Make update-benchrepo script update the benchrepo
The update-benchrepo script was initially designed to rebuild the `.benchrepo` file from scratch. The downside of doing that is that it loses all manual changes and important information recorded when the reference was made (like the hg version). The big test change is because the test output was initially made with the previous code that recomputed the whole benchrepo. As the base benchrepo file is quite empty, the fact that we recompute only the format-info generate a big diff in the test file.
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