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Ricgraph known bugs

Error while emptying Ricgraph with Neo4j

While deleting nodes and edges in Ricgraph you might get a Python error, similar to:

Deleting all nodes and edges in Ricgraph...

Transaction failed and will be retried in [number]s (The allocation of an extra [number] MiB 
  would use more than the limit [number] MiB. Currently using [number] MiB. 
  dbms.memory.transaction.total.max threshold reached)

Traceback (most recent call last):
  File "[path]/harvest/harvest_pure_to_ricgraph.py", 
    line 729, in <module> rcg.empty_ricgraph()
  File "[path]/ricgraph/ricgraph.py", line [number], in empty_ricgraph
    _graph.execute_query('MATCH (node) DETACH DELETE node', database_=GRAPHDB_NAME)
  […]
  [module].errors.TransientError: [General.MemoryPoolOutOfMemoryError] 
    The allocation of an extra 2.0 MiB would use more than the limit 716.8 MiB. Currently 
    using 715.0 MiB. dbms.memory.transaction.total.max threshold reached.

This is caused by the free-to-use version of Neo4j, which does not have a statement similar to DROP [database]. If you empty the graph database, it needs to delete every node and edge and this fails when there are a lot of nodes and edges. This happens when you use Neo4j Desktop, and might happen sometimes when you are using Neo4j Community Edition.

Solution for Neo4j Community Edition

Read Empty a Neo4j Community Edition database.

Solution for Neo4j Desktop

You can do the following for Neo4j Desktop and Ricgraph:

  1. Start Neo4j Desktop if it is not running yet.
  2. Move your mouse to "Project" in the left column. A red trash can icon appears. Click it to remove the database. Confirm.
  3. The text "No projects found" will appear. Create a project by clicking the button "+ New Project".
  4. The text "Project" appears with the text "Add a DBMS to get started". Click on the "+ Add" button next to it and select "Local DBMS". Leave the name as it is ("Graph DBMS") and fill in a password. Choose an easy to type and short one since the DBMS will only be accessible from your own machine. Click "Create". Also, insert the password in field graphdb_password in the Ricgraph initialization file.
  5. Ready.