Code

Anvil update#474

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ksuderman wants to merge 64 commits intogalaxyproject:anvilgalaxyproject/galaxy-helm:anvilfrom ksuderman:anvil-updateksuderman/galaxy-helm:anvil-updateCopy head branch name to clipboard

+336-64

Commits

Commits on Aug 13, 2021

• Changes for not mounting entire NFS to each job

  Show description for 4e27f15
  almahmoud

  authored
  4e27f15

Commits on Aug 30, 2021

• Separate data and working dir pvcs

  almahmoud

  authored
  bb53d37

Commits on Dec 20, 2021

• Removed unnecessary mounts and made inputs read only

  nuwang

  committed
  380430d

Commits on Feb 9, 2024

• Remove spaces that makes helm lint unhappy

  ksuderman

  committed
  4138130

• First pass at defining cron jobs in the values.yaml file.

  ksuderman

  committed
  e0b960d

Commits on Feb 13, 2024

• Fix command formatting and quoting

  ksuderman

  committed
  9c84d17

• Remove nodeSelector

  ksuderman

  committed
  d2941d7

Commits on Feb 16, 2024

• Tmp cleanup and maintenance scripts are treated as special cases.

  ksuderman

  committed
  95474e2

• Update the name of the container used to run the maintenance script.

  ksuderman

  committed
  93930d7

Commits on Feb 19, 2024

• Define all cron jobs in the values.yaml file again, but allows time durations to be parameterized.

  ksuderman

  committed
  287cf13

Commits on Feb 20, 2024

• Use walltime limit for cleanup and other minor tweaks

  nuwang

  committed
  8225be5

• Change find units from seconds to days

  nuwang

  committed
  8cc5d94

Commits on Feb 21, 2024

• Parameterize the nodeSelector

  ksuderman

  committed
  64320c8

• Remove the chown cron job

  ksuderman

  committed
  2bbaa3a

• Reverting my revert

  ksuderman

  committed
  df1fb39

Commits on Feb 28, 2024

• Add extraFileMappings for cron jobs

  ksuderman

  committed
  247cbf5

• Start documenting cron jobs

  ksuderman

  committed
  cf77963

Commits on Mar 8, 2024

• Make the galaxy.yml file available in a configmap for the maintenance cronjob

  ksuderman

  committed
  13e4f0b

• Update galaxy/values.yaml

  Show description for 27fd304
  

  ksuderman

  and

  nuwang

  authored
  27fd304

Commits on Mar 12, 2024

• Add helper to calculate the postgres connection string

  ksuderman

  committed
  42488ff

• Add cron job documentation and remove Galaxy versions section

  ksuderman

  committed
  0fafea8

• Add env definitions

  ksuderman

  committed
  497b572

• Maintenace job should include default env vars

  ksuderman

  committed
  da6a97a

• Update galaxy/values.yaml

  Show description for cdc2a98
  

  ksuderman

  and

  nuwang

  authored
  cdc2a98

• Update galaxy/values.yaml

  Show description for 63bc997
  

  ksuderman

  and

  nuwang

  authored
  63bc997

• Parameterize Docker image for cron jobs

  ksuderman

  committed
  d96979a

Commits on Mar 13, 2024

• Allow mode (permissions) to be defined on extraFileMappings

  ksuderman

  committed
  3af24cd

• Add YAML document separators (triple dashes) to the start of yaml templates.

  ksuderman

  committed
  b058b5e

• Add example cron job

  ksuderman

  committed
  3fe5723

• Additional documentation for cron jobs

  ksuderman

  committed
  07fdbd4

Commits on Mar 14, 2024

• Comment out the example cron job. Examples should not add arbitrary code to clusters.

