Dear ABI Prism™6100 PrepStation User,

850 Lincoln Centre Drive
Foster City, CA 94404 U.S.A..
T 650.570.6667 F 650.572.2743
www.appliedbiosystems.com
Dear ABI Prism™6100 PrepStation User,
Thank you for installing the latest version of 6100 firmware. Detailed descriptions of the new features and
protocols in this upgrade may be found by downloading, from www.appliedbiosystems.com/6100, the 6100
Users Manual revision A2.
To install the new version of firmware please refer to and read carefully the 6100 user’s manual Chapter 11
“Firmware Upgrade” at the end of this letter. Failure to follow the directions in this chapter may result in loss of
stored methods.
Version 1.07 of 6100 firmware has the following new features:
1. Methods. The ability to create, edit, save and delete up to 300 new methods.
2. Methods. The abilty to sort methods, by method name, number of steps or date last used.
3. Pre-Defined Methods. The addition of new Pre-Defined Methods. These consist of versions of the existing
RNA isolation protocols incorporating steps to enable use of a new “in-protocol”, “on-column” DNase
reagent for the removal of any residual contaminating genomic DNA. The reagent is called AbsoluteRNA
Wash Solution (p/n 4305545).
4. Pre-Defined Methods. The ability to copy and edit Applied Biosystems Pre-Defined Methods and save
them your own user name.
5. Users. The ability to add up to 18 user names (for a total of 20 users) with secure PIN numbers. Users
may then save new methods against their user name, ensuring that their own protocols are stored safely.
6. Utilities. Addition of a real time clock and date display in the instrument front screen. The date and time
may be formatted in a number of different ways from the instrument utility page.
The following features are NOT included in this version but will be completed in subsequent upgrades.
1. Printing
2. Run Log
If anyone has any further questions, or requires help with the firmware upgrade procedure please contact your
local technical support personnel.
Best regards
Andy Felton
Product Manager
Sample Preparation Systems
Firmware Upgrade
11
Overview
About This Chapter This chapter explains how to upgrade the firmware on the ABI PRISM™ 6100 Nucleic
Acid PrepStation. Your 6100 prepstation has firmware loaded when you receive it.
This chapter describes how to upgrade to a later version of firmware when it becomes
available.
In This Chapter This chapter contains the following topics:
Topic
See Page
Preparing for a Firmware Upgrade
11-2
Upgrading Firmware
11-7
Troubleshooting Upgrade Problems
11-12
Firmware Upgrade 11-1
Preparing for a Firmware Upgrade
Overview Preparing to upgrade the firmware consists of the following procedures:
Procedure
See Page
Connecting the Serial Cable
11-2
Installing Utility Software
11-2
Copying Firmware
11-6
IMPORTANT If you are attempting to download an older version of firmware than is currently
running on the 6100 prepstation, see “About Downgrading” on page 11-15.
Connecting the A serial cable is provided with the 6100 prepstation.
Serial Cable
To connect the serial cable:
Step
Action
1
Attach one end of the cable to the COM 1 port on your PC.
2
Attach the other end to the firmware download serial port at the rear of the 6100
prepstation. It is the second connector from the top, as shown below.
GR2082
Firmware
download
port
Installing Utility To install the Utility Software on your PC:
Software
Step
11-2 Firmware Upgrade
Action
1
Close all programs running on your PC.
2
Insert the Utility Software CD in your PC’s CD drive and close the drive door.
To install the Utility Software on your PC: (continued)
Step
3
Action
Choose Start > Run.
The Run window appears.
4
In the Open box type
E:\ABI6100 Utility Installer.exe
(where E is the appropriate drive letter) or browse for this file by clicking Browse.
Then click OK.
The InstallAnywhere program runs.
Firmware Upgrade 11-3
To install the Utility Software on your PC: (continued)
Step
5
Action
Click Next.
The Choose Install Folder screen appears.
11-4 Firmware Upgrade
To install the Utility Software on your PC: (continued)
Step
6
Action
Choose one of the following:
If you want to...
Then...
choose the default folder
(Recommended.)
click Install.
choose a different folder
type a different drive letter (for
example) in the window or click
Choose to browse for a different
folder; then click Install.
