Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

main <- dev #69

Merged
merged 84 commits into from
Oct 15, 2024
Merged

main <- dev #69

merged 84 commits into from
Oct 15, 2024

Commits on Oct 1, 2024

  1. Configuration menu
    Copy the full SHA
    006b092 View commit details
    Browse the repository at this point in the history

Commits on Oct 3, 2024

  1. Add postgres support into seqr app chart. (#63)

    * Remove crdq sync
    
    * tests
    
    * Update redis.yaml
    
    * Update test_seqr_chart.py
    
    * ws
    
    * all the parens
    
    * Update Chart.yaml
    
    * Update Chart.yaml
    
    * First pass at postgres
    
    * ws
    
    * rename to lib
    
    * rename to lib
    
    * Update reference
    
    * chart builds again
    
    * template
    
    * fix unit tests
    
    * ws
    
    * Tweak image tags
    
    * continue hacking on postgres
    
    * Bump
    
    * No size, mount to /seqr/postgresql
    
    * pg
    
    * add resource request for redis
    
    * no resources
    
    * Update values.yaml
    
    * Lint
    
    * Updates
    
    * get tests passing
    
    * Update with correct dirs
    
    * add default for REFERENCE_DATASETS_DIR
    
    * Update chart and unit tests with correct volume mount, moving all in-memory references out of core chart
    
    * update claim name
    
    * fix test
    
    * Update persistentvolume.yaml
    
    * spacing
    
    * cleaner number
    
    * improve test
    
    * Update values.yaml
    
    * Update unit_tests.yaml
    
    * refactor init and add unit test
    
    * Fix
    
    * Update values.yaml
    
    * tweak test
    
    * Enable add ons by default
    bpblanken authored Oct 3, 2024
    Configuration menu
    Copy the full SHA
    d2abb70 View commit details
    Browse the repository at this point in the history
  2. pipeline-runner chart (#64)

    * Remove crdq sync
    
    * tests
    
    * Update redis.yaml
    
    * Update test_seqr_chart.py
    
    * ws
    
    * all the parens
    
    * Update Chart.yaml
    
    * Update Chart.yaml
    
    * First pass at postgres
    
    * ws
    
    * rename to lib
    
    * rename to lib
    
    * Update reference
    
    * chart builds again
    
    * template
    
    * fix unit tests
    
    * ws
    
    * Tweak image tags
    
    * continue hacking on postgres
    
    * Bump
    
    * No size, mount to /seqr/postgresql
    
    * pg
    
    * add resource request for redis
    
    * no resources
    
    * Update values.yaml
    
    * Lint
    
    * Updates
    
    * get tests passing
    
    * Update with correct dirs
    
    * add default for REFERENCE_DATASETS_DIR
    
    * Update chart and unit tests with correct volume mount, moving all in-memory references out of core chart
    
    * update claim name
    
    * fix test
    
    * Update persistentvolume.yaml
    
    * spacing
    
    * cleaner number
    
    * improve test
    
    * add pipeline runner chart
    
    * merge
    
    * Update values.yaml
    
    * Get unit test up
    
    * Update unit_tests.yaml
    
    * A few more tweaks
    
    * merge
    
    * refactor init and add unit test
    
    * Fix
    
    * Update values.yaml
    
    * tweak test
    
    * Same memory value
    
    * bump app version
    
    * Enable add ons by default
    
    * add new env var
    
    * change port
    
    * mkdir luigi state
    bpblanken authored Oct 3, 2024
    Configuration menu
    Copy the full SHA
    4a29a00 View commit details
    Browse the repository at this point in the history
  3. Make check new samples a cronjob. (#67)

    * Remove crdq sync
    
    * tests
    
    * Update redis.yaml
    
    * Update test_seqr_chart.py
    
    * ws
    
    * all the parens
    
    * Update Chart.yaml
    
    * Update Chart.yaml
    
    * First pass at postgres
    
    * ws
    
    * rename to lib
    
    * rename to lib
    
    * Update reference
    
    * chart builds again
    
    * template
    
    * fix unit tests
    
    * ws
    
    * Tweak image tags
    
    * continue hacking on postgres
    
    * Bump
    
    * No size, mount to /seqr/postgresql
    
    * pg
    
    * add resource request for redis
    
    * no resources
    
    * Update values.yaml
    
    * Lint
    
    * Updates
    
    * get tests passing
    
    * Update with correct dirs
    
    * add default for REFERENCE_DATASETS_DIR
    
    * Update chart and unit tests with correct volume mount, moving all in-memory references out of core chart
    
