I am trying to figure out a way to cleanly separate the TEX files from all of the intermediate and output files. Various approaches I've tried, including the one described by ‘Bundle’ TeX output in a directory don't seem to work. I'm using TexMaker + MikTex (portable). Ideally, I would like my file/directory structure to look something like this:
Instead, what I have, is the jumbled-up mess where all of these files live in the same directory. I've tried setting the ouput-directory, for example, on pdflatex but this doesn't work. The pdf file still gets created in the same place but now it doesn't show up in the previewer. This should be pretty easy to solve but I've so far been unsuccessful. How can I set up my environment to use the above structure when compiling?
Update: I believe I have narrowed this down to something specific to TexMaker. If the desired aux and out directories are passed via the command line to pdflatex, everything builds as it should. Yet, I get numerous message boxes popping up saying that files can't be found and the PDF doesn't display in the internal viewer. I can't see any obvious options within TexMaker to change to address this. So, has anyone been able to make the scenario I'm describing work with TexMaker?