feat: PostgreSQL search, AutoBIDSify, Express API proxy, and 2D chart responsive fix by elainefan331 · Pull Request #129 · NeuroJSON/NeuroJSON_io · GitHub

Summary

Search — migration from CGI to PostgreSQL

Replaced CGI-based search with PostgreSQL queries backed by ioviews and iolinks tables
Added incremental sync script to populate search tables from CouchDB with transactions and concurrency
Added modality filter (AND/OR mode), file type filter, age-range slider, subject count range, task/session/run
keyword fields, and run count display on subject cards
Show matching files in dataset card
File download endpoints with Mac/Linux and Windows script options; three script formats on dataset detail page

Express backend API proxy

Routed all external API calls through Express server

AutoBIDSify

Added private mode autobidsify page with local AI provider support (Ollama / LM Studio / Jan) — configurable base URL and custom model name
Use qwen3.6:27b on the NeuroJSON Ollama server; added auth-gated endpoint
UI improvements: renamed buttons, tooltips, file tree section title, output panel status messages, timestamped
output folders

2D plot

Fixed chart overflowing on small screens — reads container width on render and resizes via ResizeObserver

Closes #125

refactor: port autobidsify pipeline to TypeScript, mirror Python file structure

…; refs #125

…ort restrictions; refs #125

…datasets

Improve 2D plot UX, external API routing, and state handling

…gres

…m CouchDB

…dge case guards

…ogging in dev

…controller

…essions, tasks, and runs)

…type

…le bar

…ey background

…output panel

feat: PostgreSQL-backed dataset search with filters, sync pipeline, and file download

…igurable URL

…update dialog title and description

…dropdown, updated labels, and GitHub links

…with custom model input

feat(autobidsify): add public private mode page, local AI support, and Ollama security

elainefan331 and others added 30 commits April 1, 2026 10:36

fix: increase token limit sent to LLM

d62e6d1

fix: resolve leaks in previewModal 3D viewer

843f0a2

fix: resolve memory leaks in 2D plot viewer

e54ea6f

[debug] print github action server IP

ecf15eb

feat: add executorHelpers and plannerHelpers

66f6e43

feat: reorganize the code for integrated autobidsify

edb2a8f

Merge pull request #124 from NeuroJSON/dev-fan

99be7a9

refactor: port autobidsify pipeline to TypeScript, mirror Python file structure

fix: support double-click to reset uPlot series on Mac

d7176a3

fix: strip markdown fences from BIDSPlan YAML string before saving

ad92d72

fix: expand external data path segments and add 2D plot interaction tips

072db3d

feat: show source path and index above 2D chart panel

2fffdb9

feat: add axis labels to 2D plot(Sample / a.u.

badf503

refactor: point baseURL to Express server and remove cors proxy logic…

7a303ed

…; refs #125

feat: map all external API calls through Express to bypass firewall p…

0f7fbff

…ort restrictions; refs #125

fix: clear stale document and revision state when navigating between …

c450eb4

…datasets

Merge pull request #126 from NeuroJSON/dev-fan

9fff3dc

Improve 2D plot UX, external API routing, and state handling

feat: add search tables migration and update db config for local post…

67cb50e

…gres

feat: add incremental sync script to populate ioviews and iolinks fro…

7432b35

…m CouchDB

feat: refactor incremental sync with transactions, concurrency, and e…

f686418

…dge case guards

feat: add ioviews unique constraint migration and disable sequelize l…

9d69223

…ogging in dev

feat: replace CGI search with PostgreSQL query in searchAllDatabases …

627e598

…controller

fix: widen ioviews and iolinks text columns to handle longer values

207c634

fix: make suggested databases refresh on Search click

4490af6

feat: modality-aware combobox for Data type filter

5966b09

feat(search): add draggable age-range slider at top of subject filters

d101e5c

feat(search): add placeholder hints to task/session/run keyword fields

88474cc

feat(search): pair min/max count fields on one row and tighten gaps(s…

b9be29f

…essions, tasks, and runs)

feat(search): show run count in subject card

df73e1c

feat(backend): add file type filter to search using iolinks table

44635bd

feat(search): add multi-select File types filter (dataset-level)

