Analyst® 1.4.1 Software with
Hotfixes to April 2005
Installation Guide
Part Number: 1018144 B
May 2005
http://www.appliedbiosystems.com
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Contents
About This Guide . . . . . . . . . . . . . . . . . .5
Important Information to Know Before
Upgrading . . . . . . . . . . . . . . . . . . . . . . . . 5
Support . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6
Requirements for Analyst Software
Installation . . . . . . . . . . . . . . . . . . . . . . . .7
Operating System Requirements . . . . . . . . 7
Acquisition Workstation Requirements . . . 7
Processing Workstation Requirements . . . 9
Compatibility with Add-on Software . . . . . 9
Supported Mass Spectrometers . . . . . . . . . 9
Contents of the Analyst 1.4.1
Software CD . . . . . . . . . . . . . . . . . . . . . 10
Upgrade Instructions for Workstations
Running Analyst 1.4 Software . . . . . . .13
How To Use These Upgrade Instructions
for Acquisition Workstations Versus
Processing Workstations . . . . . . . . . . . .
Task List for Upgrading. . . . . . . . . . . . . .
Preparing to Upgrade . . . . . . . . . . . . . . .
Upgrading to Analyst 1.4.1 Software. . . .
Installing the Metabolite ID Software
After Upgrading . . . . . . . . . . . . . . . . . .
13
14
16
17
34
iii
Analyst User Registration. . . . . . . . . . .35
Script Installation . . . . . . . . . . . . . . . . .37
Installing Scripts . . . . . . . . . . . . . . . . . . . . 37
Network Installation . . . . . . . . . . . . . . .39
Important Information to Know Before
Installing . . . . . . . . . . . . . . . . . . . . . . . . . . 39
Installing Analyst 1.4.1 Software Over
the Network. . . . . . . . . . . . . . . . . . . . . . . 39
Troubleshooting Installation . . . . . . . .43
Appendix A: Appendix A: Supported
Instrument Firmware and Configuration
Tables . . . . . . . . . . . . . . . . . . . . . . . . . . .45
Appendix B: Appendix B: Supported
Peripheral Devices and Firmware . . . .47
Notes on Firmware for Agilent users . . . . 51
iv
Analyst 1.4.1 Software Installation Guide
About This Guide
This guide provides information about and procedures for
upgrading to Analyst® 1.4.1 software with hotfixes to April 2005
from Analyst 1.4 software. First, read the section “Requirements
for Analyst Software Installation” on page 7, and then follow the
procedures in the section “Upgrade Instructions for Workstations
Running Analyst 1.4 Software” on page 13. This guide also
includes information on installing scripts, supported peripheral
devices and firmware, and troubleshooting installation.
This installation CD differs from the original Analyst 1.4.1 CD
package as it will automatically upgrade the software to version
1.4.1 with HotFixes to April 2005. This HotFix is required for all
users.
For information about new software features, enhancements, and
known issues, refer to the Release Notes for both Analyst 1.4.1
and the Analyst 1.4.1 HotFixes to April 2005 included with the
Analyst 1.4.1 Software with HotFixes to April 2005 CD.
Important Information to Know Before
Upgrading
To ensure your upgrade is successful, read the following points
carefully before you start any of the procedures in this guide:
•
Do not attempt to upgrade the software without following
the upgrade instructions provided in this guide.
•
New files (for example data and method files) that you
generate on a computer running the Analyst 1.4.1 software
will not be readable on computers running the Analyst 1.4
software or earlier releases. This means that if you have
multiple computers at your site, you should consider
upgrading all computers that will be used to process Analyst
1.4.1 data.
•
If you open a Results Table from Analyst version 1.4 or
earlier in the Analyst 1.4.1 software, you will no longer be
able to open it in Analyst 1.4 or earlier versions of the
software.
•
Use the task list provided at the beginning of the upgrade
procedure in this guide to check off each task as you
5
About This Guide
complete it. The order in which you carry out the upgrade
steps is important. If you are upgrading more than one
workstation, you can make photocopies of the task list so
you have a copy for each workstation.