    * update claim name
    
    * fix test
    
    * Update persistentvolume.yaml
    
    * spacing
    
    * cleaner number
    
    * improve test
    
    * add pipeline runner chart
    
    * merge
    
    * Update values.yaml
    
    * Get unit test up
    
    * Update unit_tests.yaml
    
    * A few more tweaks
    
    * merge
    
    * refactor init and add unit test
    
    * Fix
    
    * Update values.yaml
    
    * tweak test
    
    * Same memory value
    
    * bump app version
    
    * Enable add ons by default
    
    * add new env var
    
    * change port
    
    * mkdir luigi state
    
    * Delete some stuff
    
    * add default cronjob
    
    * ws
    
    * try this
    
    * There is a cronjob now
    
    * test
    
    * rsync correct
    bpblanken authored Oct 3, 2024
    Configuration menu
    Copy the full SHA
    7259b46 View commit details
    Browse the repository at this point in the history
  4. Configuration menu
    Copy the full SHA
    6a71e47 View commit details
    Browse the repository at this point in the history
  5. release dev versions

    bpblanken committed Oct 3, 2024
    Configuration menu
    Copy the full SHA
    aac7abd View commit details
    Browse the repository at this point in the history
  6. bump versions

    bpblanken committed Oct 3, 2024
    Configuration menu
    Copy the full SHA
    6a7c39f View commit details
    Browse the repository at this point in the history

Commits on Oct 7, 2024

  1. seqr-platform chart (#65)

    * Remove crdq sync
    
    * tests
    
    * Update redis.yaml
    
    * Update test_seqr_chart.py
    
    * ws
    
    * all the parens
    
    * Update Chart.yaml
    
    * Update Chart.yaml
    
    * First pass at postgres
    
    * ws
    
    * rename to lib
    
    * rename to lib
    
    * Update reference
    
    * chart builds again
    
    * template
    
    * fix unit tests
    
    * ws
    
    * Tweak image tags
    
    * continue hacking on postgres
    
    * Bump
    
    * No size, mount to /seqr/postgresql
    
    * pg
    
    * add resource request for redis
    
    * no resources
    
    * Update values.yaml
    
    * Lint
    
    * Updates
    
    * get tests passing
    
    * Update with correct dirs
    
    * add default for REFERENCE_DATASETS_DIR
    
    * Update chart and unit tests with correct volume mount, moving all in-memory references out of core chart
    
    * update claim name
    
    * fix test
    
    * Update persistentvolume.yaml
    
    * spacing
    
    * cleaner number
    
    * improve test
    
    * add pipeline runner chart
    
    * merge
    
    * Update values.yaml
    
    * Get unit test up
    
    * Update unit_tests.yaml
    
    * A few more tweaks
    
    * merge
    
    * Add seqr platform chart
    
    * refactor init and add unit test
    
    * Fix
    
    * Update values.yaml
    
    * tweak test
    
    * Same memory value
    
    * bump app version
    
    * Enable add ons by default
    
    * add new env var
    
    * change port
    
    * mkdir luigi state
    
    * Delete some stuff
    
    * add default cronjob
    
    * ws
    
    * try this
    
    * There is a cronjob now
    
    * test
    
    * rsync correct
    
    * Bump chart versions
    
    * bump stuff
    
    * bump
    
    * move persistent volume
    
    * bump chart lock
    
    * versions
    
    * bump
    
    * bump
    
    * conditional
    
    * Bump
    
    * Add default var
    
    * change name
    
    * add values
    
    * a bit more
    
    * ws
    
    * remove notes
    
    * add notes
    
    * nodeport futzing
    
    * Comments
    
    * delete me
    
    * Docs
    
    * more docs
    
    * more
    
    * docs
    
    * regenerate
    
    * html
    
    * a few comments
    
    * Add clarifying example
    
    * dev version
    
    * pipeline runner enabled flag
    
    * bump deps
    
    * bump
    bpblanken authored Oct 7, 2024
    Configuration menu
    Copy the full SHA
    2a12524 View commit details
    Browse the repository at this point in the history
  2. Tweak links

