Upload app/main.py with huggingface_hub

Upload app/routers/audit.py with huggingface_hub

Upload app/services/audit_engine.py with huggingface_hub

Upload app/tools/sequencing.py with huggingface_hub

Upload app/main.py with huggingface_hub

Upload app/tools/sequencing.py with huggingface_hub

Upload app/routers/docking.py with huggingface_hub

Upload app/routers/sequencing.py with huggingface_hub

Upload app/deps.py with huggingface_hub

Fix pipeline stuck: synthetic FASTQ fallback and demo mode

Download minimap2 at runtime if not found

Add sequencing pipeline (FASTQ -> QC -> alignment -> variant calling -> report)

Upload folder using huggingface_hub

Upload folder using huggingface_hub

Upload folder using huggingface_hub

fix: use valid EBI email (bionexus@example.com)

fix: add missing pipeline_v2.py

fix: remove PhyML source build, graceful missing-binary error

feat: add phylo router (NJ/UPGMA/ML), local PhyML binary

fix: Foldseek alignments are [dict] lists, parse target format

fix: debug alignment structure types

fix: debug Foldseek result structure

fix: Foldseek alignments are dicts, parse with .get() correctly

fix: debug Foldseek alignment format (list vs dict)

fix: add full traceback to Foldseek error

fix: use aiohttp for Foldseek multipart upload

fix: debug Foldseek submit response type

fix: use sync httpx in thread pool for Foldseek submit

fix: restore nested alignments loop, remove debug raw

fix: return raw Foldseek data for debugging

fix: Foldseek returns list directly, no alignments sub-key

fix: move fetch inside httpx async with block

fix: manual multipart for Foldseek, add secrets import

fix: use sync httpx.Client for Foldseek multipart upload

fix: add error detail to Foldseek, use bytes, longer timeout

fix: simplify Foldseek, send full PDB as bytes

fix: primer3 error handling, STRING scores 0-1, Foldseek replace PDBeFold

fix: handle null name in InterPro domain response

Add domains, interactions, primers, structure_analysis routers

Upload folder using huggingface_hub

Upload folder using huggingface_hub

Upload folder using huggingface_hub

Upload folder using huggingface_hub

Upload folder using huggingface_hub

Upload folder using huggingface_hub

Upload folder using huggingface_hub

Upload folder using huggingface_hub

Upload folder using huggingface_hub

Upload folder using huggingface_hub

Update backend