•
Ensure you back up the Analyst Data folder to a safe location
before upgrading, as described in the procedures later in this
document. Do not simply rename the existing folder. This
folder contains the API Instrument folder, which contains the
basic instrument calibration and parameter settings.
•
The Analyst 1.4.1 software with HotFixes to April 2005
installs on top of the Analyst 1.4 software; do not remove the
Analyst 1.4 software before starting the upgrade procedure.
•
Note that there is no way to install just the Analyst 1.4.1
upgrade with this package. This package will automatically
install Analyst 1.4.1 with the Hotfixes to April 2005.
Support
At Applied Biosystems/MDS Sciex, we are committed to
providing the highest level of support for Analyst software users.
To obtain answers to questions about any of our products, report
problems, or suggest improvements, please visit
www.appliedbiosystems.com. For on-site service, support, and
training, please contact your local Applied Biosystems Sales or
Customer service representative.
6
Analyst 1.4.1 Software Installation Guide
Requirements for Analyst Software
Installation
This section explains the operating system, hardware, and
software requirements that acquisition and processing
workstations must meet for the Analyst® software to operate.
Operating System Requirements
Applied Biosystems/MDS Sciex fully supports the use of Analyst
1.4.1 software on:
•
Microsoft Windows 2000 SP2 and SP3
•
Microsoft Windows XP SP1 and SP1a
This applies to both data processing and acquisition workstations,
as well as on Active Directory networks.
Note: As of the software release date, the Analyst 1.4.1 software
does not support SP2 for Windows XP. SP2 introduces complex
changes into the Windows software. Applied Biosystems/MDS
Sciex expects that an update supporting SP2 will be available on
the www.appliedbiosystems.com Web site soon after the release
of the Analyst 1.4.1 software. Registered Analyst users will
receive notification when the update is available.
Acquisition Workstation Requirements
It is highly recommended that you purchase an acquisition
workstation from Applied Biosystems/MDS Sciex. These
configured systems meet all requirements and the selected
models undergo testing and verification with the Analyst
software. Detailed specifications for these systems are shipped
with the hardware.
The configured systems, including the PCI cards, can be ordered
through Applied Biosystems/MDS Sciex. For more information,
contact your Applied Biosystems customer service
representative.
Supported Computer Models
As of the software release date, the Analyst 1.4.1 software has
been tested and verified for compatibility with the following
computer models:
7
Requirements for Analyst Software Installation
•
Dell Precision 360
•
Dell Precision 340
•
Dell GX400
•
Dell GX300
Newer systems might be available. For more information, contact
your Applied Biosystems Customer Service Representative.
Current Shipping Configuration of the Acquisition
Workstations
The configured system comes preinstalled with the Windows
2000 SP3 operating system, Internet Explorer 6.0 SP1, and all
driver software for the PCI cards.
It includes the following peripherals:
•
Flat panel monitor.
•
National Instruments High Performance GPIB card,
preinstalled, required for data acquisition, plus a 2 meter
cable.
•
DIGI Serial Port Expansion Card, PCI Bus Version,
preinstalled, required to control more than 2 peripheral
devices, plus the DB9 male octet harness.
•
(Optional, for additional cost) National Instruments 16-bit
ADC kit, required for analog signal measurement. This
option will support 6 single-ended (ground referenced)
channels at 16 bits/channel.
Note: If you plan to control Agilent LC devices through an
Ethernet connection, an additional network interface card (NIC)
is required. Any standard NIC card can be used.
Supported PCI Cards and Driver Versions
The Analyst 1.4.1 software has been tested with the following
PCI card and driver versions, which are included on the Analyst
1.4.1 Software CD. Instructions for upgrading to the latest
versions are included later in this guide.