    bpblanken committed Oct 7, 2024
    Configuration menu
    Copy the full SHA
    c9f9865 View commit details
    Browse the repository at this point in the history
  3. Configuration menu
    Copy the full SHA
    dbba7a5 View commit details
    Browse the repository at this point in the history
  4. Configuration menu
    Copy the full SHA
    d09eb5c View commit details
    Browse the repository at this point in the history
  5. Configuration menu
    Copy the full SHA
    4202430 View commit details
    Browse the repository at this point in the history
  6. Bump deps

    bpblanken committed Oct 7, 2024
    Configuration menu
    Copy the full SHA
    4658a78 View commit details
    Browse the repository at this point in the history
  7. Configuration menu
    Copy the full SHA
    85eea99 View commit details
    Browse the repository at this point in the history
  8. try with repo references

    bpblanken committed Oct 7, 2024
    Configuration menu
    Copy the full SHA
    6987bbe View commit details
    Browse the repository at this point in the history

Commits on Oct 8, 2024

  1. seqr helm repo

    bpblanken committed Oct 8, 2024
    Configuration menu
    Copy the full SHA
    0c54c37 View commit details
    Browse the repository at this point in the history
  2. helm releaser

    bpblanken committed Oct 8, 2024
    Configuration menu
    Copy the full SHA
    92d012a View commit details
    Browse the repository at this point in the history
  3. merge

    bpblanken committed Oct 8, 2024
    Configuration menu
    Copy the full SHA
    5049b1f View commit details
    Browse the repository at this point in the history
  4. readme tweaks

    bpblanken committed Oct 8, 2024
    Configuration menu
    Copy the full SHA
    33ddedd View commit details
    Browse the repository at this point in the history
  5. Rename init containers

    bpblanken committed Oct 8, 2024
    Configuration menu
    Copy the full SHA
    4de6c36 View commit details
    Browse the repository at this point in the history
  6. revert version

    bpblanken committed Oct 8, 2024
    Configuration menu
    Copy the full SHA
    d9be9b9 View commit details
    Browse the repository at this point in the history
  7. bump version

    bpblanken committed Oct 8, 2024
    Configuration menu
    Copy the full SHA
    107a359 View commit details
    Browse the repository at this point in the history
  8. bump deps

    bpblanken committed Oct 8, 2024
    Configuration menu
    Copy the full SHA
    ce309e6 View commit details
    Browse the repository at this point in the history
  9. try local again

    bpblanken committed Oct 8, 2024
    Configuration menu
    Copy the full SHA
    0fcd970 View commit details
    Browse the repository at this point in the history
  10. add import values

    bpblanken committed Oct 8, 2024
    Configuration menu
    Copy the full SHA
    070f4c4 View commit details
    Browse the repository at this point in the history
  11. bump versions

    bpblanken committed Oct 8, 2024
    Configuration menu
    Copy the full SHA
    b30825f View commit details
    Browse the repository at this point in the history
  12. seqr helm

    bpblanken committed Oct 8, 2024
    Configuration menu
    Copy the full SHA
    58bc363 View commit details
    Browse the repository at this point in the history
  13. update test

    bpblanken committed Oct 8, 2024
    Configuration menu
    Copy the full SHA
    0026568 View commit details
    Browse the repository at this point in the history

Commits on Oct 9, 2024

  1. bump

    bpblanken committed Oct 9, 2024
    Configuration menu
    Copy the full SHA
    cbbb1ec View commit details
    Browse the repository at this point in the history
  2. Missing condition

    bpblanken committed Oct 9, 2024
    Configuration menu
    Copy the full SHA
    8e2a5b9 View commit details
    Browse the repository at this point in the history
  3. get values working

    bpblanken committed Oct 9, 2024
    Configuration menu
    Copy the full SHA
    ad55f60 View commit details
    Browse the repository at this point in the history
  4. versions

    bpblanken committed Oct 9, 2024
    Configuration menu
    Copy the full SHA
    f9db1aa View commit details
    Browse the repository at this point in the history
  5. fix crons

    bpblanken committed Oct 9, 2024
    Configuration menu
    Copy the full SHA
    0088472 View commit details
    Browse the repository at this point in the history
  6. back to repo

    bpblanken committed Oct 9, 2024
    Configuration menu
    Copy the full SHA
    4bd86ae View commit details
    Browse the repository at this point in the history
  7. Configuration menu
    Copy the full SHA
    cdf4dde View commit details
    Browse the repository at this point in the history
  8. bump down versions

