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I think it would be great to avoid the need to manually generate the logs and then feed it into code-maat after..
After all the command that needs to be run is known and to find out what kind of repository is we just need to check for .git/.hg/.svn in the directory right?
I can probably give it a try and add something like "--auto $path" or "--repository-path $path" option that does the detection and parsing, what do you think?