8
Analyst 1.4.1 Software Installation Guide
PCI card
National Instruments High Performance
GPIB card
DIGI Serial Port Expansion Card, PCI
Bus Version
National Instruments 16-bit ADC card
Driver version
2.1
2.4.26.0 (Rev. E)
7.1
Processing Workstation Requirements
For data processing workstations, Applied Biosystems/MDS
Sciex recommends at least a Pentium III 600-MHz-based system
with a minimum of 256 MB of RAM and at least 3 GB of internal
hard disk storage. The system supports the Windows 2000 SP3 or
Windows XP SP1 or SP1a operating system and a minimum of
Internet Explorer 6.0 installed.
Some Applied Biosystems/MDS Sciex add-on software requires
additional memory, disk space, and processing speed. For more
information, refer to the documentation included with the
software.
Compatibility with Add-on Software
The following add-on software releases are compatible with the
Analyst 1.4.1 software:
•
Metabolite ID 1.3 for Analyst Software
•
Automaton 1.3 for Analyst Software
•
BioAnalyst 1.4
•
Pro ID 1.4, Pro ICAT 1.4, Pro QUANT 1.4, and Pro BLAST
1.4.1
Supported Mass Spectrometers
The Analyst 1.4.1 software is capable of controlling and
analyzing the data from each of the following Applied
Biosystems/MDS Sciex mass spectrometers:
•
4000 Q TRAP
•
Q TRAP
9
Requirements for Analyst Software Installation
•
API 5000
•
API 4000
•
API 3000
•
API 2000
•
API 365
•
API 300
•
API 165
•
API 150EX
•
API 150MCA
•
API 100B
•
API 100LC
•
API 100
Contents of the Analyst 1.4.1 Software CD
The following software applications, files, folders, and
documents are included on the Analyst 1.4.1 software CD:
•
Analyst 1.4.1 software with Analyst 1.4.1 HotFixes to April
2005
•
Driver software for all supported PCI cards
Note: Driver software for the National Instruments ADC
card is included on a separate CD.
•
Analyst 1.4.1 Release Notes
•
Analyst 1.4.1 HotFixes to April 2005 Release Notes
•
Software Installation Guide for the Analyst 1.4.1 software (a
PDF of the guide you are currently reading)
•
An Extras folder containing the following subfolders:
Š
10
Analyst 1.4.1 Scripts: Contains a collection of scripts
you can install. These scripts are experimental and
provide research-grade functionality that can be added
Analyst 1.4.1 Software Installation Guide
to the software. For information on these scripts, refer to
the Word documents provided with the scripts.
Š
Analyst 1.4: Contains a complete copy of the Analyst
1.4 software release.
Š
Instrument Update: Contains the Firmware/
Configuration Table Update Program
(ConfigUpdater.exe) that you must run after upgrading
the Analyst software.
Š
Automaton 1.3 Hotfix: Contains Hotfix 1 for
Automaton 1.3, which provides support for the new
CTC PAL driver in Analyst 1.4.1, and adds several
features.
Š
ACROREAD: Contains the Adobe Acrobat Reader 6.0
installer.
Š
Examples: Contains some sample results tables,
quantitation methods, sample queries, metric plots,
simulation profiles and sample methods. May be used in
place of the standard Example project installed with the
software.
Š
AAO: Contains the Analyst Access Object (AAO) tools
and user’s guide.
Š
Scripting Cookbook: Contains a guide that provides
information for writing applications to control the
Analyst software.
Š
Peak Finder: Contains a registry file for setting the peak
finder version used on older data files.
Š
Agilent BOOTP Package: Contains instructions and a
utility to allow control of the Agilent LC devices using
Ethernet (in most cases an additional Ethernet adapter
will be required).
11
Requirements for Analyst Software Installation
12
Analyst 1.4.1 Software Installation Guide
Upgrade Instructions for Workstations
Running Analyst 1.4 Software
This section provides procedures for upgrading acquisition
workstations from Analyst® 1.4 software to Analyst 1.4.1
software.
