fix(analyzer): fix plugin diagnostic suppression + resolve double diagnostics #6035
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Summary
Fixes #6031:
biome checkcalls the analyzer twice, once for formatting and once for linting. But it handed the linter plugins to both invocations, causing them to run twice. Worse, in the formatting invocation, the suppressions didn't work either.Also fixes an issue that could cause certain Grit queries to report double diagnostics.
Test Plan
Test added.