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[WIP] staging: update flake.lock and fix fallout from gcc-14 update #601

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@markuskowa markuskowa commented Dec 25, 2024

The latest staging-next merge, brought an update to gcc-14, which broke a number of packages.

Collecting all repair work here.

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The ABPS/FETK fix which is required to unbreak AmberTools is here: NixOS/nixpkgs#374252

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