1b0aa65

elainefan331 added 29 commits May 13, 2026 16:31

fix(search): match dataset display name via json->>'name' ILIKE

bf1abe3

feat(search): add Mac/Linux and Windows script options to file download

6fce063

fix(dataset-detail): keep all downloaded files in one visible folder

8be3fa1

feat(dataset-detail): three script formats for download all files button

e21c661

feat(sync): pull database list from registry

909cd36

feat(search): add dataset-level modality filter with AND/OR mode

0cee8b6

feat(search): add tooltip to Subject-Level Filters explaining result …

601d90b

…type

fix(sync): reject malformed file extensions from CouchDB links view

5aab808

style(search): match dataset modality filter UI to file types field

f834a47

fix(search): resolve relative-path iolinks URLs for openneuro file links

faf548f

feat(bids-converter): add public BIDS Converter page and navbar link

3761e82

feat(bids-converter): add mode selection dialog and private/save togg…

11b77bd

…le bar

feat(dashboard): open Projects tab directly from BIDS Converter redirect

7dbb335

feat(bids-converter): add private mode visual indicator with slate gr…

71e5ffb

…ey background

feat(bids-converter): improve UI labels, tooltips, and private mode UX

d0537a4

feat(llm-panel): improve AI Assistant UI labels and UX

b023711

fix(llm-panel): clear bidsPlan on step 2 re-run so progress shows in …

cf2e445

…output panel

feat(llm-panel): UI polish for file tree and output panel

028ee23

feat(ollama): require authentication on Ollama proxy endpoints

60f51ad

feat(ollama): add public endpoint with 10 requests/day IP rate limit

68218d5

Merge pull request #127 from NeuroJSON/dev-fan

6171e7b

feat: PostgreSQL-backed dataset search with filters, sync pipeline, and file download

feat(llm-panel): add local Ollama provider for private mode with conf…

1aa509a

…igurable URL

feat(navbar): add AutoBIDSify dropdown with GitHub link and web app; …

72b6b97

…update dialog title and description

feat(autobidsify): rebrand BIDS Converter to AutoBIDSify with navbar …

f344482

…dropdown, updated labels, and GitHub links

feat(llm-panel): add local AI support for Ollama, LM Studio, and Jan …

a69ff4a

…with custom model input

feat(ollama): use qwen3.6:27b on server for LLM, hide model selector

1dfc255

fix(ollama): increase public endpoint rate limit to 20 requests/day

34d0260

fix(preview): make 2D chart responsive to container width

60cfdb0

Merge pull request #128 from NeuroJSON/dev-fan

ce7db75

feat(autobidsify): add public private mode page, local AI support, and Ollama security

elainefan331 merged commit 97afe93 into main Jun 1, 2026
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feat: PostgreSQL search, AutoBIDSify, Express API proxy, and 2D chart responsive fix by elainefan331 · Pull Request #129 · NeuroJSON/NeuroJSON_io · GitHub

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feat: PostgreSQL search, AutoBIDSify, Express API proxy, and 2D chart responsive fix - #129

feat: PostgreSQL search, AutoBIDSify, Express API proxy, and 2D chart responsive fix#129
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feat: PostgreSQL search, AutoBIDSify, Express API proxy, and 2D chart responsive fix by elainefan331 · Pull Request #129 · NeuroJSON/NeuroJSON_io · GitHub

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feat: PostgreSQL search, AutoBIDSify, Express API proxy, and 2D chart responsive fix - #129

feat: PostgreSQL search, AutoBIDSify, Express API proxy, and 2D chart responsive fix#129elainefan331 merged 65 commits intomainNeuroJSON/NeuroJSON_io:mainfrom stagingNeuroJSON/NeuroJSON_io:stagingCopy head branch name to clipboard

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elainefan331 commented Jun 1, 2026

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feat: PostgreSQL search, AutoBIDSify, Express API proxy, and 2D chart responsive fix#129
elainefan331 merged 65 commits into
mainfrom
staging