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  "Title": "Find/fix old serialized S4 instances",
  "Description": "A set of tools built around updateObject() to work with\nold serialized S4 instances. The package is primarily useful to\npackage maintainers who want to update the serialized S4\ninstances included in their package. This is still\nwork-in-progress.",
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        "updatePackageObjects"
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        "updateSerializedObjects",
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        "The updateObject() generic function",
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        "List of tools provided by the updateObject package",
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