| A | B | D | E | F | G | H | I | J | K | L | M | N | O | P | Q | R | S | T | U | V | W | X | Y | Z | AA | AB | AC | AD | AE | AF | ||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
1 | xs | Legend: completed = complete; blocked = can not make deadline, other issues causing delays; in progress = working towards deadline; blank = you have not taken a look; n/a = task is not relevant for my group | ||||||||||||||||||||||||||||||
2 | Yes | |||||||||||||||||||||||||||||||
3 | Blocked | |||||||||||||||||||||||||||||||
4 | N/A | |||||||||||||||||||||||||||||||
5 | Responsible Individuals 👉 | David / Eric | Jackson | Sui | Abrar | Will | Casey | Chase | Kara | Gaurav | Marc | Vlado / Larry | Gwênlyn | Chunlei | Stephen / Eric | Bill | Bill | Evan | Will | Sergio | Tim | Mark | Abrar | Andy | ||||||||
6 | Task ID | SEPTEMBER RELEASE PUSH TASKS | Translator Component | Depend | Due Date | Status | GitHub (GH) Issue or project | Comments (start new comments with the date comment entered) | Expander Agent | Exploring Agent | imProve Agent | Ranking Agent | Unsecret Agent | Clinical Data Service Provider | Connection Hypothesis Provider | Exposures (ICEES KG) Provider | Exposures (CAM) Provider | Genetics | MolePro | Multiomics / Service | Service | RTX-KG2 | Text Mining / Service | Text Mining Cooccurrence | Automat | MediKanren graph | SPOKE | SRI | ARS | Workflow Runner | UI | |
17 | SRI.3 | Update Wiki pages for all Translator-internal sources in the Infores dictionary, with templated information included: Infores catalog updates: fix hyperlinks | SRI | 6/30/2023 | 80% | Github Issue | Completed | |||||||||||||||||||||||||
18 | UI.2 | Reconcile sources and publications tabs on the UI | UI | 6/30/2023 | link | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | |||||
24 | ARS.2 | Start Weekly Run & Reporting of ARS Performance Tests (Performance tests) | ARS | 7/6/2023 | In Progress | Issue 195 JSON File for Load Test | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | ||||
26 | O&O.1 | Provide an update on Molecular Similarity | O&O | 7/11/2023 | JonMichael to provide an update Jul 11 | |||||||||||||||||||||||||||
28 | TCDC.9 | TCDC To Test SRI Answer Appraiser | TCDC | 8/16/2023 | Almost Done | |||||||||||||||||||||||||||
29 | TCDC.11 | SME-guided manual testing - Path A and B | TCDC, CQS | Post Code Freeze | Path A Path B | |||||||||||||||||||||||||||
30 | TCDC.12 | Benchmark-guided automated testing - Path A and B | TCDC, CQS | Post Code Freeze | Path A Path B | |||||||||||||||||||||||||||
32 | BL.5 | Check that the fully semantically valid biolink 3.5.0 + TRAPI 1.4.0 validation is passing | Biolink | 7/14/2023 | in progress | Issue | this is more of an implementation issue for KPs/ARAs than Biolink, but Biolink devs are monitoring for any updates needed to support validation. | |||||||||||||||||||||||||
39 | ARS.6 | Create Answer Assessor Container - Evidence (scoring) | SRI | dependent on Rosina's code, Drug Conflator in Node Norm. ITRB resources | 7/14/2023 | In progress | Test/Prod | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | |||
40 | Annotator.2 | Add additional Identifier support for Gene, Protein, Chemical, Drug, Disease, Phenotype node types | Annotator Service | 7/15/2023 | Github project | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | |||||
41 | Annotator.3 | Work with Mark for the annotation step happening at ARS (improve error-handling, error-reporting for the invalid input IDs, etc) | Annotator Service | 7/15/2023 | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | ||||||
43 | TCDC.17 | Hand-off to Jason for Path A and B | TCDC | Post Code Freeze | Path A Path B | |||||||||||||||||||||||||||
44 | ARS.3 | Create an ARS Customization for Performance Dashboard (Performance tests) | ARS | 7/31/2023 | In progress | Issue 194 | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | ||||
45 | Annotator.4 | Various improvements to the MyChem.info API which provides the drug/chemical annotations for the Annotator Service: Add drug description (via PubChem and corresponding ontologies | Annotator Service | 7/31/2023 | Issue 159 | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | |||||
46 | Annotator.5 | Various improvements to the MyChem.info API which provides the drug/chemical annotations for the Annotator Service: Add drug description (via PubChem and corresponding ontologies: Fix Pharmacal classes annotation from NDC | Annotator Service | 7/31/2023 | Issue 161 | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | |||||
47 | Annotator.6 | Various improvements to the MyChem.info API which provides the drug/chemical annotations for the Annotator Service: Add drug description (via PubChem and corresponding ontologies: Fix whitespaces in drugbank.synonyms field | Annotator Service | 7/31/2023 | Issue 160 | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | |||||
49 | UI.17 | Graph Display v2.0: Scroll/Zoom interaction improvements Zoom sensitivity adjustment Layout name adjustment Initial node position improvements "Show all" option for paths | UI | 7/31/2023 | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | ||||||
50 | UI.3 | user logins, save results, save preferences in PROD | UI | 7/31/2023 | [UI project board?] | link to GitHub project with lots of info/links for clear visual representation | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | ||||
51 | UI.5 | Demo-only pages for MVP1 GARD Diseases | UI | 7/31/2023 | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | ||||||
52 | UI.7 | Landing Page (v2.0?) | UI | 7/31/2023 | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | ||||||
53 | Block List.1 | Remove embarrassing result cleanup / autocomplete fixes / generic results (as overall answer node) | ARS, UI | dependent on information content in Node Norm and implementing identifier space restriictions | 7/31/2023 | Github project | ||||||||||||||||||||||||||
