If you need to re-index all resources in greg 4.0.0, here I have explain how you can do that.
This can be easily done by editing registry.xml located at CARBON_HOME/repository/conf folder. In registry.xml go to the indexingConfiguration section and then change the resource name of lastAccessTimeLocation to some other value.
<lastAccessTimeLocation>/_system/local/repository/components/org.wso2.carbon.registry/indexing/lastaccesstime</lastAccessTimeLocation>
New Value (after changing the resource name):
<lastAccessTimeLocation>/_system/local/repository/components/org.wso2.carbon.registry/indexing/newlastaccesstime</lastAccessTimeLocation>
Now restart the server, then greg will re-index all resources from scratch.
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