Note: If your current system is running an earlier version of the
Analyst software, you must first upgrade to Analyst 1.4. For
more information, see the Release Notes included with the
Analyst 1.4 software or contact your Applied Biosystems
Customer Service Representative.
How To Use These Upgrade Instructions for
Acquisition Workstations Versus Processing
Workstations
The upgrade instructions in this section can be used for both
acquisition workstations (that is, workstations that are connected
to an instrument) and processing workstations (that is,
workstations that are not connected to an instrument).
Use the following table to understand which upgrade procedures
to complete for each scenario.
For
acquisition
workstations:
Complete all procedures in this section (note that
some procedures are optional, or are required
only if you have certain PCI cards installed in the
workstation).
For processing Complete only those procedures marked with the
workstations: following icon:
P
You can skip any upgrade procedures related to:
•
PCI cards and driver software
•
Upgrading firmware and configuration
tables
13
Upgrade Instructions for Workstations Running Analyst 1.4 Software
Task List for Upgrading
Use the following task list to ensure you complete all the required
steps to prepare for and complete the upgrade. Procedures for
each task are included in this guide on the pages shown in the
right column.
P = Complete only these tasks for a processing workstation.
Tip: Photocopy this checklist so you can check off each step as
you proceed through the upgrade instructions.
Step
Procedure
❑
P
1. Ensure the workstation meets the
Read the section
requirements for installing the Analyst starting on page
software.
7.
❑
P
2. Gather the required and optional
software CDs you need for the
upgrade.
See page 16.
❑
P
3. Prepare the instrument and
workstation for the upgrade.
See page 16.
❑
P
4. Back up the Analyst Data folder to
a safe location.
See page 17.
❑
P
5. Remove the BioAnalyst software
and Pro application software, if it is
installed.
See page 17.
❑
P
6. (Optional) Install Metabolite ID
See page 18.
software or Automaton software if it is
not currently installed.
❑
7. Upgrade the driver software for the See page 18.
National Instruments ADC card, if
you have this card.
❑
8. Upgrade the driver software for the See page 22.
GPIB card.
❑
❑
14
P
9. Install the Analyst 1.4.1 software.
See page 27.
10. Update the firmware and
configuration tables.
See page 31.
Analyst 1.4.1 Software Installation Guide
❑
P
❑
❑
P
❑
P
❑
P
Step
11. Install the BioAnalyst software
and any Pro application software, if
required.
12. Install Hotfix 1 for the Automaton
1.3 software, if required.
13. (Optional) Install any desired
scripts.
14. Run the Analyst software for the
first time.
15. Register the Analyst software
online.
Procedure
See page 32.
See page 32.
See page 33.
See page 33.
See page 35.
15
Upgrade Instructions for Workstations Running Analyst 1.4 Software
Preparing to Upgrade
Complete the following steps before you begin upgrading to the
Analyst 1.4.1 software.
To gather the required and optional software CDs
1.
Locate the following software CDs required for the upgrade:
Š
Analyst 1.4.1 Software CD.
Š
NI-DAQ Version 7.1 Driver CD for Windows XP/2000/
NT/98/Me (for the National Instruments ADC card).
Note: The NI-DAQ CD above is required only if the
computer uses a National Instruments ADC card (to
collect UV data, for example).
2.
If desired, locate CDs containing add-on software for:
Š
Metabolite ID 1.3 for Analyst Software
Š
Automaton 1.3 for Analyst Software
Š
BioAnalyst 1.4
Š
Pro ID 1.4, Pro ICAT 1.4, Pro QUANT 1.4, or Pro
BLAST 1.4.1
To prepare the instrument and workstation for the
upgrade
1.
Restart the computer.
2.
Log on to the computer as a user with local administrator
privileges. Remember to do this after each restart in the
upgrade procedure.
3.
For acquisition workstations only:
a)
Make sure the instrument is powered on and connected
to the GPIB card at the back of the workstation.
b) Deactivate the active hardware profile in the Analyst
software. This is a required step before upgrading driver
software.
c)
16
Do not remove any of the PCI cards from the
workstation.
