Date

20 Jun 2023

Call-in Information

Time: 10:00 am, Eastern Time (New York), 4pm Central European Summer Time

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Slack

• https://vivo-project.slack.com
  • Self-register at: http://bit.ly/vivo-slack
    

Attendees

 Indicating note-taker

1. Dragan Ivanovic
2. Georgy Litvinov  
3. Kshitij Sinha
4. Michel Héon 
5. Brian Lowe 
6. Benjamin Kampe 
7. Ivan Mrsulja 
8. Miloš Popović 
9. Ann Beynon 

Agenda

• VIVO-Serverless project: Decoupling VIVO's TDB to a cloud triplestore
  • Presenter: Michel Héon 
  • Abstract: ServerLess architecture, the foundation of cloud computing, is based on the three-tier architecture (Presentation / Logical / Persistence layers), which requires the three application layers to be separated by communication over the web using the HTTP protocol. Networking the logic layer with VIVO's persistence layer generates significant latency when refreshing the 'People' page. The aim of this study is to identify, implement and measure solutions to speed up communication between the two layers. The demonstration is carried out in Amazon's cloud environment, where AWS-Neptune is the triplestore used to perennialize VIVO's graph and data. This will be the focus of the presentation.
• Publication claiming
  • Editing Your Profile#PositionsandPublications
• VIVO 1.14.0 RC 3
  • Testing week
    • 19-23 June 2023 
    • Release Testing - 1.14.0
• Summer period meetings 
  • 04.07., 18.07., 01.08., 15.08.

Notes

Michel presented the UQAM solution. The slides available at http://doi.org/10.13140/RG.2.2.31920.33285. 

Dragan: Surprisingly, there is no result with a buffered approach.

Georgy: How many rounds of testing have been conducted

Michel: around 10

Georgy: Did you try HTTP/3? It might improve the performance as well

Michel: No, but we can investigate that as well. We tried to optimize communication between presentation and persistence layer, that was our approach. 

Brian: Just a comment, we might investigate DAOs to check whether we can make some improvements there. Instead of 50 SPARQL queries, just a couple of big SPARQL queries. 

Michel: VIVO architecture is not perfect at the moment, some free marker templates are communicating directly with DAO. 

Brian: Yes, that’s true, but we should consider improving that. 

Dragan: Michel thanks for the presentation. Please, share with us slides and links to the GitHub branches where we can find technical details of your implementation. 

Dragan: The documentation for publications claiming (via Crossref and PubMed) has been improved - Editing Your Profile#PositionsandPublications

Dragan: Release candidate 3 has been published. Please participate in the testing - Release Testing - 1.14.0.

Draft notes in Google Docs

Task List

• Michel Héon to share presentation slides with VIVO community via slack channel

Previous Tasks 

• Dragan Ivanovic to document publication claiming feature - Editing Your Profile#PositionsandPublications
• Kshitij Sinha will inform Michael Bentz and other UF members about progress in resolving issue related to the long delay in logging in 
• Dragan Ivanovic will communicate further will Ceci and Rodrigo about csv import into the VIVO graph
• Brian Lowe will complete https://github.com/vivo-project/Vitro/pull/397, Dragan Ivanovic and Georgy Litvinov will review
• Brian Lowe will review https://github.com/vivo-project/Vitro/pull/395
• Dragan Ivanovic will prepare RC once when all blocking issues are resolved
• Dragan Ivanovic to discuss with VIVO committers whether we can improve VIVO WCAG  compliance
• Brian Lowe will work on implementation of https://github.com/vivo-project/VIVO/issues/3770
• Dragan Ivanovic will increase priority of https://github.com/vivo-project/VIVO/issues/3858, and https://github.com/vivo-project/VIVO/issues/3859 
• Dragan Ivanovic will continue communication with Joseph about the issue with mass removing data via slack
• Dragan Ivanovic to share results of discussion about using Docker images with Rodrigo via https://groups.google.com/g/vivo-tech/c/yAOHcsJg8ro (the problem might be that VIVO docker container is not seeing vivo-solr container, meaning it is a network mode issue)
• Dragan Ivanovic to reorganize VIVO upgrade wiki pages - Upgrading VIVO
• Maxim Prokopenko to open a ticket (bug) for Solr index directory mount with docker compose (https://github.com/vivo-project/VIVO/issues/3857)
• All to think about priorities for further development of VIVO   
• Dragan Ivanovic to check whether PDFDocument class is needed at all (and itext dependency)
• Dragan Ivanovic to open a ticket (github issue) for ingesting sample data memory problem
• all
  • to provide feedback on https://docs.google.com/document/d/1jIIr90vTpI4l5KZeM30f_gOc-TpmlgKol-2oOEaU2Is/edit?usp=sharing,
  • consider participating in https://forms.gle/16QbRU62CmJCaeJp8
  • check personal calendars for the next sprint (May 22nd - June 9th, 2023)
• Dragan Ivanovic to announce publishing VIVO 1.14.0 RC2
• someone to test RC2
  • Ivan Mrsulja tested RC2
• Dragan Ivanovic to create survey for collecting standard practice in VIVO deployment process 

• Dragan Ivanovic to add columns in the project board for Priority and Difficulty.
• Sprint participants to read description of issues and think about their preferences. 

