Update task_augur_refine iqd back to 4

[jrotieno]

Closes #249

🛠️ Changes Being Made

Reverted the augur refine input clock_filter_iqd to previous default value of 4.

Impacted Workflows/Tasks

task_augur_refine.wdl

🧠 Context and Rationale

The default was changed when working with monkeypox genomes, all clades and not just the outbreak clade IIb, where some crucial sequences in understanding the full evolutionary history of the pathogen were getting removed as outliers.

We are changing this back to the previous default of 4, which is perfect for SARS-CoV-2, but will advise users to change it accordingly depending on the pathogen, especially where genuine outliers (not sequencing or dating artefacts) are expected.

📋 Workflow/Task Steps

Inputs

Outputs

Impacted Outputs

🧪 Testing

Locally

Terra

Scenarios for Reviewer to Test

🔬 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

[emily-smith1]

Successfully tested the jro_augur_refine_patch on a set of 6 SARS-CoV-2 genomes from the augur_test_2023-12-14 table in this workspace. The resulting tree look as expected with only those 6 included samples.