Analyst 1.4.1 Software Installation Guide
To back up the Analyst Data folder to a safe
location
Do not rename the existing Analyst Data folder. When you
upgrade, it is recommended that you use the same Analyst Data
folder from your previous installation. This gives you access to
your existing data, such as hardware profiles, methods, and data
files. It also retains your InstrumentData.ins and
ParameterSettings.psf files. To perform the backup:
•
Make a backup copy of the files and subfolders in the
Analyst Data folder (do not simply rename the folder). The
default location is D:\Analyst Data. Create the backup in a
safe location, such as a network drive or a CD. You are not
required to restore these files as part of a normal upgrade;
however, it is good practice to ensure a backup exists.
The content of the Analyst Data folder includes the API
Instrument folder, which contains the basic instrument
calibration and parameter settings.
Upgrading to Analyst 1.4.1 Software
Complete the following procedures to upgrade the workstation to
the Analyst 1.4.1 software release.
Note: The order of the upgrade procedures is important. To keep
on track, use the “Task List for Upgrading” on page 14.
To remove BioAnalyst software and any Pro
application software
1.
Using the Windows Add/Remove programs utility, remove
any of the following software applications if they are
installed on the workstation: BioAnalyst, Pro ID, Pro ICAT,
Pro QUANT, or Pro BLAST.
Do not skip this step or these applications will not work after
the Analyst 1.4.1 software is installed. When you have
upgraded to Analyst 1.4.1, you can reinstall these
applications and continue to use them.
17
Upgrade Instructions for Workstations Running Analyst 1.4 Software
Note: If you have BioAnalyst software, refer to the release
notes provided with the software for instructions on
removing and reinstalling the PepSea Server and
Administrator software.
2.
Restart the computer.
(Optional) To install Metabolite ID software or
Automaton software if it is not currently installed
•
If you are planning to use the Metabolite ID software or
Automaton software with Analyst 1.4.1, and they are not
currently installed on the workstation, install them now. If
you wait until after the Analyst software is installed, there
are a few extra steps required. If these applications are
already installed, leave them installed.
To upgrade the driver software for the National
Instruments ADC card, if you have this card
The Analyst 1.4.1 software requires version 7.1 of the driver
software for the National Instruments ADC card. If the computer
uses this card to collect UV data, for example, you must remove
the earlier version of the driver software, and then install the new
version.
1.
Open the Windows Control Panel.
2.
Double-click Add/Remove Programs.
3.
In the list of installed software, look for NI-DAQ 6.9.3, and
then do one of the following:
4.
Š
If you see this entry, complete the remaining steps in
this procedure.
Š
If you do not see this entry, you do not have this driver,
and you can continue to the next procedure.
To remove the NI-DAQ 6.9.3 software, follow the on-screen
instructions.
5.
Restart the computer.
6.
Insert the NI-DAQ Version 7.1 Driver CD into the CD-ROM
drive.
The NI-DAQ installation browser appears.
18
Analyst 1.4.1 Software Installation Guide
Note: If the installation browser does not appear, navigate to
Setup.exe at the root of the CD-ROM drive, and doubleclick it.
7.
Click Install NI-DAQ/NI-SWITCH.
8.
Click Next on the Product Information and Destination
Directory pages.
The Features page appears.
19
Upgrade Instructions for Workstations Running Analyst 1.4 Software
9.
To avoid installing unnecessary features, do the following on
this page:
a)
Click the drop-down arrow to the left of NI-SWITCH
2.1, and then click Do not install this feature.
b) Click the drop-down arrow to the left of NI-DAQmx
7.1, and then click Do not install this feature.
The selections should now look like this:
c)
20
Click Next.
Analyst 1.4.1 Software Installation Guide
10. Follow the on-screen instructions to complete the driver
installation.
11. Restart the computer.
12. Remove the CD from the CD-ROM drive.
13. On Windows XP systems, you might see a Found New
Hardware Wizard window, as shown in the following
illustration. If you do not see this window, skip to the next
step. If you do see this window, click Next, and then click
Finish to complete the wizard.
