Ecosyste.ms: Timeline
Browse the timeline of events for every public repo on GitHub. Data updated hourly from GH Archive.
pkalita-lbl closed a pull request on microbiomedata/nmdc-server
update UI text
closes https://github.com/microbiomedata/nmdc-server/issues/1334 Updates this text 
pkalita-lbl closed an issue on microbiomedata/nmdc-server
add guidance for study description (no links)
I can't remember if (no links) meant there wasn't a link... or we should remove the link.. But there is a link. Do we have any written guidance or documentation on what a study description should...
pkalita-lbl pushed 7 commits to main microbiomedata/nmdc-server
- update some descriptions on the UI 4cd16c9
- Update web/src/definitions.ts Co-authored-by: Patrick Kalita <[email protected]> be4d419
- Update web/src/definitions.ts spelling is hard. Co-authored-by: Patrick Kalita <[email protected]> edabe5c
- Update web/src/definitions.ts Co-authored-by: Patrick Kalita <[email protected]> 12efb74
- Update web/src/definitions.ts Co-authored-by: Patrick Kalita <[email protected]> 27b8498
- Merge branch 'main' into issues#223_Update_UI_descriptions dbac8e9
- Merge pull request #1528 from microbiomedata/issues#223_Update_UI_descriptions update some descriptions on the UI db933c5
pkalita-lbl pushed 19 commits to 1334-submission-portal--text-change-environmental-extension microbiomedata/nmdc-server
- Add additional environment variables to example 919d61e
- Mount local directory to /data/ingest for ingest development dcd6fad
- Refresh development docs including more details on tunnel configuration and running ingest 11f4815
- Add scratch notes from run-through with new developer c791568
- Refine statement f98dd17
- Refine another statement 97fb202
- Merge pull request #1438 from microbiomedata/temp-notes-about-refresh-development-docs Incorporate feedback from run... 4b0504c
- Add details on how to load DB without NERSC access 274a72c
- Apply suggestions from code review Co-authored-by: eecavanna <[email protected]> 08dff34
- Apply suggestions from code review Co-authored-by: eecavanna <[email protected]> 277e6c3
- Format migration files c623f18
- Ignore formatting change in Git Blame 294c9ae
- Merge branch 'main' into refresh-development-docs ca4f8e8
- Add note about using general data_reader Mongo account 08e1a9d
- Add note about ingest CLI --help flag b596335
- Merge pull request #1532 from microbiomedata/1531-format-migration-files Format migration files f5d2556
- Merge branch 'main' into refresh-development-docs 9778cb2
- Merge pull request #1441 from microbiomedata/refresh-development-docs Refresh development docs 677cd54
- Merge branch 'main' into 1334-submission-portal--text-change-environmental-extension 71b2316
pkalita-lbl pushed 19 commits to issues#223_Update_UI_descriptions microbiomedata/nmdc-server
- Add additional environment variables to example 919d61e
- Mount local directory to /data/ingest for ingest development dcd6fad
- Refresh development docs including more details on tunnel configuration and running ingest 11f4815
- Add scratch notes from run-through with new developer c791568
- Refine statement f98dd17
- Refine another statement 97fb202
- Merge pull request #1438 from microbiomedata/temp-notes-about-refresh-development-docs Incorporate feedback from run... 4b0504c
- Add details on how to load DB without NERSC access 274a72c
- Apply suggestions from code review Co-authored-by: eecavanna <[email protected]> 08dff34
- Apply suggestions from code review Co-authored-by: eecavanna <[email protected]> 277e6c3
- Format migration files c623f18
- Ignore formatting change in Git Blame 294c9ae
- Merge branch 'main' into refresh-development-docs ca4f8e8
- Add note about using general data_reader Mongo account 08e1a9d
- Add note about ingest CLI --help flag b596335
- Merge pull request #1532 from microbiomedata/1531-format-migration-files Format migration files f5d2556
- Merge branch 'main' into refresh-development-docs 9778cb2
- Merge pull request #1441 from microbiomedata/refresh-development-docs Refresh development docs 677cd54
- Merge branch 'main' into issues#223_Update_UI_descriptions dbac8e9
pkalita-lbl pushed 23 commits to issue-1383-metadata-suggestion-ui microbiomedata/nmdc-server
