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How to pass LVS with shorted nets?

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I have a bunch of nets which need to be shorted in my design. I am using the cds_thru to connect the nets in my schematic, and I have shorted those nets in my layout. I am using Calibre to check the LVS, however, it fails giving an error for the shorted nets. How should I fix LVS so that I can generate the extracted netlist?


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