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Old Version 7

changes.mady.by.user Yaw Nti-Addae

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New Version Current

changes.mady.by.user Monica Franciscus

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Drivers

ApproversContributors

Associated Projects

Stakeholders

Yaw Nti-Addae

Victor Ulat

Pedro MEDEIROS BARBOSA

Liz Jones

Kelly Robbins

Tom Hagen

Stephan Einarson

Moira Sheehan

Lukas Muller

EiB

  • Liz Jones

  • Michael Quinn

EBS - Technical Oversight Committee

Breeding Insight

Innovation Lab

Objective

Develop an analytics framework that will allow breeders to analyze and summaries summarize their phenotypic and genotypic data

Due date

Key outcomes

  • Agreement on project timelines, resources and scope.

  • Open-source application with emphasis on EBS integration?

Status

Status
titleNOT STARTED

...

Scope of Phase 1

Expand
titleMust have

  • User interface through which an analysis request can be submitted

  • Analysis pipeline for processing data

  • Job tracking

  • Analysis and Models:

    • Phenotypic analysis

      • ANOVA

      • Simple mixed model (without genotypic information)Simple

      • D-Stat model

    • Experiment design simulator

  • Integration with breeding management system

...

Expand
titleNot in scope

  • User input file processing (Data will be acquired through web services)

  • file output of summary reports (Export features will be provided in UI)

  • Genotypic analysis (will be provided in the future)

  • Covariance matrices (GRM) (will be provided in the future)

  • Integration with genotype management system (will be provided in the future)

Resources for Phase 1

Skill set

% FTE

Duration (months)

Components

Data modeler

10

6

  • Database

  • Liquibase

General developer

100

12

  • Authentication

  • Data process layer

Full stack developer

100

12

  • Web services

  • User interface

DevOps

5

12

  • Automated deployment scripts

  • Automated testing scripts

  • Integration to EBS

Statistician

50100

12

  • modeling

  • requirement specification

  • UAT

QA

20

6

  • Write and build test scenarios

  • Testing

  • UAT

Timeline for Phase 1

Roadmap Planner
maplinks
timelinetrue
pagelinks
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titleRoadmap%20Planner
hash99db96ab148b6cd09636af75811d7f1ab68f946f863c47dc84ca58821c5a170b

Milestones and deadlines for Phase 1

Milestone

Deliverables

Deadline

Status

Review 1

  • Install and configure IAM, including connections to Cornell University OAuth, Google authenticator, and Active Directory

  • Develop and deploy data models for user configuration and job tracking

Status
titleNOT STARTED

Review 2

  • Role management

  • Analysis and Model data models

  • Message queuing

  • Experiment design statistics

  • Anova model statistics

  • Simple model statistics

Status
titlenot started

Review 3

  • UI - Analysis request form

  • Report data model

Status
titlenot started

Review 4

  • Report view

  • Job status

Status
titlenot started

UAT

  • User acceptance testing

Status
titlenot started

Review 5

  • Project review and lessons learned

Status
titlenot started

v1 Release

  • Production release and integration with EBS

Status
titlenot started

...

Layer

Technologies

Notes

Code repository

  • Github

Makes it easy for all parties to pull code into their repos

Authentication

  • WSO2 IAM and/or Keycloak IAM

WSO2 does not officially support openJDK

Database

  • PostgreSQL

Data processing

  • RabbitMQ

  • Java and/or Python

Statistics

  • ASReml 4

  • R

R has got strict versioning, which means that packages/libraries are not guaranteed to be forward or backward compatible

API

  • BrAPI standards

  • WSO2 API manager

  • Java and/or Python

We will use Swagger for API management for easy integration with SWO2 API manager

User interface

  • Angular or Vue or React

Browser compatibility for

  • MS Edge

  • Chrome

  • Firefox

  • Safari

DevOps

  • Ansible

Testing

  • Selinium

  • Unit test

Test browser compatibility for MS Edge, Chrome, Firefox and Safari, which covers ~85% of browser usage in the industry.

Reference materials