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PharmaDevOps: Development Operations Guidance for Clinical Reporting Codebases

PharmaDevOps: Development Operations Guidance for Clinical Reporting Codebases

Dec 17, 2024

Project Scope 

  • Landscape of what CICD is used today across the pharmaverse, and key pre-named reference packages outside the pharmaverse used in clinical reporting (e.g. ggplot2, survminer).
  • Summarise integration deployment and release pain points within these R packages.
  • Connect with the R Validation Hub and vendor tooling (e.g. Atorus openvalidate) to understand what key devops tooling could be applied to packages to accelerate validation.
  • Deliverable 1: Summarise the state of DevOps in the pharmaverse today, with proposals on key tools used already, and where there are gaps.
  • Deliverable 2: Develop the existing CICD library used in some pharmaverse R packages (referenced earlier in this proposal) to:
    • deliver a recommended suite of CICD tools for R and python packages that improve developer efficiency, and ensure code is well tested and consistent when merged to branch
    • provide off-the-shelf configurations to use tools such as docker images managed locally or via Github codespaces to simplify environment management.
Project LeadsEmail 
Dinakar Kulkarni, Genentechkulkard2@gene.com 
James Black, RocheJames.black.jb2@roche.com
Ben Straub, GSKben.x.straub@gsk.com
Alex Pearce, PHUSE Project Assistant

alexandra@phuse.global

CURRENT STATUS Q4 2024

  • No update.
Objectives & DeliverablesTimelines 
Preparation of deliverable for PHUSE US Connect 2024Q3 2023
V1.0 of suite/library of CICD tools releasedQ4 2023
Support adoption across pharmaverse and biostatistics packages where maintainers are willing to collaborateQ1 2024 
Close V1.0 with hackathon in the lead-up to the PHUSE CSS 2024Q2/Q3 2024
Resources 

PharmaDevOps GitHub