The InstallAnywhere program installs the Utility Software on your hard drive and
then displays the Install Complete screen.
7
Click Done.
8
Remove the Utility Software CD from your CD drive and put it in a safe place.
The program displays “Cleaning Up” and creates an ABI6100 icon on your desktop.
Firmware Upgrade 11-5
Copying Firmware To copy the firmware file to your PC:
Step
Action
1
Insert the Firmware CD in your PC’s CD drive and close the drive door.
2
Choose Start > Run.
The Run window appears.
3
Click Browse.
4
Click the firmware file (e.g., prep0100.abs) to select it (the only file on the CD), then
press Ctrl-C to copy it.
5
Close the Browse window and the Run window.
6
Choose Start > Programs > Windows Explorer.
7
Locate the folder where you installed the Utility Software. If you used the default
setting, it was
C:\Program Files\ABI6100\ABI 6100 Utility Software
8
Click the Firmware folder to select and open it.
9
Press Ctrl-V to paste the firmware file (e.g., prep0100.abs) in the Firmware folder.
IMPORTANT Do not rename the firmware file.
10
11-6 Firmware Upgrade
Remove the Firmware CD from your CD drive and put it in a safe place.
Upgrading Firmware
Procedure To upgrade the firmware on the 6100 prepstation:
Step
1
Action
Ensure that:
♦ The 6100 prepstation’s power is on
♦ The procedures in “Preparing for a Firmware Upgrade” on page 11-2 have been
performed
2
Close all programs running on your PC.
3
On your PC desktop double-click the ABI6100 icon.
The Utility Application screen appears.
Firmware Upgrade 11-7
To upgrade the firmware on the 6100 prepstation: (continued)
Step
4
Action
Click Choose File.
The Choose Firmware Download File screen appears.
5
Double-click the Firmware folder icon.
The firmware file (e.g., prep0100.abs) is listed on the screen.
11-8 Firmware Upgrade
To upgrade the firmware on the 6100 prepstation: (continued)
Step
6
Action
Click the firmware file to highlight it, then click Open.
The Utility Application screen appears again with the selected file name displayed.
7
Click the Start button, which turns green as you get your cursor close to it.
The Utility Application downloads the firmware to the 6100 prepstation. On the
screen the Bytes Remaining count down. The scroll bar moves at a uniform rate, so
you can judge how long the download will take. On the 6100 prepstation the LED at
the rear of the instrument flashes green quickly.
Firmware Upgrade 11-9
To upgrade the firmware on the 6100 prepstation: (continued)
Step
8
Action
Wait while the firmware completes the installation.
The Completing Installation screen appears.
IMPORTANT Do not turn the power off on the 6100 prepstation. Doing so will
cause you to lose your methods, users, and preferences.
The 6100 prepstation displays its Completing Installation screen.
Completing Installation...
This may take several minutes.
Do NOT cycle the instrument
power at this time!
F1
F2
F3
F4
F5
Then it displays the main menu.
HH:MM:SS
Applied Biosystems
MM/DD/YY
ABI PRISM™ 6100 PrepStation
Version 01.00
Quick
F1
11-10 Firmware Upgrade
User: <ABI>
Method
User
F2
F3
Log
Util
F4
F5
To upgrade the firmware on the 6100 prepstation: (continued)
Step
9
Action
When you can see the main menu on the 6100 prepstation, the download is
complete. Check to be sure that the main menu is visible. When it is, click OK.
The Confirm screen appears.
10
Check again to be sure that the main menu is visible. When it is, click Yes.
The Firmware Download Complete screen appears.
11
Click OK.
12
View the screen on the 6100 prepstation.
Remote Control of 6100...
Cycle power to restart in normal mode.
Wait 5 seconds before turning the
power back on.
F1
13
F2
F3
F4
F5
Power off the 6100 prepstation, wait 5 seconds, then turn the power back on.
The main menu appears, showing the new firmware version.
HH:MM:SS
Applied Biosystems
MM/DD/YY
ABI PRISM™ 6100 PrepStation
Version 01.00
Quick
F1
14
User: <ABI>
Method
User
F2
F3
Log
Util
F4
F5
On the PC, choose File > Exit to close the Utility Application.
