It is the SBS kit, not the flowcell that is the issue.
From what we have been told, a double prime needs to be done every time one uses v3 chemistry in an instrument that used v1 chemistry for its previous run.
The 200 cycle kits are supposed to be sufficient for a 4 (single prime)+ 101+ 7 +101 -- so roughly 213 cycles worth. A 50 cycle kit would (by the same logic) be 4 + 50 +7 = 61 cycles worth.
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Phillip
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