MySQL Incorrect key file during upgrade
Platform Notice: Data Center Only - This article only applies to Atlassian products on the Data Center platform.
Note that this KB was created for the Data Center version of the product. Data Center KBs for non-Data-Center-specific features may also work for Server versions of the product, however they have not been tested. Support for Server* products ended on February 15th 2024. If you are running a Server product, you can visit the Atlassian Server end of support announcement to review your migration options.
*Except Fisheye and Crucible
Symptoms
Upgrade fails with the following appears in the atlassian-fisheye-<date>.log:
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2013-06-14 18:15:00,086 ERROR - The Web context could not be started
org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'dbControlFactory' defined in ServletContext resource [/WEB-INF/applicationContext.xml]: Instantiation of bean failed; nested exception is org.springframework.beans.BeanInstantiationException: Could not instantiate bean class [com.cenqua.crucible.hibernate.DBControlFactoryImpl]: Constructor threw exception; nested exception is com.cenqua.crucible.hibernate.CruDBException: Problem upgrading with script /srv/atlassian/fisheye/sql/MYSQL/upgrade/upgrade_81.sql: Incorrect key file for table '/tmp/#sql_69b_0.MYI'; try to repair it
at org.springframework.beans.factory.support.ConstructorResolver.autowireConstructor(ConstructorResolver.java:288)
at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.autowireConstructor(AbstractAutowireCapableBeanFactory.java:1003)
at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBeanInstance(AbstractAutowireCapableBeanFactory.java:907)
at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:485)
Cause
MySQL temporary table size has been full.
Resolution
Roll back the database
Increase tmp_table_size in MySQL
Redo the upgrade
Updated on April 8, 2025
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