.tivo conversion to .ts, PCR discontinuities


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I converted a .tivo file of an ATSC broadcast to a .ts file and provided the .ts to a broadcaster that had requested it. The broadcaster reported that the file had PCR discontinuities and they could not use the file. Does Tivo do something funny re PCR? Does the VideoReDo drop null packets or do something that would upset the sequence of PCR's? Is there a way to make a good .ts from a .tivo?
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