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Postpone ``pandoc`` execution to the end of all processing #1709
Soichi found that the memory peak at the beginning of fMRIPrep is caused by pandoc, which is aligned to this open issue in pandoc.
Since that issue has been open for a while now, but we are not going to think of an alternative just for the conversion of markdown to html to generate the boilerplate, a good solution is to postpone pandoc to be the latest process run, and also offer a flag to totally skip the conversion.