Add comments to clearly show the job `pathogen-repo-ci-v0` is for
pathogen repos that do not conform to the standard pathogen repo
structure. Since these are tied to an old structure of pathogen repos,
the job should not be expected to be updated.

Any new pathogen repos should be added to the `pathogen-repo-ci`
job which replicates the centralized `pathogen-repo-ci` GH workflow.
Replicating the centralized `pathogen-repo-ci` because we've made the
decision to _not_ support ambient Augur version¹

¹ <nextstrain/.github#66>

As per @victorlin 's recommendation in related change in conda-base,¹
these pathogens can get updated as post-merge tasks for eventual PRs.

¹ <nextstrain/conda-base#85 (comment)>

Move the latest pathogen-repo-ci above legacy version as per
@genehack's recommendation in review

<#1549 (review)>