Beth -
Sebastian is right to consult with someone. Starting out, you want to think about the flow of production, from accepting shipments to shipping out. The organization of your space needs to accommodate the flow of materials through the space. You are going to want to separate out the space(s) where un-roasted beans are from the rest of your space (to prevent contamination), and then you are going to want separate zones for hot and cold operations, dry storage, and temperature-controlled storage. This gives you your functional zones.
When it comes to equipment, I can tell you that the place to start thinking is from the amount of production you plan to do. If you need to produce 50kg of finished product per day that suggests one or more different production paths. If you need to produce 250kg per day, then other paths need to be considered. I would not recommend scaling up much past 2 or 4 CocoaTown/Spectra "universals" as it's actually a comparatively inefficient way to go (rather than lots of small "universals" it's best to get equipment dedicated to each step in the process - or go with "real" universals. Real universals will be loud so you should consider putting them some place that can be sound proofed.
I was at Alain Ducasse's workshop and they have a half-bag gas roaster into an antique winnower. They grind the nibs in a colloid mill ( here's a video of what a small colloid mill looks like ) and then put the liquor into a mixer to add sugar to the liquor. The resulting paste is put through a three-roll mill into an old-style Carle and Montanari conche (250kg capacity but they are looking to upgrade to 400kg). With this method they can easily fill the conche in an 8-hour working day.
Think not just in terms of weight of production (kg/day) but also in terms of the number of units. It doesn't take much longer to do 1000 80gr bar than 1000 50gr bars. But think in terms of molds and cavities. If you can fill on average 1 mold/minute with four cavities/mold that's 60 molds/240 bars/hr. 1000, 50gr bars will take about 4 hours at that rate to mold. You don't need a tempering machine capable of tempering 100kg/hr (e.g., a continuous tempering machine with a 25kg working bowl) to reach that capacity.
Until you get into large volume production, cooling tunnels are very expensive propositions. Many small chocolate makers make a "cool room" and you can do this with a conventional through-wall air conditioner and a CoolBot [ referral link ]. Elsewhere here on TheChocolateLife I've posted conceptual plans for a "static cooling tunnel" that several ChocolateLife members have made and are using successfully.
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