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This allows additional flags to be passed, which fixes git.
Single batches were being effectively bulked regardless of BULK_MAX_BATCHES because $batch was being thrown away on each iteration.
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It seems you were right and SFS simply wasn't able to handle git. Luckily I had a fairly recent backup from before I corrupted my large repository! I'm now trying csync2 instead though synchronisation is normally triggered manually.
I thought I should send you the fixes I have. A couple come from #6 but the amount of noise in that request made it difficult to merge. I am not entirely sure about the last commit. There is definitely a problem here but this may not be the right way to fix it.