Merge branch 'main' into dev

Initial demo testing (#4)

demo starts , needs debugging on huggingface spaces

demo starts , needs debugging on huggingface spaces

demo launches

Add architecture section to README

Merge pull request #1 from Josephrp/feature/iterative-deep-research-workflows

ruff format check solution

ruff format check solution

adds local embeddings and huggingface inference as defaults , adds tests , improves precommit and ci

trigger workflows

Merge branch 'feature/iterative-deep-research-workflows' of https://github.com/Josephrp/DeepCritical-HFSpace into feature/iterative-deep-research-workflows

adds tests , integration tests , github readme , and more!

Update tests/integration/test_research_flows.py

Update tests/unit/agent_factory/test_graph_builder.py

adds the initial iterative and deep research workflows

Merge branch 'feature/iterative-deep-research-workflows' of https://github.com/Josephrp/DeepCritical-HFSpace into feature/iterative-deep-research-workflows

adds the initial iterative and deep research workflows

Merge branch 'dev' into feature/iterative-deep-research-workflows

fix: skip Modal integration tests when package not installed

style: auto-format 4 files (ruff)

chore: update model names in .env.example and tests

adds the initial iterative and deep research workflows

Merge pull request #1 from The-Obstacle-Is-The-Way/main

fix: add missing packages to requirements.txt for HuggingFace Spaces

fix: add limits package to requirements.txt for HuggingFace Spaces

feat: add hierarchical orchestration with web search (integrates PR #44) (#46)

feat: implement dual-mode architecture (Simple + Advanced) (#45)

Merge branch 'dev'

feat: implement async-safe rate limiting (Phase 17) (#40)

feat: add roadmap summary and detailed improvement plans for data sources

fix: address CodeRabbit feedback

fix: repair Gradio accordion bug and cleanup env vars

Merge pull request #38 from The-Obstacle-Is-The-Way/dev

fix: mock all agent creation in _build_workflow test

fix: address CodeRabbit feedback and CI failure

docs: update P1 bug report with actual Gradio accordion root cause

fix(magentic): defensive text extraction & cleanup biorxiv refs

docs: add TDD fix plan for Magentic mode report generation

docs: replace completed bug docs with new Magentic bug report

fix: update remaining bioRxiv references to Europe PMC in examples

fix: update references to Europe PMC in examples and documentation

refactor(tests): add type annotations and clean up test functions

fix(config): increase max iterations to 10

feat(search): implement ClinicalTrials.gov filtering (Phase 03)

feat(search): implement PubMed query preprocessing (Phase 02)

refactor(tools): replace BioRxiv with Europe PMC (Phase 01)

fix: exclude reference_repos from mypy and cleanup

refactor: enhance Gradio UI for improved user experience

fix: simplify Gradio UI to fit single viewport