Indexes for coreprofiler_allele_calling: add Salmonella cgMLST and synchronize all into CVMFS

toolshed.g2.bx.psu.edu/repos/iuc/coreprofiler_allele_calling/coreprofiler_allele_calling/2.0.0+galaxy2
https://github.com/galaxyproject/tools-iuc/tree/main/data_managers/data_manager_build_coreprofiler

Request to add [Salmonella enterica cgMLST](https://www.cgmlst.org/ncs/schema/Senterica/).
Requested at https://help.galaxyproject.org/t/request-adding-salmonella-cgmlst-3002-loci-scheme-for-coreprofiler-allele-calling/17669

Current indexes

**ORG**

**EU**

**AU**
root tool install seems to be pending

Start in data_managers/data_manager_build_coreprofiler and inspect how the current coreprofiler indexes are built and synchronized into CVMFS. Use the linked Salmonella enterica cgMLST scheme as the requested data source; done means adding its 3002-loci index and synchronizing the complete index set for the ORG, EU, and AU deployments.

Written by the indexing model from the issue text.