Developer Release Notes - version 24.05

This is a developer facing release info - list of all merge requests related to this release for the projects relevant for the platform. See user facing changelog here

Development

Galaxy Tools, v24.05.0

• Added IMAGINE-X tools (thanks to Robert Smith).
• Move amira to path based url and output file bugfix (thanks to Andrew Ayres)
• Move Jana to path-based url and output bug fix (thanks to Andrew Ayres)
• Add trame sans tool (thanks to Sergey Yakubov)
• Run paraview server instead of visualizer (thanks to Sergey Yakubov)
• Switch neutrons_reduce120 to path-based url (thanks to Sergey Yakubov)
• Add interactivetool_topaz_reduce tool (thanks to Sergey Yakubov)
• Update generic jupyter notebook to use path based url (thanks to Sergey Yakubov)
• Make topaz reduction accept files and collections (thanks to Sergey Yakubov)

Galaxy, v23.2.dev1.ornl

• Fix bug when only one of stderr or stdout is present (thanks to Sergey Yakubov). Merge Request 80
• Add new upload dialog with directory upload and without rules/composite tabs (thanks to Gregory Cage). Merge Request 79
• Update galaxy to 23.2 (thanks to Sergey Yakubov). Merge Request 75
• Fix intermittent doubling of stdout and stderr in job info view (thanks to Gregory Cage). Merge Request 77
• Add job console output endpoint and update job schema (thanks to Gregory Cage). Merge Request 76
• Cherry-pick interactive tool updates from upstream galaxy (thanks to Gregory Cage). Merge Request 70

Pulsar, 0.15.6.dev1.ornl

• Try to fix ci. (thanks to Sergey Yakubov). Merge Request 44
• Update Pulsar version (thanks to Sergey Yakubov). Merge Request 43
• Update stateful manager to keep track of all stdout threads (thanks to Gregory Cage). Merge Request 42
• Use deep update for objectstore config file (thanks to Sergey Yakubov). Merge Request 41
• Fix race condition with stdout update thread (thanks to Gregory Cage). Merge Request 40
• Remove sync_cache call (thanks to Sergey Yakubov). Merge Request 39
• Sync with upstream Pulsar. (thanks to Sergey Yakubov). Merge Request 38

OIDC PAM module, v0.3.0

• Update ubuntu (thanks to Sergey Yakubov). Merge Request 10
• Cleanup and prepare for osti (thanks to Sergey Yakubov). Merge Request 9

Deployment

Calvera, v24.05.0

• Update oidc version (thanks to Sergey Yakubov). Merge Request 172
• Bump versions (thanks to Sergey Yakubov). Merge Request 171
• Adding new cert and key (thanks to Cody Stiner). Merge Request 170
• Switched imagine x image tools to dev (thanks to Sergey Yakubov). Merge Request 162
• Added imagine-x peak finding tool (thanks to Sergey Yakubov). Merge Request 161
• Moved imagine x tools out of dev folder (thanks to Sergey Yakubov). Merge Request 160
• Add run_reports app as part of ci/cd (thanks to Sergey Yakubov). Merge Request 157
• Added imagine-x image converter tool (thanks to Robert Smith). Merge Request 158
• Add sunny tool for gravitas (thanks to Andrew Ayres). Merge Request 156
• Add trame sans tool (thanks to Sergey Yakubov). Merge Request 155
• Update calvera for frontier (thanks to Sergey Yakubov). Merge Request 154
• Updating documentation for calvera certificates (thanks to Cody Stiner). Merge Request 153
• Update calvera cert (thanks to Cody Stiner). Merge Request 152
• Update config for new galaxy/pulsar (thanks to Sergey Yakubov). Merge Request 151
• Fix interactive tool proxy config (thanks to Gregory Cage). Merge Request 150
• Configure destination(s) for "add directory tool" (thanks to Sergey Yakubov). Merge Request 149
• Change kibana/elastics urls (thanks to Sergey Yakubov). Merge Request 148
• Add topaz trame tool (thanks to Sergey Yakubov). Merge Request 147
• Fix interactive tool dest (thanks to Sergey Yakubov). Merge Request 146
• Update job_conf.yml.j2 to add asrp job destinations (thanks to Jenna DeLozier). Merge Request 145
• Update db cleanup (thanks to Sergey Yakubov). Merge Request 144
• Update interactivetool_generic_output tool directory (thanks to Sergey Yakubov). Merge Request 143

Pulsar on Cades, v24.05.0

• Instal correct packages to galaxy env (thanks to Sergey Yakubov). Merge Request 47
• Dev (thanks to Sergey Yakubov). Merge Request 44
• Update pulsar and galaxy versions (thanks to Sergey Yakubov). Merge Request 43
• Use separate galaxy for test and dev (thanks to Sergey Yakubov). Merge Request 42
• Update config for new galaxy/pulsar (thanks to Sergey Yakubov). Merge Request 41
• Update elasticsearch url (thanks to Sergey Yakubov). Merge Request 40
• Add sns node (thanks to Sergey Yakubov). Merge Request 38
• Add logging to production pulsar (thanks to Sergey Yakubov). Merge Request 36

Pulsar on Slate, v24.05.0

• Update marble config for frontier (thanks to Sergey Yakubov). Merge Request 13
• Update pulsar and config for the latest version (thanks to Sergey Yakubov). Merge Request 12

info

see previous changelog here