Firmware Upgrade 11-11
Troubleshooting Upgrade Problems
Overview The following topics may help you troubleshoot any firmware upgrade problems:
Topic
See Page
Viewing Firmware Information
11-12
Error Messages Table
11-14
Troubleshooting Table
11-14
About the LED
11-15
About Downgrading
11-15
Viewing Firmware When you have set up the PC and 6100 prepstation and are ready to download
Information firmware, the PC queries the instrument as to what versions it is running before the
download actually begins. You can view this information.
To view firmware information:
Step
1
Action
After step 3 on page 11-7, in the Utility Application choose File > Get Firmware
Info.
The following screen appears.
11-12 Firmware Upgrade
To view firmware information: (continued)
Step
2
Action
View the information on the screen.
Field
Explanation
Boot Version
Version number of the boot loader firmware currently
running. This firmware resides in a Flash ROM on the
system board. It is responsible for checking the validity of
the application firmware, and, if necessary, restoring it
from Flash or the firmware download serial port.
Method Version
Version of methods that is running on the 6100
prepstation. It should always be the same as the
Download Version unless there are problems in the
system. If this field is ‘00.00’, then the methods were lost
or corrupted.
Download Version
Version number of the firmware application currently
running. This firmware is downloaded to the system
through the firmware download serial port. If this field is
‘??.??’, the application is not available.
Checksum
This checksum serves as a check for the application
firmware to ensure that the correct firmware is running. It
is a double-check in case the application version
reported is misleading or incorrect. If this field is blank,
the bootloader is running.
Firmware Type
If the
Firmware
Type is...
Then...
6100
the application firmware is running
on the 6100 prepstation.
BOOT
the bootloader is running on the
6100 prepstation. This means that
the application firmware was lost
due to a hardware error or system
error. No screens will be showing
on the 6100 prepstation. The LED
at the instrument’s rear will be
blinking at the rate of 2
blinks/second.
3
Check the Firmware Type field. If the value is BOOT, you must download new
firmware
4
Click OK to return to the Utility Application screen.
Firmware Upgrade 11-13
Error Messages The following table lists firmware upgrade error messages, a description of the
Table message, and recommended action.
Message
Description
Recommended Action
No file selected
Message occurs after you select a file to
download.
Switch on the 6100 prepstation power.
Warning! Application detected
that your firmware methods
are lost.
The Utility Application determined that the
methods were lost before it attempted to
download new firmware. This may be due to
a hardware error or a system error.
♦ Download new firmware.
Warning! You are trying to
download an older version.
User developed methods will
be deleted. Are you SURE
you want to do this? Yes/No
The firmware version you are attempting to
download is older than the version currently
running on the 6100 prepstation.
See “About Downgrading” on
page 11-15.
♦ If the problem persists, contact
Technical Support.
Troubleshooting The following table lists the problem, possible causes, and a check and/or remedy for
Table troubleshooting the firmware upgrade to the 6100 prepstation.
Problem
Possible Causes
Check and/or Remedy
Method version is ‘00.00’
Methods on the 6100 prepstation were
lost
♦ Download new firmware.
♦ Serial cable is unplugged or not
seated properly
♦ Check and reseat the serial
cable.
♦ 6100 prepstation power is not on
♦ Switch on the power.
Serial cable was disconnected
a. Check and reseat the serial
cable.
Communication error: no response
from instrument
Communication was broken during a
download.
♦ If the problem persists, contact
Technical Support.
b. Switch off the power, wait 5
seconds, then switch the power
on again.
c. Start the download procedure
again.
11-14 Firmware Upgrade
About the LED The green LED at the rear of the 6100 prepstation can provide troubleshooting
information, as follows:
Indicator
Meaning
Solid
The application firmware is running OK on the 6100
prepstation
Blinking quickly
Firmware is being downloaded
Blinking at 2 blinks/second
The boot loader is running
No light
The 6100 prepstation is unplugged or a fuse has blown.
About Downgrading Downgrading to an earlier version of firmware is not recommended. However, there
may be certain circumstances in your lab that require you to run an earlier firmware
version.
If you do downgrade, your users, methods, and preferences will be lost.
To preserve your methods:
Step
Action
1
Before downgrading, print your methods.
2
After downgrading, recreate the methods manually.
Firmware Upgrade 11-15