Feature planning

[mmzdouc]

Add

• Offer repository overview table as csv-download
• Popup-visualization of SVGs of SMILES/SMARTS
• For substructure search, add a visualization of the matched substructure with the smilesviewer tool
• Title-generation of literature-references
• Add a card-based view to overview search results
• Extend API (e.g. for download of fasta files)
• Show repository statistics on a separate page
• In MITE entry dashboard, implement a Cytoscape-visualization of a pairwise BLAST of all entries to show similarities with other MITE entries
• Implement cross-links to PhyloNAP once available online and via Bioregistry
• Implement entry preview available during submission (allowing to change or continue)
• Implement validation tests
• Add explicit proton validation for reaction SMARTS
• Add explicit proton description to troubleshooting
• Implement Rhea and MIBiG checks via websocket or related -> moved to mite_data's validation functions
• mite_social to create posts on bluesky for every new entry in a release (possibly as github action for mite_data)
• Interactive TMAP of DRFP to allow people to explore similar entries
• Add a "lock" file for currently submitted proteins to compare against (prevent duplicates)
• Add a file lock for github submission (in case two people create two PRs at once)
• Add BGC Viewer to provide spacial context (for MIBiG-connected entries, ideally with links to other MITE entries, or adding another track that
• Add a page with SMILES of common noncanonical AAs (see paras) for convenience

Change

• Change framework to FastAPI
• Establish a CI/CD pipeline with building of Docker-image
• Move to Kubernetes
• Implement a database for more sophisticated searches; rework the overview page for search; move to vanilla bootstrap tables to allow download of selection only
• On data submission/review, add a dot to changelog if not already present.
• Expand documentation/tutorial, move to a separate page (e.g. mkdocs/githubpages)
• Replace hover tooltips with clickable ones (likely using popper)
• On submission overview page, sort tables

Documentation

• Add note on MITE accession ID reservation (cross-referencing Reservation of MITE Accessions IDs mite_data#132)

[mmzdouc]

• Implement try/except on review/preview page routes to prevent 500 errors
• Add functionality to find entries/reactions matching a specific input substrate ("key-lock")