HTTP Clients communicating with this ctakes-covid-container such as https://github.com/Machine-Learning-for-Medical-Language/ctakes-client-py/ should be able to speak HTTPS and not HTTP which is the current container default. For some environments, this is a HITRUST (hipaa+) requirement and in general good security practice.

From localmachine with 32GB memory, Mac M1
$ uname -a
Darwin 21.6.0 Darwin Kernel Version 21.6.0: Wed Aug 10 14:28:23 PDT 2022; root:xnu-8020.141.5~2/RELEASE_ARM64_T6000 arm64

`23 Sep 2022 20:08:11 INFO UmlsUserApprover - UMLS Account has been validated

23 Sep 2022 20:08:11 INFO JdbcConnectionFactory - Connecting to jdbc:hsqldb:file:org/apache/ctakes/dictionary/lookup/fast/snorx_2021aa/snorx_2021aa:
23 Sep 2022 20:08:11 INFO ENGINE - open start - state not modified
..............................................23 Sep 2022 20:08:26 FATAL ENGINE - readExistingData failed 849823
java.lang.OutOfMemoryError: GC overhead limit exceeded
at org.hsqldb.RowAVL.setNewNodes(Unknown Source)
at org.hsqldb.RowAVL.(Unknown Source)
at org.hsqldb.persist.RowStoreAVLMemory.getNewCachedObject(Unknown Source)
at org.hsqldb.Table.insertData(Unknown Source)
at org.hsqldb.Table.insertFromScript(Unknown Source)
at org.hsqldb.scriptio.ScriptReaderText.readExistingData(Unknown Source)
at org.hsqldb.scriptio.ScriptReaderBase.readAll(Unknown Source)
at org.hsqldb.persist.Log.processScript(Unknown Source)
at org.hsqldb.persist.Log.open(Unknown Source)
at org.hsqldb.persist.Logger.open(Unknown Source)
at org.hsqldb.Database.reopen(Unknown Source)
at org.hsqldb.Database.open(Unknown Source)
at org.hsqldb.DatabaseManager.getDatabase(Unknown Source)
at org.hsqldb.DatabaseManager.newSession(Unknown Source)
at org.hsqldb.jdbc.JDBCConnection.(Unknown Source)
at org.hsqldb.jdbc.JDBCDriver.getConnection(Unknown Source)
at org.hsqldb.jdbc.JDBCDriver.connect(Unknown Source)
at java.sql.DriverManager.getConnection(DriverManager.java:664)
at java.sql.DriverManager.getConnection(DriverManager.java:247)
at org.apache.ctakes.dictionary.lookup2.util.JdbcConnectionFactory.getConnection(JdbcConnectionFactory.java:85)
at org.apache.ctakes.dictionary.lookup2.dictionary.JdbcRareWordDictionary.(JdbcRareWordDictionary.java:91)
at org.apache.ctakes.dictionary.lookup2.dictionary.JdbcRareWordDictionary.(JdbcRareWordDictionary.java:72)
at org.apache.ctakes.dictionary.lookup2.dictionary.UmlsJdbcRareWordDictionary.(UmlsJdbcRareWordDictionary.java:31)
at sun.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method)
at sun.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:62)
at sun.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45)
at java.lang.reflect.Constructor.newInstance(Constructor.java:423)
at org.apache.ctakes.dictionary.lookup2.dictionary.DictionaryDescriptorParser.parseDictionary(DictionaryDescriptorParser.java:195)
at org.apache.ctakes.dictionary.lookup2.dictionary.DictionaryDescriptorParser.parseDictionaries(DictionaryDescriptorParser.java:155)
at org.apache.ctakes.dictionary.lookup2.dictionary.DictionaryDescriptorParser.parseDescriptor(DictionaryDescriptorParser.java:127)
at org.apache.ctakes.dictionary.lookup2.ae.AbstractJCasTermAnnotator.initialize(AbstractJCasTermAnnotator.java:137)
at org.apache.uima.analysis_engine.impl.PrimitiveAnalysisEngine_impl.initializeAnalysisComponent(PrimitiveAnalysisEngine_impl.java:267)
.23 Sep 2022 20:08:26 WARN ENGINE - Script processing failure
org.hsqldb.HsqlException: error in script file line: 849823 java.lang.OutOfMemoryError: GC overhead limit exceeded
`

git this error while trying to run the container:

regards

ctakes moved from subversion to github and did some reorganization. need to make sure we can still build the container from the new repo to keep up with new features.