Personally i usually boil wood for a few hours and soak any wood and rocks i get in a bucket of water for a few weeks (changing the water every 2 days to flush out the released tannins and minerals). I use a TDS pen to test the water each time to check the amount of minerals released by the rocks and its effect on the water (usually after many water changes its effects reduce over time).
Some types of wood release very little tannins (usually the cured hard wood types) while others release alot of tannins (usually those soft wood types that are still rotting and have bits flaking off), so its just a matter of trying and seeing.
The yellowish tinting is due to tannins still leaching from those wood pieces... depending on wood type and quality, sometimes even after boiling the wood extensively, they will still continue leaching tannins for quite a long time more. Though the tannins should gradually diminish over time with regular water changes. You can also add active carbon or adsorption products like Seachem Purigen to help remove the tannins faster too.
The rocks will not be the source of tannins, though instead they may release minerals that might raise pH and GH.










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