14. To verify that the driver is installed, do the following:
a)
Open the Windows Control Panel.
b) Double-click Add/Remove Programs.
c)
From the list of installed software, click National
Instruments Software, and then click Change.
The National Instruments Software window appears. If
the driver is installed, you should see NI-DAQ 7.1,
Traditional listed, as shown in the following illustration:
21
Upgrade Instructions for Workstations Running Analyst 1.4 Software
To upgrade the driver software for the GPIB card
The Analyst 1.4.1 software requires version 2.1 of the driver
software for the GPIB card. You must remove the earlier version,
and then install the new version.
1.
If you did not deactivate the active hardware profile at the
beginning of this upgrade procedure, do so now.
2.
Open the Windows Control Panel.
3.
Double-click Add/Remove Programs.
4.
From the list of installed software, click NI-488.2 2.00.
5.
Click Change.
The Add/Remove Application window appears.
22
Analyst 1.4.1 Software Installation Guide
6.
Select Remove All, and then follow the on-screen
instructions to remove the software.
7.
Click Finish when the wizard completes.
8.
Insert the Analyst 1.4.1 Software CD into the CD-ROM
drive.
9.
When the installation browser appears, click Install Prerequisite Software.
10. Click GPIB Driver.
The NI-488.2 for Windows wizard appears.
11. Click Next.
The License Agreement page appears.
12. Read the agreement, select I accept the License
Agreement, and then click Next.
The Destination Folder page appears.
13. Click Next.
The Select Installation Type page appears.
23
Upgrade Instructions for Workstations Running Analyst 1.4 Software
14. Select Typical, and then click Next.
The Start Installation page appears.
15. Click Next.
A progress bar appears, and then the Installation Complete
page appears.
16. Click Next.
The Add GPIB Hardware Wizard window appears.
17. Click PCI-GPIB, and then click Next.
A window appears with options to Shutdown or Restart the
computer.
18. Click Restart, and then click Finish.
The computer restarts.
19. On Windows XP systems, you might see a Found New
Hardware Wizard window, as shown in the following
illustration. If you do not see this window, skip to the next
step. If you do see this window, click Next, and then click
Finish to complete the wizard.
24
Analyst 1.4.1 Software Installation Guide
20. Wait until the following window appears after the restart:
21. Click Verify your hardware and software installation.
When verification is complete, the following message
appears:
22. Click OK.
The following window appears:
25
Upgrade Instructions for Workstations Running Analyst 1.4 Software
23. Click Exit.
The following window appears:
24. Click Exit.
25. Restart the computer.
26. To verify that the driver is installed, do the following:
a)
Open the Windows Control Panel.
b) Double-click Add/Remove Programs.
c)
26
From the list of installed software, look for NI-488.2
2.10, which is the upgraded GPIB driver.
Analyst 1.4.1 Software Installation Guide
To install the Analyst 1.4.1 software
Analyst 1.4 Hotfixes 1 through 7 are removed automatically with
the installation of the Analyst 1.4.1 software, and they are
included in the Analyst 1.4.1 software. For information about
later hotfixes, contact technical support at
www.appliedbiosystems.com.
1.
Ensure that the Analyst 1.4.1 Software CD is in the CDROM drive.
2.
If the installation browser does not appear automatically,
navigate to the CD-ROM drive, and then double-click
Launch.exe.
The installation browser appears.
3.
Click Install Analyst 1.4.1 Software.
After a few moments, the Welcome page appears.
4.
Click Next.
The License Agreement page appears.
5.
Read the agreement, select I accept the terms in the license
agreement, and then click Next.
The Customer Information page appears.
27
Upgrade Instructions for Workstations Running Analyst 1.4 Software
6.
Type your name and company, if they are different from
what is shown, and then click Next.
The following message appears:
7.