  ksuderman

  committed
  b4cbdf6

Commits on Mar 17, 2024

• Run extraEnv values through the template engine

  ksuderman

  committed
  db82ef0

Commits on Mar 21, 2024

• Run tests with 1.28, and add missing tool versions to sanitize allowlist

  afgane

  committed
  859c6b7

Commits on Apr 16, 2024

• Merge branch 'master' into data_pvc

  nuwang

  authored
  cb7e7d3

• Merge pull request galaxyproject#314 from galaxyproject/data_pvc

  Show description for 456fc6d
  afgane

  authored
  456fc6d

• Automatic Version Bumping from 5.9.0 to 5.10.0

  actions-user

  committed
  c36336d

• Add plotly tools to allow list

  afgane

  committed
  e81042c

Commits on Apr 17, 2024

• Add checkout set to the tag-and-release step.

  ksuderman

  committed
  dfceb29

• Update .github/workflows/packaging.yml

  Show description for 7236270
  

  ksuderman

  and

  nuwang

  authored
  7236270

• Update all checkout actions to v4

  ksuderman

  committed
  576807e

• Merge pull request galaxyproject#463 from ksuderman/482-release-notes

  Show description for 8b4631d
  nuwang

  authored
  8b4631d

• Merge pull request galaxyproject#458 from ksuderman/document-separators

  Show description for 9f45b8c
  nuwang

  authored
  9f45b8c

• Automatic Version Bumping from 5.10.0 to 5.10.1

  actions-user

  committed
  60a4ecc

• Merge pull request galaxyproject#460 from galaxyproject/encouraging-scallop

  Show description for 050af87
  nuwang

  authored
  050af87

• Automatic Version Bumping from 5.10.1 to 5.11.0

  actions-user

  committed
  ba6afdd

• Set user.name and user.email for the GitHub bot

  ksuderman

  committed
  9df267e

Commits on Apr 18, 2024

• Merge branch 'master' into 408-maintenance

  ksuderman

  authored
  a7c1aed

• Add newline to the end of the file.

  ksuderman

  committed
  14f190d

• Merge pull request galaxyproject#466 from ksuderman/465-bot-email

  Show description for 87cfd68
  nuwang

  authored
  87cfd68

• Merge pull request galaxyproject#448 from ksuderman/408-maintenance

  Show description for 72f95ad
  nuwang

  authored
  72f95ad

• Automatic Version Bumping from 5.11.0 to 5.12.0

  actions-user

  committed
  2e32eac

• Add enabled flag to the actions

  ksuderman

  committed
  7e61ac1

Commits on Apr 19, 2024

• Update galaxy/templates/cronjob-maintenance.yaml

  Show description for bbdbdb9
  

  ksuderman

  and

  nuwang

  authored
  bbdbdb9

Commits on Apr 20, 2024

• Merge pull request galaxyproject#468 from ksuderman/408-maintenance-enable

  Show description for eedf472
  nuwang

  authored
  eedf472

Commits on Apr 21, 2024

• Update README.md

  

  nuwang

  authored and

  ksuderman

  committed
  68be5df

Commits on Apr 23, 2024

• Document enabled flag for cron jobs

  ksuderman

  committed
  17e8292

• Persist credentials and set GH_TOKEN for the GitHub command line tool

  ksuderman

  committed
  7fe918b

Commits on Apr 24, 2024

• Merge pull request galaxyproject#470 from ksuderman/462-release-notes

  Show description for 38f62a8
  nuwang

  authored
  38f62a8

• Automatic Version Bumping from 5.12.0 to 5.12.1

  actions-user

  committed
  c16ea12

• Merge pull request galaxyproject#469 from ksuderman/408-readme

  Show description for 2c3aeaf
  nuwang

  authored
  2c3aeaf

• Automatic Version Bumping from 5.12.1 to 5.13.0

  actions-user

  committed
  d918841

Commits on Apr 26, 2024

• Ensure tag-and-release checks out the latest commits make by the helm-ci action.

  ksuderman

  committed
  431c683

• Merge pull request galaxyproject#473 from ksuderman/472-checkout-latest

  Show description for fdc086f
  nuwang

  authored
  fdc086f

Commits on May 7, 2024

• Updating AnVIL branch to latest Galaxy Helm

  ksuderman

  committed
  4f7ef31