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Clearance denotes the shortest distance between two conductive parts as measured through the air.
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votes
Accepted
How do I disable clearance check for a layer or for only some certain elements?
You can specify a design rule for that component:
Design > Rule > Placement > Component Clearance,
Add new rule like this:
Advanced query: InComponent('D1') //assume the component is 'D1'
Constraints … :
Min Vertical Clearance 0mil
Min Horizontal Clearance 0mil
Then Altium Designer will not check this component's clearance. …