$ $INSTDIR/sbin/rt-setup-database --action upgrade --datadir $TARBALL/etc/upgrade/
Use of qw(...) as parentheses is deprecated at $INSTDIR/sbin/../lib/RT/Articles.pm line 586.
Use of qw(...) as parentheses is deprecated at $INSTDIR/sbin/../lib/RT/Articles.pm line 794.
In order to create or update your RT database, this script needs to connect to your  mysql instance on $DBHOST as $DBUSER
Please specify that user's database password below. If the user has no database
password, just press return.

Password: 
Working with:
Type:   mysql
Host:   $DBHOST
Name:   $DBNAME
User:   $DBUSER
DBA:    $DBUSER
Enter RT version you're upgrading from: 3.8.7

Going to apply following upgrades:
* 3.8.8   
* 3.8.9   
* 3.9.1   
* 3.9.2   
* 3.9.3   
* 3.9.5   
* 3.9.6   
* 3.9.7   
* 3.9.8   
* 4.0.0rc2
* 4.0.0rc4
* 4.0.0rc7

Enter RT version if you want to stop upgrade at some point,
  or leave it blank if you want apply above upgrades:

IT'S VERY IMPORTANT TO BACK UP BEFORE THIS STEP

Proceed [y/N]:y
Processing 3.8.8
Now inserting data.
[Sun Jun 12 01:18:06 2011] [warning]: Couldn't set SortOrder: That is already the current value ($TARBALL/etc/upgrade//3.8.8/content:32)
[Sun Jun 12 01:18:06 2011] [warning]: Couldn't set SortOrder: That is already the current value ($TARBALL/etc/upgrade//3.8.8/content:32)
[Sun Jun 12 01:18:06 2011] [warning]: Couldn't set SortOrder: That is already the current value ($TARBALL/etc/upgrade//3.8.8/content:32)
[Sun Jun 12 01:18:06 2011] [warning]: Couldn't set SortOrder: That is already the current value ($TARBALL/etc/upgrade//3.8.8/content:32)
Processing 3.8.9
Now inserting data.
[Sun Jun 12 01:18:16 2011] [warning]: Use of uninitialized value in string eq at $INSTDIR/sbin/../lib/RT/Template.pm line 627, <> line 1. ($INSTDIR/sbin/../lib/RT/Template.pm:627)
[Sun Jun 12 01:18:16 2011] [warning]: Use of uninitialized value in string eq at $INSTDIR/sbin/../lib/RT/Template.pm line 627, <> line 1. ($INSTDIR/sbin/../lib/RT/Template.pm:627)
[Sun Jun 12 01:18:16 2011] [warning]: Use of uninitialized value in string eq at $INSTDIR/sbin/../lib/RT/Template.pm line 627, <> line 1. ($INSTDIR/sbin/../lib/RT/Template.pm:627)
Processing 3.9.1
Now inserting data.
Processing 3.9.2
Now inserting data.
Processing 3.9.3
Now populating database schema.
Processing 3.9.5
Now populating database schema.
Processing 3.9.6
Now populating database schema.
Processing 3.9.7
Now populating database schema.
Now inserting data.
Processing 3.9.8
Now populating database schema.
Now inserting data.
[Sun Jun 12 01:18:40 2011] [error]: You appear to be upgrading from RTFM 2.0 - We don't support upgrading this old of an RTFM yet ($TARBALL/etc/upgrade//3.9.8/content:12)
[Sun Jun 12 01:18:40 2011] [error]: We found RTFM tables in your database.  Checking for content. ($TARBALL/etc/upgrade//3.9.8/content:15)
[Sun Jun 12 01:18:40 2011] [warning]: DBD::mysql::db selectall_arrayref failed: Table '$DBNAME.FM_Articles' doesn't exist at $TARBALL/etc/upgrade//3.9.8/content line 17. ($TARBALL/etc/upgrade//3.9.8/content:17)
Processing 4.0.0rc2
Now populating database schema.
Processing 4.0.0rc4
Now populating database schema.
Processing 4.0.0rc7
Now inserting data.
Done.