Click Yes. When you upgrade, it is recommended that you
use the same Analyst Data folder from your previous
installation. This gives you access to your existing data, such
as hardware profiles, methods, and data files. It also retains
your InstrumentData.ins and ParameterSettings.psf files.
The Destination Folder window appears.
8.
Click Next.
The Help Type window appears.
9.
Select the type of online help you want to use, and then click
Next.
The Overwrite Existing Data page appears.
28
Analyst 1.4.1 Software Installation Guide
10. To avoid overwriting the data files from your previous
installation, ensure the settings in this window are as
follows:
Š
Security Database: Unchecked.
Š
API Instrument: Unchecked.
Š
Compound Database: Unchecked.
Š
Library Search Database: Unchecked.
11. Click Next.
The Ready to Install the Program window appears.
12. Click Install.
The following message appears:
29
Upgrade Instructions for Workstations Running Analyst 1.4 Software
Note: Instructions for running this update are provided in the
procedure “To update the firmware and configuration tables”
on page 31. If you are upgrading a processing workstation,
you do not need to update firmware or configuration tables.
13. Click OK.
The installer installs the software. When the installation is
complete, the following window appears:
14. Click Finish, and then restart the computer.
30
Analyst 1.4.1 Software Installation Guide
To update the firmware and configuration tables
Use the Firmware/Configuration Table Update Program to
automatically determine if either firmware or configuration
tables need to be updated on the system. The utility performs
only the necessary updates. The utility also resets the mass
spectrometer system controller; this is normal and is required by
the update process. Before running this utility, ensure that the
mass spectrometer is powered on and connected to the GPIB card
and that the GPIB driver software is properly installed.
CAUTION! Do not use the SCU - System Controller Utility
(scu21.exe) for this procedure. You could upload the wrong
configuration table and cause damage to the instrument.
1.
If the Analyst 1.4.1 Software CD is not already in the CDROM drive, insert it.
2.
If the installation browser appears, click Exit.
3.
On the CD-ROM drive, navigate to the \Extras\Instrument
Update folder, and then double-click ConfigUpdater.exe.
The Firmware/Configuration Table Update Program page
appears, identifying the new firmware version it will install.
31
Upgrade Instructions for Workstations Running Analyst 1.4 Software
Note: The firmware versions shown in the illustration above
are examples; you might see different versions.
4.
To update the firmware, click Next.
5.
Follow the on-screen instructions to update your firmware
and configuration tables.
Note: If the utility presents you with more than one choice
for the configuration filename, choose the version with the
highest number. For example, if you are presented with
B5366004.fw and B5366005.fw, choose the B5366005.fw
file. For more information on which versions are supported
in the Analyst 1.4.1 software, see “Appendix A: Supported
Instrument Firmware and Configuration Tables” on page 45.
6.
Click Finish to exit the utility.
To install the BioAnalyst software and any Pro
application software, if required
•
If you removed the BioAnalyst software or any of the Pro
applications before upgrading, reinstall them now. The
versions supported with Analyst 1.4.1 are:
Š
BioAnalyst 1.4
Š
Pro ID 1.4, Pro ICAT 1.4, Pro QUANT 1.4, or Pro
BLAST 1.4.1
To install Hotfix 1 for the Automaton 1.3 software,
if required
If you have Automaton software installed with Analyst 1.4.1,
there is a hotfix available that provides support for the new CTC
PAL driver in Analyst 1.4.1, and adds several features.
1.
Check to see if the Automaton Hotfix 1 is already installed
using these steps:
a)
Open the Windows Control Panel.
b) Double-click Add/Remove Programs.
If the hotfix is already installed, you will see an entry in
the list of installed programs that looks like this:
32
Analyst 1.4.1 Software Installation Guide
c)
If you do not see this entry, continue to the next step to
install the hotfix.
2.
Ensure the Analyst 1.4.1 Software CD is in the CD-ROM
drive.
3.
Navigate to \Extras\Automaton 1.3 Hotfix, and then doubleclick Hotfix 1 for Automaton 1.3.exe.
4.