• Dragan Ivanovic will contact Lyrasis admins to get an account for https://vivo.lyrasis.org/
• Dragan Ivanovic will fix issues with layout and French sample data and publication graph - https://github.com/vivo-project/VIVO/pull/3810
• Georgy Litvinov will fix the issue with faux data properties with xml literal range - https://github.com/vivo-project/Vitro/pull/363
• William Welling will review previously described issues
• Dragan Ivanovic will work on specification of tasks for the next sprint - https://github.com/orgs/vivo-project/projects/5 and https://github.com/orgs/vivo-project/projects/6
• Dragan Ivanovic to send a test email through contact form - https://vivo.lyrasis.org/contact/
• William Welling to complete review/testing of  https://github.com/vivo-project/VIVO/pull/3805 and to summarize results in the PRs comments
•  Dragan Ivanovic to review William's comments and check what should be fixed/resolved before merging of the the branch
  • Georgy Litvinov to fix issues with Russian email templates
  • Georgy Litvinov to fix issues with faux data properties
• All to think about organization/improvements of sample data, Dragan Ivanovic to add an item in the next week agenda for discussion
• Dragan Ivanovic in communication with Georgy Litvinov to write/update documentation for faux (data) properties
• Dragan Ivanovic to review and merge 
  • https://github.com/vivo-project/Vitro/pull/360
  • https://github.com/vivo-project/Vitro/pull/361

• Brian Lowe to review https://github.com/vivo-project/VIVO/pull/3788 and https://github.com/vivo-project/Vitro/pull/341 preferably by end of the week (11/25/2022)
• Brian Lowe to review https://github.com/vivo-project/Vitro/pull/347
• Michel Héon to validate https://github.com/vivo-project/Vitro/pull/347 and test performance with remote Fuseki 
• Anyone to validate https://github.com/vivo-project/Vitro/pull/348 and https://github.com/vivo-project/VIVO/pull/3797 preferably by end of the week (11/25/2022)  - description how it should be validated provided in the PR description
• Benjamin Kampe to review https://github.com/vivo-project/Vitro/pull/349 and https://github.com/vivo-project/VIVO/pull/3795 preferably by end of the week (11/25/2022)
• Dragan Ivanovic to create PR in cooperation with Michel Héon for merging ttl files (labels' translations) into Vitro/VIVO repositories
• Dragan Ivanovic to ask Arif for more info on the reported issue - https://groups.google.com/g/vivo-tech/c/gmyQIMWbm_Y
• Dragan Ivanovic to open a ticket for https://groups.google.com/g/vivo-tech/c/wDblxLmeTjs. Done, ticket available at https://github.com/vivo-project/VIVO/issues/3772
• Dragan Ivanovic will redirect reporter of this issue https://github.com/vivo-community/vivo-docker2/issues/22 to https://github.com/vivo-project/VIVO#docker
• All to analyze the issue reported in the slack (https://vivo-project.slack.com/archives/C8RL9L98A/p1663253504895989) and check whether we should open a GitHub issue and add to the i18n redesign project board - https://github.com/orgs/vivo-project/projects/4 
• Brian Lowe will respond on the email https://groups.google.com/g/vivo-tech/c/5AY9h15h4vc/m/OjqekVxlBgAJ?utm_medium=email&utm_source=footer&pli=1
• All to consider participation in the sprint and register via https://forms.gle/qLi1PhRrrpvUrrYRA
• Dragan Ivanovic to work on specification of tasks for the sprint - GitHub project board
• Michel Héon to work on the translation messages ontology
• Dragan Ivanovic will bring up with leadership group that we would like to set up task force for dynamic API
• Dragan Ivanovic will create infrastructure for the next sprint (slack channel, GitHub project board, wiki page, GitHub branch, GitHub issues, etc.)
• Michel Héon to work on the ontology for UI labels (in multiple languages)
• All to think about dates for the next sprint
• Dragan Ivanovic to resolve conflicts for https://github.com/vivo-project/Vitro/pull/311 and https://github.com/vivo-project/Vitro/pull/297
• Dragan Ivanovic to write script for preparing a release candidate - started at https://github.com/chenejac/VIVO-release-publisher
• All to test the release candidate - Release Testing - 1.13.0
• Dragan Ivanovic to publish VIVO 1.13.0 release (if there is no reported issue till 1st of September)
• Dragan Ivanovic to prepare presentation for demo meeting - 2022-07-07 - Dynamic API demo meeting
• Dragan Ivanovic to send reminder for the demo meeting - 2022-07-07 - Dynamic API demo meeting
• Dragan Ivanovic to open an issue for a reverse proxy (redirecting) - https://vivo-project.slack.com/archives/C8RL9L98A/p1651739159126489
  • https://github.com/vivo-project/VIVO/issues/3698
• Dragan Ivanovic to contact Andrew Wood for resolving the issue with registration for the Slack channel
• All to consider participation in the sprint and if decide  to participate to register for the sprint - link
• Dragan Ivanovic to send a require to add in the Leadership group agenda a topic for discussing Copyright owner in License
• All please help in filling this document - spreadsheet
•  Dragan Ivanovic to create a draft version of a Google Spreadsheet document with labeled columns representing requirements and to share with committers
• Committers to review the structure of the document and to fill it with data for JS and CSS frameworks