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Replace usage of gitconfig with Gitaly configuration

Gitaly wants to start ignoring both the system- and global-level gitconfig files in favor of using Gitaly's own config.toml file by adding [[git.config]] entries. We should thus convert Omnibus to not write the gitconfig andmore, but to instead write all Git configuration into the config.toml.

Please refer to &7945 (closed) for the motivation.

Edited by Patrick Steinhardt