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specify / specify6

Source Code for Specify 6, Biological Collections Management Platform
https://specifysoftware.org
GNU General Public License v2.0
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Error message when updating database from 6.6.06 to 6.7 #116

Closed tlammer closed 5 years ago

tlammer commented 6 years ago

Got this message when I updated the cornell birds database from 6.6.06 to 6.7 com.mysql.jdbc.exceptions.jdbc4.MySQLSyntaxErrorException: Variable 'optimizer_switch' can't be set to the value of 'derived_merge=off' at sun.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method) at sun.reflect.NativeConstructorAccessorImpl.newInstance(Unknown Source) at sun.reflect.DelegatingConstructorAccessorImpl.newInstance(Unknown Source) at java.lang.reflect.Constructor.newInstance(Unknown Source) at com.mysql.jdbc.Util.handleNewInstance(Util.java:389) at com.mysql.jdbc.Util.getInstance(Util.java:372) at com.mysql.jdbc.SQLError.createSQLException(SQLError.java:980) at com.mysql.jdbc.MysqlIO.checkErrorPacket(MysqlIO.java:3835) at com.mysql.jdbc.MysqlIO.checkErrorPacket(MysqlIO.java:3771) at com.mysql.jdbc.MysqlIO.sendCommand(MysqlIO.java:2435) at com.mysql.jdbc.MysqlIO.sqlQueryDirect(MysqlIO.java:2582) at com.mysql.jdbc.ConnectionImpl.execSQL(ConnectionImpl.java:2531) at com.mysql.jdbc.StatementImpl.executeUpdate(StatementImpl.java:1618) at com.mysql.jdbc.StatementImpl.executeUpdate(StatementImpl.java:1549) at edu.ku.brc.specify.conversion.BasicSQLUtils.update(BasicSQLUtils.java:1082) at edu.ku.brc.specify.dbsupport.SpecifySchemaUpdateService.fixDupPrepGuids(SpecifySchemaUpdateService.java:2546) at edu.ku.brc.specify.dbsupport.SpecifySchemaUpdateService.manuallyFixDB(SpecifySchemaUpdateService.java:2500) at edu.ku.brc.specify.dbsupport.SpecifySchemaUpdateService.updateSchema(SpecifySchemaUpdateService.java:495) at edu.ku.brc.af.ui.db.DatabaseLoginPanel$17.doLoginContinuing2(DatabaseLoginPanel.java:1387) at edu.ku.brc.af.ui.db.DatabaseLoginPanel$17$2.exited(DatabaseLoginPanel.java:1357) at com.install4j.runtime.installer.helper.apiimpl.ApplicationLauncherImpl$CommFileWaiter.exited(Unknown Source) at com.install4j.runtime.installer.helper.apiimpl.ApplicationLauncherImpl$CommFileWaiter.run(Unknown Source)

timo11 commented 6 years ago

what version of mysql?

tlammer commented 6 years ago

5.6

timo11 commented 6 years ago

5.6 doesn't have a derived_merge optimizer_switch option. Hopefully the fix will eliminate the exception.

tlammer commented 6 years ago

was able to update cornell birds without a problem