Error: Invalid standardizer configuration

Hi,

When I test the examples(db_search and ajax), sometimes I get a error as follow:

Error:

Invalid standardizer configuration

 

Who can help me? Thanks!

 

 

Hi,

please specify your JChem version, Java version, and the activity when this error was appeared.
Did you use custom standardization configuration?

Also please send me stack trace about the error. (If you use 
db_search JSP example on localhost you can see the stack trace in the
connection window of Tomcat server).

Regards, Edvard

Thanks for your reply.

Sometimes, when I restart  the computer , I find that the examples did not work.

Best regards!

cyw

------------------------------------------------------------------

Java Plug-in 1.6.0_21
 JRE version 1.6.0_21-b07 Java HotSpot(TM) Client VM

JChemWebServicesInstaller-5_3_4

--------------------------------------------------------------------------

chemaxon.reaction.StandardizerException: Error occured during XML parsing.
Caused by:
org.dom4j.DocumentFactory cannot be cast to org.dom4j.DocumentFactory Nested exc
eption: org.dom4j.DocumentFactory cannot be cast to org.dom4j.DocumentFactory
        at chemaxon.reaction.StandardizerConfiguration.readXML(StandardizerConfi
guration.java:114)
        at chemaxon.reaction.StandardizerConfiguration.read(StandardizerConfigur
ation.java:63)
        at chemaxon.reaction.Standardizer.<init>(Standardizer.java:325)
        at chemaxon.jchem.db.TableInfo.getStandardizers(TableInfo.java:1479)
        at chemaxon.jchem.db.JChemSearch.initTable(JChemSearch.java:2121)
        at chemaxon.jchem.db.JChemSearch.init(JChemSearch.java:2946)
        at chemaxon.jchem.db.JChemSearch.search1(JChemSearch.java:1616)
        at chemaxon.jchem.db.JChemSearch.search(JChemSearch.java:1516)
        at chemaxon.jchem.db.JChemSearch.access$1900(JChemSearch.java:116)
        at chemaxon.jchem.db.JChemSearch$SearchThread.run(JChemSearch.java:508)
Caused by: org.dom4j.DocumentException: org.dom4j.DocumentFactory cannot be cast
 to org.dom4j.DocumentFactory Nested exception: org.dom4j.DocumentFactory cannot
 be cast to org.dom4j.DocumentFactory
        at org.dom4j.io.SAXReader.read(SAXReader.java:484)
        at org.dom4j.io.SAXReader.read(SAXReader.java:343)
        at chemaxon.reaction.StandardizerConfiguration.readXML(StandardizerConfi
guration.java:110)
        ... 9 more
chemaxon.jchem.db.DatabaseSearchException: Invalid standardizer configuration
        at chemaxon.jchem.db.JChemSearch.initTable(JChemSearch.java:2125)
        at chemaxon.jchem.db.JChemSearch.init(JChemSearch.java:2946)
        at chemaxon.jchem.db.JChemSearch.search1(JChemSearch.java:1616)
        at chemaxon.jchem.db.JChemSearch.search(JChemSearch.java:1516)
        at chemaxon.jchem.db.JChemSearch.access$1900(JChemSearch.java:116)
        at chemaxon.jchem.db.JChemSearch$SearchThread.run(JChemSearch.java:508)
chemaxon.jchem.db.DatabaseSearchException: Invalid standardizer configuration
        at chemaxon.jchem.db.JChemSearch.initTable(JChemSearch.java:2125)
        at chemaxon.jchem.db.JChemSearch.init(JChemSearch.java:2946)
        at chemaxon.jchem.db.JChemSearch.search1(JChemSearch.java:1616)
        at chemaxon.jchem.db.JChemSearch.search(JChemSearch.java:1516)
        at chemaxon.jchem.db.JChemSearch.access$1900(JChemSearch.java:116)
        at chemaxon.jchem.db.JChemSearch$SearchThread.run(JChemSearch.java:508)

 

 

Hi,

if you set custom standardization during the table creation  your standardizer config XML file might be not valid. Could you send us that XML file?

If  you have multiply instances of dom4j.jar and they are different versions, it may mean problem also. JChem lib directory contains dom4j, please check your classpath if there is not any other instances of that.

Regards, Edvard

Hi,

The command 

jcman t <table_name>

can print the standardizer configuration set for the table (and many other things).

However I'm also more suspicious a dom4j.jar version problem.

Szilard