Epic: Support Organism-Scoped Workflows with Collection Inputs

Implement organism-scoped workflows so the Influenza A subtyping pipeline and upcoming comparative genomics (HyPhy) workflow can run with reference collections.

Scope includes:

1. support for collection_spec as param in workflow yml and downstream
2. scoping workflows to organisms vs assemblies, basic framework (including organismworkflowmapping similar to recent assembly mappings )
3. actually wriing in flu and hyphy workflows to source yml and producing required json.
4. workflows view to filter on workflow scope organism vs assembly and show organism workflows based on organism mappings.
5. stepper step to choose an organism (for workflows view). in cases where workflow is tied to species taxon id already (like flu workflow), this can prepopulate.
6. stepper step to choose multiple assemblies. in flu case this should prepopulate again, and just show the zenodo assets.

Start by breaking the epic into its listed areas: collection_spec support, organism-versus-assembly workflow scoping, the Influenza A and HyPhy source workflows, workflow filtering, and the organism and assembly stepper steps. The issue does not name files, tests, or entry points; done requires all six areas to work together and produce the required JSON.

Written by the indexing model from the issue text.