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## glossaries texstudio and miktex portable

I am not quite sure if this question is on the right sx site but since it is heavily tex related I figured I ask here.

My setup consists of a windows machine with `texstudio` and `miktex`, both in the `portable` version. I am trying to use the `glossaries` package.

To do so I want to run `makeglossaries` by means of a custom user command. However when I try this it complains about not finding `makeindex` on the path. However i added `miktex`'s bin folder to the user-path variable and if i type `makeindex` from a commandprompt outside miktexs bin folder it works just fine.

What is the proper way of using `makeglossaries(.bat)` with the portable `miktex/texstudio` setup?

Edit: I expiremented with changing the command line. If I supply the `-d` `option to makeglossaries`, which sets the path in which to run `makeindex`, i can get it to find `makeindex`, however, this causes several further issues: I need to supply absolute paths for the index style with `-s`, and absolute paths to the temporary files, which then can't be written due to miktexs security feature.