- Add additional environment variables to example 919d61e
- Mount local directory to /data/ingest for ingest development dcd6fad
- Refresh development docs including more details on tunnel configuration and running ingest 11f4815
- Add scratch notes from run-through with new developer c791568
- Refine statement f98dd17
- Refine another statement 97fb202
- Merge pull request #1438 from microbiomedata/temp-notes-about-refresh-development-docs Incorporate feedback from run... 4b0504c
- Add details on how to load DB without NERSC access 274a72c
- Apply suggestions from code review Co-authored-by: eecavanna <[email protected]> 08dff34
- Apply suggestions from code review Co-authored-by: eecavanna <[email protected]> 277e6c3
- Add title to find & replace sidebar tab content b380298
- Add title to import & export sidebar tab content 214908a
- Normalize spacing in ContactCard 08cdc71
- Normalize spacing in ColumnHelp 029d3f9
- Format migration files c623f18
- Ignore formatting change in Git Blame 294c9ae
- Merge branch 'main' into refresh-development-docs ca4f8e8
- Add note about using general data_reader Mongo account 08e1a9d
- Add note about ingest CLI --help flag b596335
- Merge pull request #1532 from microbiomedata/1531-format-migration-files Format migration files f5d2556
- and 3 more ...
pkalita-lbl pushed 15 commits to main microbiomedata/nmdc-server
- Add additional environment variables to example 919d61e
- Mount local directory to /data/ingest for ingest development dcd6fad
- Refresh development docs including more details on tunnel configuration and running ingest 11f4815
- Add scratch notes from run-through with new developer c791568
- Refine statement f98dd17
- Refine another statement 97fb202
- Merge pull request #1438 from microbiomedata/temp-notes-about-refresh-development-docs Incorporate feedback from run... 4b0504c
- Add details on how to load DB without NERSC access 274a72c
- Apply suggestions from code review Co-authored-by: eecavanna <[email protected]> 08dff34
- Apply suggestions from code review Co-authored-by: eecavanna <[email protected]> 277e6c3
- Merge branch 'main' into refresh-development-docs ca4f8e8
- Add note about using general data_reader Mongo account 08e1a9d
- Add note about ingest CLI --help flag b596335
- Merge branch 'main' into refresh-development-docs 9778cb2
- Merge pull request #1441 from microbiomedata/refresh-development-docs Refresh development docs 677cd54
pkalita-lbl closed a pull request on microbiomedata/nmdc-server
Refresh development docs
### Summary These changes are intended to fill in a few holes in the development docs and to adjust the Docker Compose configuration to better support local ingest development. ### Details ...
pkalita-lbl pushed 4 commits to refresh-development-docs microbiomedata/nmdc-server
pkalita-lbl pushed 227 commits to refresh-development-docs microbiomedata/nmdc-server
- Make submission portal login prompt be more prominent d7a019e
- Add patch for login prompt d2f008b
- Add updated log in prompt 287a56e
- Merge main f80c64c
- Add new MIxS report API endpoint to api.py, add corresponding query to crud.py 8ac6047
- Add alert button log in functionality and style c8604fd
- Pull all sample names from submission data a5ead95
- Retrieve environmental broad, local, medium, and pacakge attributes f346260
- Remove href, handled by @ click now d992309
- Merge pull request #1188 from microbiomedata/1187-update-submission-portal-landing-page-to-emphasize-the-need-to-logi... 24752b2
- Reformat table when parsing values, strip unnecessary characters, clean up function a87d1ee
- WIP generalize gene function search 2db8f35
- Add COG and PFAM facets to sidebar Does not include generating actual menu content for these things yet. c938dc0
- WIP Use separate tables for cog and pfam terms 2149ce8
- Create migration for new gene function tables 02e8920
- Update down revision of migration bf94a4c
- Fix ingesting gene functions to use same file twice f25bf77
- Transform COG and PFAM search filters to queries Modeled after existing logic for KEGG filters. Accepts pathways, fu... 93a0967
- WIP make FilterKegg component generic db069fa
- Add endpoints for cog/pfam text search 96a76bd
- and 207 more ...
