fix(blast): honor program/db/max_hits params, accept DNA queries, poll cap 65 min

perf: parallelize post-BLAST steps + fast_mode Swiss-Prot toggle

feat: live pipeline status progression — worker pushes status to Supabase at each step

fix: correct column name 'results' -> 'result' in PATCH payload

fix: rebind httpx.AsyncClient when event loop changes

fix: pipeline robustness — UniProt hit fallback, sweep timeout, heartbeat

fix: BLAST sequence not read - store full sequence in query_preview, fix context_json fallback

fix: BLAST pipeline stuck in queue — 3 root causes

Phase 0c: offload large artifacts to Supabase Storage (docking, pipeline, sequencing)

Fix Settings attribute names: SUPABASE_URL, SUPABASE_SERVICE_ROLE_KEY

fix: Linux Vina binary, Open Babel PDBQT, pipeline_worker utcnow

fix: remove orphaned context = { line causing SyntaxError in deploy

feat: add query coverage, organism, and query accession to BLAST results

fix: handle NCBI UNKNOWN status and add pathway_enrichment to frontend status order

feat: add DNA sequence output across BLAST, UniProt, sequencing, primers, and SequenceRetrieval

feat: implement 8 tool bridges (F1-F8) + audit child components

Add Reactome diagrams, KEGG search, pathway enrichment (pipeline + standalone)

Security, crash fixes, demo prep, dead code removal

design.md + rules.md compliance: dark theme, teal palette, pulsing dot, Pydantic models, api.ts routing, config fixes, db/max_hits threading, Supabase migration 004

Add RefSeq->UniProt mapping step in pipeline + demo uniprot_accession

Add startup resume hook for stuck jobs + persist NCBI RID

fix: logger.exception instead of stderr, fail job on thread crash

fix: move first _set_step into try block + stderr fallback in run_pipeline_sync

fix: E-value underflow, AlphaFold step, steps_completed append, UniProt always runs

fix: remove current_step_label and error_message refs — columns missing from jobs table

Deploy prep: Render config + Dockerfile, refactored backend auth flow, dashboard, landing page, error states, guest flow

Core pipeline testability: progress callback, rate limiter 429, history table

Initial commit: Bio Nexus pipeline engine — BLAST + UniProt + AlphaFold + AI interpretation (Phase 1)