deprecate some cfg commands

cmd/config/internal/commands/annotate.go

@@ -27,6 +27,7 @@ func NewAnnotateRunner(parent string) *AnnotateRunner {
 		Long:    commands.AnnotateLong,
 		Example: commands.AnnotateExamples,
 		RunE:    r.runE,
+		Deprecated: "use `commonAnnotations` field in kustomization instead.",
 	}
 	runner.FixDocs(parent, c)
 	r.Command = c

cmd/config/internal/commands/cmdcreatesetter.go

@@ -32,6 +32,7 @@ func NewCreateSetterRunner(parent string) *CreateSetterRunner {
 		Example: commands.CreateSetterExamples,
 		PreRunE: r.preRunE,
 		RunE:    r.runE,
+		Deprecated: "setter commands will no longer be available in kustomize v5 (use patches or replacements instead).",
 	}
 	set.Flags().StringVar(&r.FieldValue, "value", "",
 		"optional flag, alternative to specifying the value as an argument. e.g. used to specify values that start with '-'")

cmd/config/internal/commands/cmdcreatesubstitution.go

@@ -23,6 +23,7 @@ func NewCreateSubstitutionRunner(parent string) *CreateSubstitutionRunner {
 		Args:   cobra.ExactArgs(2),
 		PreRun: r.preRun,
 		RunE:   r.runE,
+		Deprecated: "this will no longer be available in kustomize v5.",
 	}
 	cs.Flags().StringVar(&r.CreateSubstitution.FieldName, "field", "",
 		"name of the field to set -- e.g. --field image")

cmd/config/internal/commands/cmdinit.go

@@ -26,6 +26,7 @@ func GetInitRunner(name string) *InitRunner {
 		Long:    commands.InitLong,
 		Example: commands.InitExamples,
 		RunE:    r.runE,
+		Deprecated: "setter commands will no longer be available in kustomize v5 (use patches or replacements instead).",
 	}
 	runner.FixDocs(name, c)
 	r.Command = c

cmd/config/internal/commands/cmdlistsetters.go

@@ -31,6 +31,7 @@ func NewListSettersRunner(parent string) *ListSettersRunner {
 		Example: commands.ListSettersExamples,
 		PreRunE: r.preRunE,
 		RunE:    r.runE,
+		Deprecated: "setter commands will no longer be available in kustomize v5 (use patches or replacements instead).",
 	}
 	c.Flags().BoolVar(&r.Markdown, "markdown", false,
 		"output as github markdown")

cmd/config/internal/commands/cmdset.go

@@ -27,6 +27,7 @@ func NewSetRunner(parent string) *SetRunner {
 		Example: commands.SetExamples,
 		PreRunE: r.preRunE,
 		RunE:    r.runE,
+		Deprecated: "setter commands will no longer be available in kustomize v5 (use patches or replacements instead).",
 	}
 	runner.FixDocs(parent, c)
 	r.Command = c

cmd/config/internal/commands/fmt.go

@@ -25,6 +25,7 @@ func GetFmtRunner(name string) *FmtRunner {
 		Example: commands.FmtExamples,
 		RunE:    r.runE,
 		PreRunE: r.preRunE,
+		Deprecated: "declare a formatting transformer in your kustomization instead.",
 	}
 	runner.FixDocs(name, c)
 	c.Flags().StringVar(&r.FilenamePattern, "pattern", filters.DefaultFilenamePattern,

cmd/config/internal/commands/merge.go

@@ -19,6 +19,7 @@ func GetMergeRunner(name string) *MergeRunner {
 		Long:    commands.MergeLong,
 		Example: commands.MergeExamples,
 		RunE:    r.runE,
+		Deprecated: "this will no longer be available in kustomize v5.",
 	}
 	runner.FixDocs(name, c)
 	r.Command = c

cmd/config/internal/commands/merge3.go

@@ -18,6 +18,7 @@ func GetMerge3Runner(name string) *Merge3Runner {
 		Long:    commands.Merge3Long,
 		Example: commands.Merge3Examples,
 		RunE:    r.runE,
+		Deprecated: "this will no longer be available in kustomize v5.",
 	}
 	runner.FixDocs(name, c)
 	c.Flags().StringVar(&r.ancestor, "ancestor", "",