.github/workflows/pr.yaml

Fix: Only keep refs and sources that exist to match dbt load time behaviour #3023

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Run time

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Job	Run time
test-vscode	1m 8s
test-vscode-e2e	13m 14s
test-dbt-versions (1.6)	1m 31s
test-dbt-versions (1.7)	1m 39s
test-dbt-versions (1.5)	1m 40s
test-dbt-versions (1.4)	1m 37s
test-dbt-versions (1.3)	1m 37s
test-dbt-versions (1.8)	1m 36s
test-dbt-versions (1.9)	1m 47s
test-dbt-versions (1.10)	1m 51s
	27m 40s