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Use the htmlwiki.sh in your init.vim as
let g:vimwiki_list = [{"path": '~/Documents/vimwiki/mykb',
\ "path_html": '/home/till/Website/mykb.dieminger.ch',
\ "syntax": 'markdown', "ext": '.md',
\ "custom_wiki2html": '~/wikihtml.sh', "force": 1, "auto_export": 1}]