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I'm going to assume you're talking about Hydrogen in this case. It's a very common issue for the early and mid-game - in fact, it's usually the first real hiccup in the logistics puzzle that players need to solve to keep things flowing smoothly.
This is where many players first learn to use (and appreciate) the utility of the 4-way splitter and it's ability to prioritize inputs/outputs.
Storage for Hydrogen is extremely cheap and very easily scalable to larger holdings, as the 10k capacity tanks stack (and increase the stack size with the lab/container stack upgrades) and have a decently small footprint. This allows for relatively large storage areas, using a comparatively small amount of real estate.
You will be well served by storing as much of that Hydrogen as possible, as once you start to manufacture Green Science, you will be absolutely grateful that you saved all of that Hydrogen - because you will burn through nearly 20 Hydrogen PER CUBE, which will drain that stockpile quick, fast, and in a hurry.
If you just plop down a stack or two of storage tanks haphazardly in the middle of your base, it can seem like a bit of a chore to store all of that excess Hydrogen in the beginning of the game as all that storage just 'gets in the way'. You CAN, however, take advantage of the fact that neither tanks, belts, nor logistics stations themselves actually require any power to collect and store thousands of items. If you set up a PLS connected to a large collections of tank stacks out in a remote area (that is open and easily expanded upon), drones that take off from powered stations in or near your base can then drop off that excess Hydrogen (which you diverted with your 4-way splitters!) to that remote storage (that has no drones of its own) without actually needing power AT that remote destination. Once you unlock Gravity Matrices, you can throw the whole storage area into reverse, feeding all that needed stored Hydrogen back into your jello production via logistics. Again, the remote station does not actually need power itself if the product is being picked up by drones from other stations near your base that have their own access to the power grid.
1 Store. So no trashing, for especially hydrogen this can be beneficial at a later stage of the game. As I play a relaxed game with unlimited resources this is not of real concern to me.
2 Balance. Make factories that do not produces excess resources. For example, for red cubes you can use a combination of plasma refining (1) and x-ray cracking (2) this gives the needed hydrogen and energetic graphite, but more hydrogen than graphite. You could say the extra hydrogen is access and needs to be trashed, but you could also produce extra graphite from coal so that the whole build is balanced.
3 Burn off. If the excess resource can be used in a thermal power plant you could set up a burn off plant. This is a group of thermal power plants that are NOT connected to the main power grid but are used to charge accumulators. These accumulators are then discharged in the main power grid. This works because accumulators are discharged in energy exchangers before any other power source is used. You do need to have energy exchangers researched and it uses a lot of space.
My preferred way is to balance, but then I don't have to worry about resource depletion because I play with unlimited resources.
The only recipe where graphite is one of two outputs is the X-ray cracking recipe that produces hydrogen and graphite. If your graphite is the waste product you don't want, then by elimination you're using crude oil to produce hydrogen. This is not ideal because crude oil has a pretty limited output while there's quite a bit of hydrogen used late game.
The first question is what are you using the hydrogen for? Everything early game that uses hydrogen can also use the graphite from x-ray cracking. (Except the hydrogen fuel rods which aren't used for anything but Icarus fuel) Red Cubes require hydrogen and graphite in equal parts so you actually need to add an extra 50% graphite from coal to the x-ray cracking output to stay balanced. Burning hydrogen for power, you can also burn the graphite for power. The ratio is 2 hydrogen burners to 1 graphite burner and your x-ray cracking setup will run balanced - even if it clogs or slows from not using enough power.
If your using the hydrogen from x-ray cracking for some of the later game processes, my advice is....don't. By the time you need Casimir Crystals or Deuterium Fuel Rods you should have Orbital Collectors setup around the starting system's gas giant. Then you can draw all the hydrogen you want without any byproduct to worry about.
Take the time to crank out 40 Orbital Collectors to ring the gas giant completely and you'll have your hydrogen problem solved..for now.
If you just want a tip on how to get rid of all the graphite automatically, everyone needs more power. Run the graphite on a belt to a thermal power plant array. (Connect power plants with sorters to chain them without dragging a belt in front of each one individually) You'll get free power from your waste. Then continue the belt if your power plants aren't burning it all fast enough and send the graphite through some smelters (using up some of that extra power you're making) to turn into diamond. Then burn the diamonds in some more thermal power plants. The diamonds burn much faster than the graphite because they're considered less energy dense.
With that setup you're using the graphite for power while if your power demand isn't there and thus the power plants aren't burning the graphite fast enough the excess continues on to convert to diamonds which burns much faster. Thus keeping up with the excess graphite.
To be fair it wasn't clear, you said "im full of a resource i dont need but is a byproduct of somthing i need, currently its graphine" which could easily mean that graphene is what you need or that it's the byproduct.
That's a pretty unique problem, not sure I've ever seen anyone needing MORE hydrogen prior to having orbital collectors. You get more than enough from refining oil and xray cracking for red cube production, so much so that people often have issues getting rid of it.
If you need it for power then it's probably time to ramp up coal production or with all the graphene you have, solar sail/ray receiver production.
Once you have interstellar logistic stations and orbital collectors you'll have more hydrogen than you know what to do with.
Oh and you can burn graphene in thermal power plants.
Oil cracking is largely a trap tech and should not be overly invested. Also beware of burning away all your coal, it's a core ingredient for proliferator to super charge your factory.
You need a different way to collect your hydrogen. I can only assume you're not aware of what the Orbital Collector is for. https://youtu.be/ZTJldpsfzmQ?t=158 Edit: Time stamp 158 is the in game voice over description of what the Orbital Collector does.
Edit2: Graphene burns faster than diamond does. https://steamcommunity.com/sharedfiles/filedetails/?id=2884234634