Update defaults

[sage-wright]

Update default docker images and updates the version

🛠️ Changes Being Made

🧠 Context and Rationale

📋 Workflow/Task Steps

Inputs

Outputs

🧪 Testing

Locally

Terra

🔬 Quality checks

Pull Request (PR) checklist:

• Include a description of what is in this pull request in this message.
• The workflow/task has been tested locally and on Terra
• The CI/CD has been adjusted and tests are passing
• Everything follows the style guide

[cimendes]

Test TheiaCov_Illumina_PE_PHB

Commit id: 719cca0

9 SC2 samples with multiple lineages on dev branch: https://app.terra.bio/#workspaces/theiagen-validations/Theiagen_Mendes_Sandbox/job_history/39ac8548-0279-4442-ab69-d88cc60009f9

9 SC2 samples with multiple lineages on main branch: https://app.terra.bio/#workspaces/theiagen-validations/Theiagen_Mendes_Sandbox/job_history/96576998-e974-4390-b209-cfcb83eb929b

✅ No change in columns
✅ column content reflects the new changes (assembly method correctly states PHB v1.1.0, as well as nextclade tag, pangolin docker)

[cimendes]

✅ New defaults for SC2 match information on https://theiagen.notion.site/Docker-Image-and-Reference-Materials-for-SARS-CoV-2-Genomic-Characterization-98328c61f5cb4f77975f512b55d09108
✅ New gambit URI match information on https://theiagen.notion.site/GAMBIT-RefSeq-Curated-Database-v1-1-0-b5af62c6bcb544b48501752f2e741b21