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DeepPhe / DeepPhe-Release

Public release of the DeepPhe analytic software
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could not connect to the dictionary db #14

Closed savo0014 closed 5 years ago

savo0014 commented 5 years ago

When I ran the startGui after the first run finished, I get this error "could not reopen dabase..." after attempting to connect to the dabase for the dictionary lookup. I vaguely remember there was a file that locked the db and that needed to be removed after each run. Could remind me what the file was?

seanfinan commented 5 years ago

There is a lock file that is created during runs, but it should not need to be removed manually unless there is a problem. If there is a lock then the next run should report such a case in the log and point to the lock file. It is normally in resources/org/apache/ctakes/dictionary/lookup/fast/ncit_plus_16ab

savo0014 commented 5 years ago

yes, there was a lck file in resources/org/apache/ctakes/dictionary/lookup/fast/ncit_plus_16ab. i removed manually and then re-ran without issues.

seanfinan commented 5 years ago

A shutdown hook should be added to Apache cTAKES to automatically clean up an hsql db lock file if there is a system failure.

seanfinan commented 5 years ago

Placed fix in Apache cTAKES. See cTAKES jira item #526 https://issues.apache.org/jira/browse/CTAKES-526