Updates repository_metadata.tools with new and correct file locations.
The test toolshed moved around `file_path` multiple times since its
inception, and old revisions might point at old location. This is a
simple script that fixes the locations. It has a dry run mode that I've
run successfully:
```
----------------------------------------------------------------------
Dry run complete - no changes made to database
======================================================================
SUMMARY
======================================================================
Total RepositoryMetadata records processed: 25414
RepositoryMetadata with tools: 22497
Total tools examined: 40470
Tools with correct paths (unchanged): 3898
Tools with paths updated: 36572
- Tool file exists on disk: 33297
- Tool file missing (removed in later changeset): 3275
Tools with path construction errors: 0
======================================================================
```
it also write out json files for each repository as backups should
this be needed.
Closes https://github.com/galaxyproject/galaxy/issues/21454
mvdbeek
b55ae26068