Hi,
I personally don´t rely on a PDF as data format for PCB manufacturing.
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Gerber is much better.
Is the procedure of taking ground connection from the polygon fill wrong..?
I don´t know if the procedure is wrong. But the result seems to be wrong.
A true power plane is better than a copper pour. But a good considered copper pour may be almost as good as a true power plane.
(In former there were true "power layers". usually without traces. The data format was negative, with every flash/line generating isolation instead of conductive copper wires. This reduced the amount of data extremely. Nowadays nobody cares about some megabytes of data)
To test: Generate gerber data and use GCprevue (or similar gerber viewer software) to validate the data. If you see gaps, then you should adjust your PCB layout software.
If you don´t see any gaps, then it´s a problem of the PCB manufacturer.
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I recommend to give valid data to the manufacturer. In my eyes it´s on the designer to generate valid data. My manufacturer is adviced not to change my data, instead he should tell me what to change.
So i´m sure my data are up to date, and if i decide to change the manufacturer I expect no problems.
Klaus