation

    @daler
    daler committed Aug 10, 2024
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  2. Merge branch 'master' into simplify-unify-containers

    @daler
    daler committed Aug 10, 2024
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Commits on Aug 11, 2024

  1. fix image tag

    @daler
    daler committed Aug 11, 2024
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  2. temporarily disable full tests

    @daler
    daler committed Aug 11, 2024
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  3. first try at enabling docker tests for just-built containers

    @daler
    daler committed Aug 11, 2024
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  4. consider env var for build image

    @daler
    daler committed Aug 11, 2024
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  5. use utils, not recipes, for test

    @daler
    daler committed Aug 11, 2024
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  6. rm mamba from images

    @daler
    daler committed Aug 11, 2024
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  7. bump version to trigger container build

    @daler
    daler committed Aug 11, 2024
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  8. be more clear about passing image name to mulled

    @daler
    daler committed Aug 11, 2024
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  9. Revert "rm mamba from images" 

    This reverts commit f311612.
    @daler
    daler committed Aug 11, 2024
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  10. try reverting truststore removal

    @daler
    daler committed Aug 11, 2024
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Commits on Aug 12, 2024

  1. another attempt at removing mamba

    @daler
    daler committed Aug 12, 2024
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  2. use new name for image sent to mulled

    @daler
    daler committed Aug 12, 2024
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Commits on Aug 13, 2024

  1. use matched branch on bioconda-common 

    need to be able to override common.sh so that bioconda-utils in host
matches that in just-built container
    @daler
    daler committed Aug 13, 2024
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