55 | SRI | Uptime Monitoring in place | SRI | 7/31/2023 | In Progress | Github Issue | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | In Progress | n/a | n/a | n/a | |||
56 | UI | reordering based on novelty (e.g. a checkbox) - dependent on O&O timelines | UI | 7/31/2023 | ||||||||||||||||||||||||||||
57 | "opposite of what I asked for" resolved | TAQA | 7/31/2023 | "opposite of what i asked" project | ||||||||||||||||||||||||||||
58 | Architecture | return lookup with creative mode | Architecture | 7/31/2023 | Feedback Issue #281 Arch PR #88 | |||||||||||||||||||||||||||
59 | Annotator.7 | Add ontology term annotations into Annotator Service (requested from the UI team): Integrate ontologies exists from Service Provider APIs (CHEBI, DO, MONDO, HPO etc) | Annotator Service | 7/31/2023 | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | ||||||
60 | Annotator.8 | Add ontology term annotations into Annotator Service (requested from the UI team) Add new ontologies relevant to the UI (e.g. NCIT). Should be pretty straightforward to add a new ontology as part of the Service Provider APIs. | Annotator Service | 7/31/2023 | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | ||||||
61 | O&O.8 | Normalize/conflation, create endpoint, update to TRAPI 1.4 (5 different steps were named in TCDC meeting). Planning end of July for CQS for MVP 1. | O&O | 7/31/2023 | ||||||||||||||||||||||||||||
64 | BL.7 | Biolink 3.5.1 compliant - if you are importing from SEMMED DB you will need the EXCLUDE list. **this is the only change from 3.5.0 | SemmedDB WG | 8/15/2023 | SEMMED project board | |||||||||||||||||||||||||||
65 | TAQA | PMID threshold implemented for SEMMEDDB/results: RTX-KG2, BTE, TMKP (Andrew S, Stephen R, Bill B(Optional)) | SemmedDB WG | 8/18/2023 | In Progress | https://github.com/NCATSTranslator/Feedback/issues/100 | ||||||||||||||||||||||||||
66 | Code in TEST | ARS | 8/18/2023 | |||||||||||||||||||||||||||||
67 | TESTING and BUG FIXES to be done by the end of Milestone. | ARS | 8/31/2023 | |||||||||||||||||||||||||||||
68 | subclass of via auxiliary graph | 9/30/2023 | TBD after Sept | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | ||||||
69 | UI.8 | Download v1.0 | UI | 9/30/2023 | TBD later | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | |||||
70 | BL.8 | Make a decision on working towards a representation of "knockout" qualifiers (small group: Sierra, Brett, Marc, Sui, Matt, Sergio) - no issues yet | Biolink | 9/30/2023 | in progress | after September | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | ||||||
71 | UI.10 | Autocomplete v3.0 - Dependent on Name Resolver Updates Implementation of certain prefixes for particular query types (just mondos for disease search, for example. Working on implementing prefixes for the other query types here) | UI | Name resolver | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | ||||||
72 | UI.11 | FAQ v1.0 | UI | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | |||||||
73 | UI.12 | EPC Tools v2.0: Dependent on Attribute Server | UI | attribute server | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | ||||||
74 | UI.13 | EPC Tools v2.0: Related to "Save results details via account" | UI | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | |||||||
75 | UI.14 | EPC Tools v2.0: Allow users to save publications for later viewing | UI | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | |||||||
76 | UI.15 | Graph Tools v2.0: User selectable color modes (different color sets based on node type) | UI | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | |||||||
77 | UI.16 | Graph Tools v2.0: Dependent on Knowledge Type implementation - ARA method selection | UI | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | |||||||
78 | UI.22 | f score Display - dependent on f score implementation | UI | ARS | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | ||||||
79 | UI.9 | Autocomplete v3.0 - Dependent on Name Resolver Updates Improved response time thanks to only having to call the name resolver (as opposed to NR -> NN) | UI | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | |||||||
81 | TCDC.19 | Implement scoring metric for Path A and B | TCDC | Post Code Freeze | In Progress | Path A Path B | ||||||||||||||||||||||||||
82 | TCDC. 20 | Test New Deployment of CQS | TCDC | Post Code Freeze | ||||||||||||||||||||||||||||
83 | Annotator.9 | Work with the UI team for the annotation integration in the UI directly. Most of the TRAPI node annotations will be done at ARS and pass to UI directly, but UI might still need to make some on-the-fly calls to the Annotator Service to render the node detail view, some dropdown lists, auto-completion etc | Annotator Service | Ongoing with UI team | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | ||||||
85 | ARS.4 | Make Timeout: 5 min timeout for async (Performance) | ARS | PR 429 | In CI | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | |||||
86 | ARS.8 | Deployment of ARS with Scoring in TEST Environment | ARS | |||||||||||||||||||||||||||||
87 | ARS.9 | Begin testing of ARS with Scoring in TEST Environment | ARS | |||||||||||||||||||||||||||||
88 | Annotator.10 | Annotator response improvements: ongoing with the ARS and UI teams: Normalize drug approval values. Currently we have multiple sources for drug approval (e.g. Chembl, drugcentral, ndc etc), we will consolidate multiple annotation sources to have a more robust approval annotations like `max_phase` returned from the Annotator. | Annotator Service | issue 369 | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | ||||||
89 | Annotator.11 | Annotator response improvements: ongoing with the ARS and UI teams: Normalizing IDs in the response to be valid CURIE | Annotator Service | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | |||||||
90 | Search Query: Block searching these hierarchies for MVP1 - Gender Identity, sexual and gender identity disorders | Block List | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | n/a | |||||||||
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