I have a customer who has 2 physical stores that will be in the same virtual store. One team takes care of the fitness part of the clothing and another one of the supplement.
The customer would like 2 different stores in one same installation magento
But he wants different checkouts because one store works with one type of installment and the other with another type.
Is it possible to have multilocks with different checkouts ?
Possible is yes. The problem is that whenever I tried this, I ran into problems related to payment gateways, most of them did not accept a multiple checkout.
Imagine if the transaction response URL is different for each store, payment gateways do not allow you to have multiple return URLs in the same account. So I had to implement a facade for payment, I have a site dedicated to payment, where payment callbacks always point to the same URL, however there I filter them and send them to the correct store.
Yes it is! Magento offers several payment modules, for example, voip, secure payment, paypal and others. Suppose you want to use "insurance pay" to finalize the payments from the two stores, you can set 2 checkouts with different values, or create two "pay insurance" accounts if you want to keep the settlements in a more organized way, finalization goes to João's account and the other to Maria ...
Well, I do not know how you're being treated in Magento.
But Magento allows you to have 2 or more stores in the same installation, to register a new store access the System / Manage Stores admin.
If you are going to have the same products in both stores make up for a vision, vision and like another language, you could change prices etc because the same product would be in both eyes.
Now if it is different products, with different segments as you have set up the ideal is really to create stores.
Once you have that part of the store or vision created, access the means of payments.
When in payments, change the scope according to the image 
Forwhichvieworstoreyouwanttosetthedifferences,soyoucantellthatbothhavethesamemeansofpaymentwithdifferences.
Itisalsopossibletoinstalldifferentiatedcheckoutsforeachvieworstoreinthesameway,inonestoreorviewyouactivatethenewcheckoutandintheotheritdisables,ifyouwantnewcheckouts click here
