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Copy-in rather than copy-out in transpiler (#11176) (#11182) This shifts the deepcopy of instructions in the transpiler to be at the input stage, rather than the output stage. This more closely matches our behaviour before the passmanager refactoring, but also has a performance benefit for circuits that require significant routing and is typically safer for transpiler passes. Output circuits are typically larger than input ones, so copy-in means less copying, and also makes the ownership model for tranpsiler passes clearer: a pass can assume the input operations are entirely owned by the circuit it receives, and that a pass must output a circuit that entirely owns its operations. (cherry picked from commit eca34781d) Co-authored-by: Jake Lishman <jake.lishman@ibm.com>
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