[Taxon_Table] resync taxon_tables inputs

[xonq]

🗑️ This dev branch should be deleted after merging to main.

🧠 Summary

Resyncs inputs in export_taxon_table calls in all theiaprok workflows

⚡ Impacted Workflows/Tasks

wf_theiaprok_illumina_se.wdl
wf_theiaprok_illumina_pe.wdl
wf_theiaprok_ont.wdl
wf_theiaprok_fasta.wdl

This PR may lead to different results in pre-existing outputs: Yes

This PR uses an element that could cause duplicate runs to have different results: No

🛠️ Changes

Add and remove inputs to export_taxon_table calls to synchronize with workflow outputs.

⚙️ Algorithm

n/a

➡️ Inputs

Please see files changed

⬅️ Outputs

n/a

🧪 Testing

• TheiaProk Illumina PE successfully outputs 3 samples to taxon table
• TheiaProk Illumina SE ""
• TheiaProk Illumina ONT ""
• TheiaProk FASTA ""

Suggested Scenarios for Reviewer to Test

n/a

🔬 Final Developer Checklist

• The workflow/task has been tested and results, including file contents, are as anticipated
• The CI/CD has been adjusted and tests are passing (Theiagen developers)
• Code changes follow the style guide
• Documentation and/or workflow diagrams have been updated if applicable
  • You have updated the "Last Known Changes" field for any affected workflows in the respective workflow documentation page and for every entry in the three workflows_overview tables to be the tag for the next upcoming release. If you do not know the tag, please put "vX.X.X"

🎯 Reviewer Checklist

• All changed results have been confirmed
• You have tested the PR appropriately (see the testing guide for more information)
• All code adheres to the style guide
• MD5 sums have been updated
• The PR author has addressed all comments
• The documentation has been updated

[Michal-Babins]

Script was able to identify changes and Zach changed per differences in expected I/O's.