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Inorder to fix database showing 0MB size in cpanel, try to enable Database disk calculation via
WHM >> Server Configuration >> Tweak Settings>>SQL>> Include databases in disk usage calculations
Otherwise, resolve this issue you have to edit following file /var/cpanel/cpanel.config
root@support[~]vi /var/cpanel/cpanel.config
Search line “disk_usage_include_sqldbs” in file “ /var/cpanel/cpanel.config “ and change it
From
disk_usage_include_sqldbs=0
to
disk_usage_include_sqldbs=1
And run script
-/scripts/update_db_cache
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