pkalita-lbl created a review comment on a pull request on microbiomedata/nmdc-server
If you want to link the "MIxS Extension" part it would look like this. The line breaks make it look a little funky, but that's what the code format-checker insists on. ```suggestion Choos...
pkalita-lbl pushed 1 commit to feat-nmdc-schema-python-dependency microbiomedata/submission-schema
- Upgrade actions/upload-pages-artifact c52c812
pkalita-lbl pushed 17 commits to feat-nmdc-schema-python-dependency microbiomedata/submission-schema
- fix deploy-docs GHA workflow and add workflow for docs preview c3f6435
- add sorting functionality to HTML tables in web docs de21d0b
- bump up support for latest mermaid in mkdocs f0b1c32
- update poetry.lock file 02170f3
- TSVs which result in enums 8966123
- Merge pull request #296 from microbiomedata/docs-devops-maintenance Documentation and DevOps housekeeping d1d73f4
- Exclude Plant env_local_scale when CJM voted -1 10e4f8a
- poetry.lock wihtout gspread 84bb92f
- regen poetry.lock 49d1dc4
- Merge branch 'main' into 298-generate-enumerations-from-turbomams-most-recent-votes 6bbfb5b
- reverting poetry.lock and pyproject.toml form main 43ab320
- Merge pull request #301 from microbiomedata/298-generate-enumerations-from-turbomams-most-recent-votes @turbomam's v... 30983d3
- new EnvMedium enums bound to any_of.ranges 3c32f9d
- all env triad enums bound to slots 37e9b32
- Merge pull request #304 from microbiomedata/303-ensure-that-new-environmental-contexttriad-value-set-enumerations-are... 5869cd2
- Upgrade to nmdc-schema v11.4.0rc1 4d9f18a
- Merge branch 'main' into feat-nmdc-schema-python-dependency 3b30eda
pkalita-lbl published a release on microbiomedata/nmdc-schema
v11.4.0rc1
## What's Changed * Chemical entity deprecation, adding enumeration for limited set of chemicals needed (at the moment) in submissions by @sierra-moxon in https://github.com/microbiomedata/nmdc-sc...
pkalita-lbl published a release on microbiomedata/nmdc-schema
v11.4.0rc1
## What's Changed * Chemical entity deprecation, adding enumeration for limited set of chemicals needed (at the moment) in submissions by @sierra-moxon in https://github.com/microbiomedata/nmdc-sc...
pkalita-lbl created a tag on microbiomedata/nmdc-schema
v11.4.0rc1 - National Microbiome Data Collaborative (NMDC) unified data model
pkalita-lbl published a release on geneontology/gocam-py
v0.2.2
## What's Changed * Use new legend graphic in CX2 description by @pkalita-lbl in https://github.com/geneontology/gocam-py/pull/48 **Full Changelog**: https://github.com/geneontology/gocam-py/...
pkalita-lbl pushed 2 commits to main geneontology/gocam-py
pkalita-lbl closed a pull request on geneontology/gocam-py
Use new legend graphic in CX2 description
This should have been part of #47. Whoops!
pkalita-lbl opened a draft pull request on geneontology/gocam-py
Use new legend graphic in CX2 description
This should have been part of #47. Whoops!
pkalita-lbl created a branch on geneontology/gocam-py
fix-update-cx2-legend-graphic - Draft data model for GO-CAMs
pkalita-lbl published a release on geneontology/gocam-py
v0.2.1
## What's Changed * Fix broken PMID links in CX2 output by @pkalita-lbl in https://github.com/geneontology/gocam-py/pull/45 * Sync CX2 styles with widget by @pkalita-lbl in https://github.com/gen...