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Petalinux is brand name used by Xilinx, it is based on Yocto and pretty decent mainstream kernel, what petalinux ads is the HSI (Hardware Software Interface from Vivado) and special tools for boot image creation.

 

Petalinux

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Configuration

Most settings can be changed with menu-config. There are 3 more files that user can edit, they are

fileFileDescription
system-top.dtsDevice tree changes are to be applied here
platform-top.hU-boot changes are to be applied here
fsbl_hooks.cFSBL changes are to be applied here

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There should be no reason to modify any other files by editing them.