    bpblanken committed Oct 9, 2024
    Configuration menu
    Copy the full SHA
    aaa794e View commit details
    Browse the repository at this point in the history
  9. Make seqr directory

    bpblanken committed Oct 9, 2024
    Configuration menu
    Copy the full SHA
    3a4cf64 View commit details
    Browse the repository at this point in the history
  10. Modify kind config instead

    bpblanken committed Oct 9, 2024
    Configuration menu
    Copy the full SHA
    3389fc9 View commit details
    Browse the repository at this point in the history
  11. bump platform

    bpblanken committed Oct 9, 2024
    Configuration menu
    Copy the full SHA
    85429b8 View commit details
    Browse the repository at this point in the history
  12. Bump docs

    bpblanken committed Oct 9, 2024
    Configuration menu
    Copy the full SHA
    4ea5657 View commit details
    Browse the repository at this point in the history
  13. Configuration menu
    Copy the full SHA
    87cceff View commit details
    Browse the repository at this point in the history
  14. Add test

    bpblanken committed Oct 9, 2024
    Configuration menu
    Copy the full SHA
    4360df7 View commit details
    Browse the repository at this point in the history
  15. bump pipeline runner

    bpblanken committed Oct 9, 2024
    Configuration menu
    Copy the full SHA
    9e3b4d6 View commit details
    Browse the repository at this point in the history
  16. Try readOnly

    bpblanken committed Oct 9, 2024
    Configuration menu
    Copy the full SHA
    f5e9b17 View commit details
    Browse the repository at this point in the history
  17. tweak nodeport

    bpblanken committed Oct 9, 2024
    Configuration menu
    Copy the full SHA
    b4708ae View commit details
    Browse the repository at this point in the history
  18. Configuration menu
    Copy the full SHA
    d041d6e View commit details
    Browse the repository at this point in the history
  19. bump versions

    bpblanken committed Oct 9, 2024
    Configuration menu
    Copy the full SHA
    35dacc4 View commit details
    Browse the repository at this point in the history
  20. bump platform

    bpblanken committed Oct 9, 2024
    Configuration menu
    Copy the full SHA
    62934ed View commit details
    Browse the repository at this point in the history
  21. bump pipeline runner

    bpblanken committed Oct 9, 2024
    Configuration menu
    Copy the full SHA
    2ebf70f View commit details
    Browse the repository at this point in the history
  22. bump platform

    bpblanken committed Oct 9, 2024
    Configuration menu
    Copy the full SHA
    383e028 View commit details
    Browse the repository at this point in the history
  23. tweak default env vars

    bpblanken committed Oct 9, 2024
    Configuration menu
    Copy the full SHA
    e372268 View commit details
    Browse the repository at this point in the history
  24. push another version

    bpblanken committed Oct 9, 2024
    Configuration menu
    Copy the full SHA
    481f9b5 View commit details
    Browse the repository at this point in the history
  25. Bump timeout amount

    bpblanken committed Oct 9, 2024
    Configuration menu
    Copy the full SHA
    74aa614 View commit details
    Browse the repository at this point in the history
  26. Bugfix for services!

    bpblanken committed Oct 9, 2024
    Configuration menu
    Copy the full SHA
    227059d View commit details
    Browse the repository at this point in the history
  27. bump version

    bpblanken committed Oct 9, 2024
    Configuration menu
    Copy the full SHA
    688a25f View commit details
    Browse the repository at this point in the history
  28. More bugs in the selector

    bpblanken committed Oct 9, 2024
    Configuration menu
    Copy the full SHA
    25c208f View commit details
    Browse the repository at this point in the history

Commits on Oct 10, 2024

  1. bump again

    bpblanken committed Oct 10, 2024
    Configuration menu
    Copy the full SHA
    ac68b41 View commit details
    Browse the repository at this point in the history
  2. bump pipeline runner

    bpblanken committed Oct 10, 2024
    Configuration menu
    Copy the full SHA
    9305a15 View commit details
    Browse the repository at this point in the history
  3. Bump pipeline runner

    bpblanken committed Oct 10, 2024
    Configuration menu
    Copy the full SHA
    daa6264 View commit details
    Browse the repository at this point in the history
  4. correct scheduler url

