Add `--omit-paths` flag to `templates apply` #3433

Job	Run time
CLI	35s
OCI Implementation Registry Compatibility	1m 20s
Tests Matrix (src/test/container-features/containerFeaturesOrder.test.ts)	48s
Tests Matrix (src/test/container-features/e2e.test.ts)	3m 13s
Tests Matrix (src/test/container-features/featuresCLICommands.test.ts)	3m 14s
Tests Matrix (src/test/cli.build.test.ts)	8m 35s
Tests Matrix (src/test/cli.exec.buildKit.1.test.ts)	5m 30s
Tests Matrix (src/test/cli.exec.buildKit.2.test.ts)	5m 16s
Tests Matrix (src/test/cli.exec.nonBuildKit.1.test.ts)	5m 25s
Tests Matrix (src/test/cli.exec.nonBuildKit.2.test.ts)	5m 7s
Tests Matrix (src/test/cli.test.ts)	1m 3s
Tests Matrix (src/test/cli.up.test.ts)	4m 57s
Tests Matrix (src/test/imageMetadata.test.ts)	6m 45s
Tests Matrix (src/test/container-features/containerFeaturesOCIPush.test.ts)	49s
Tests Matrix (--exclude src/test/container-features/containerFeaturesOrder.test.ts --exclude src/...	6m 44s
Tests	0s
	59m 21s

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