    bpblanken committed Oct 10, 2024
    Configuration menu
    Copy the full SHA
    4d2a0d7 View commit details
    Browse the repository at this point in the history
  5. Bump pipeline runner

    bpblanken committed Oct 10, 2024
    Configuration menu
    Copy the full SHA
    09a3d58 View commit details
    Browse the repository at this point in the history
  6. Bump pipeline runner

    bpblanken committed Oct 10, 2024
    Configuration menu
    Copy the full SHA
    712723a View commit details
    Browse the repository at this point in the history
  7. tweak unit test mkdir

    bpblanken committed Oct 10, 2024
    Configuration menu
    Copy the full SHA
    1b254d7 View commit details
    Browse the repository at this point in the history
  8. Bump lock

    bpblanken committed Oct 10, 2024
    Configuration menu
    Copy the full SHA
    ffa9724 View commit details
    Browse the repository at this point in the history
  9. try sudo

    bpblanken committed Oct 10, 2024
    Configuration menu
    Copy the full SHA
    c9cf3fb View commit details
    Browse the repository at this point in the history

Commits on Oct 11, 2024

  1. try 777

    bpblanken committed Oct 11, 2024
    Configuration menu
    Copy the full SHA
    c2a75b5 View commit details
    Browse the repository at this point in the history
  2. try 666

    bpblanken committed Oct 11, 2024
    Configuration menu
    Copy the full SHA
    a009bc2 View commit details
    Browse the repository at this point in the history
  3. bump pipeline

    bpblanken committed Oct 11, 2024
    Configuration menu
    Copy the full SHA
    726d87d View commit details
    Browse the repository at this point in the history
  4. another pg attempt

    bpblanken committed Oct 11, 2024
    Configuration menu
    Copy the full SHA
    1e77921 View commit details
    Browse the repository at this point in the history
  5. tweak sync annotations test

    bpblanken committed Oct 11, 2024
    Configuration menu
    Copy the full SHA
    e83ebaf View commit details
    Browse the repository at this point in the history
  6. bump a bunch of versions

    bpblanken committed Oct 11, 2024
    Configuration menu
    Copy the full SHA
    8a8bc10 View commit details
    Browse the repository at this point in the history
  7. bump version

    bpblanken committed Oct 11, 2024
    Configuration menu
    Copy the full SHA
    9e41762 View commit details
    Browse the repository at this point in the history
  8. bump readmes

    bpblanken committed Oct 11, 2024
    Configuration menu
    Copy the full SHA
    58c4559 View commit details
    Browse the repository at this point in the history
  9. 1 worker

    bpblanken committed Oct 11, 2024
    Configuration menu
    Copy the full SHA
    79e7706 View commit details
    Browse the repository at this point in the history
  10. Configuration menu
    Copy the full SHA
    24de6c5 View commit details
    Browse the repository at this point in the history
  11. Configuration menu
    Copy the full SHA
    b1a7dd8 View commit details
    Browse the repository at this point in the history
  12. bump pipeline runner

    bpblanken committed Oct 11, 2024
    Configuration menu
    Copy the full SHA
    0b046f6 View commit details
    Browse the repository at this point in the history
  13. bump again

    bpblanken committed Oct 11, 2024
    Configuration menu
    Copy the full SHA
    3ae96ac View commit details
    Browse the repository at this point in the history
  14. remove the wrong fields

    bpblanken committed Oct 11, 2024
    Configuration menu
    Copy the full SHA
    15b340e View commit details
    Browse the repository at this point in the history

Commits on Oct 15, 2024

  1. improve docs

    bpblanken committed Oct 15, 2024
    Configuration menu
    Copy the full SHA
    2e06e90 View commit details
    Browse the repository at this point in the history
  2. ws

    bpblanken committed Oct 15, 2024
    Configuration menu
    Copy the full SHA
    faf2f81 View commit details
    Browse the repository at this point in the history
  3. ws

    bpblanken committed Oct 15, 2024
    Configuration menu
    Copy the full SHA
    f0d2e38 View commit details
    Browse the repository at this point in the history
  4. out of date comments

    bpblanken committed Oct 15, 2024
    Configuration menu
    Copy the full SHA
    48ebbc0 View commit details
    Browse the repository at this point in the history
  5. bump minor versions

    bpblanken committed Oct 15, 2024
    Configuration menu
    Copy the full SHA
    f7d644c View commit details
    Browse the repository at this point in the history