Follow the on-screen instructions to install the hotfix.
(Optional) To install any desired scripts
•
There are a number of research-grade scripts available to
extend the functionality of the Analyst software. For more
information on installing scripts, see “Script Installation” on
page 37.
To run the Analyst software for the first time
1.
Start the Analyst software by double-clicking the icon on the
desktop.
The following message might appear:
33
Upgrade Instructions for Workstations Running Analyst 1.4 Software
2.
Click OK.
Note: To learn more about configurable Audit Map files,
refer to the online Help in the Analyst software, or the
Laboratory Director’s Guide to Security and Regulatory
Compliance.
3.
Test the software to ensure you are able to acquire and/or
process data.
To register the Analyst software online
•
Ten days from the date of installation, the software will
prompt you to register the Analyst software online. This
online registration helps Applied Biosystems offer better
support, and allows for easier notification about the
availability of upgrades and patches, as well as other
software-related information. For more information, see
“Analyst User Registration” on page 35.
Installing the Metabolite ID Software After
Upgrading
If you decide to install the Metabolite ID software after you have
upgraded to Analyst 1.4.1 software, there are a few extra steps
you must complete to ensure that the Analyst software operates
correctly.
To install the Metabolite ID software after
upgrading
1.
Insert the Metabolite ID software CD, and then follow the
on-screen instructions to install the software.
2.
Navigate to \Program Files\Analyst\bin\Backup, and then
copy the following three files:
3.
34
Š
DDMSMassSpec.dll
Š
DDMSMassSpecps.dll
Š
SubWiffFile.dll
Paste these files to \Program Files\Analyst\bin, which
replaces the existing versions of these files in the bin folder.
Analyst 1.4.1 Software Installation Guide
Analyst User Registration
After you install the Analyst® software, make sure you register
your installation online at:
http://www.sciex.com/registration/
Registration of the software helps Applied Biosystems offer
better support, and allows easier notification about the
availability of upgrades and patches, as well as other softwarerelated information.
Register through the Web address above from any computer with
Internet access (it does not have to be the computer on which the
Analyst software is installed). Users are asked to supply personal
information. Required information is limited to the user’s name
and e-mail address, and the name, address, and telephone number
of the company licensing the software. Optional information
includes some brief questions on how Analyst is used at the site,
plus a section for comments. Users can choose whether to be
contacted for software updates, product information, or
electronic surveys. Please review the privacy statement and
contact information on the Web site for details about the
information collected and its usage.
35
Analyst User Registration
36
Analyst 1.4.1 Software Installation Guide
Script Installation
There are a number of research-grade scripts available to extend
the functionality of the Analyst® software. A few are installed
automatically with the Analyst software (click on the Scripts
menu to view their names). The remaining scripts can be installed
individually using the procedures in this section.
Information about these scripts is available in Word documents
stored with the scripts (see the following section for the location).
There is also a listing and brief description of all available scripts
in the Release Notes.
Installing Scripts
When you install the Analyst software, a Scripts folder
containing the optional scripts is installed at C:\Program
Files\Analyst. Use the following procedure to install each script.
To install scripts
1.
Navigate to C:\Program Files\Analyst\Scripts.
2.
Double-click the folder containing the script to install.
Tip: If you want to learn more about the script, read the
Word document included in the folder.
3.
Double-click Setup.exe.
4.
Follow the on-screen instructions to install the script.
Tip: To use an installed script, start the Analyst software, and
then from the Scripts menu, click the name of the script.
37
Script Installation
38
Analyst 1.4.1 Software Installation Guide
Network Installation
This section explains the operating system and computer
requirements for installing the Analyst® 1.4.1 software over a
network. There are several methods of deploying software over
the network; however, for this document, the network installation
was tested using Active Directory only.
Note: These procedures should be performed by an IT person or
by someone with the prerequisite knowledge and the support of
the IT department.
Important Information to Know Before
Installing
To ensure your installation is successful, read the following
points carefully before you start any of the procedures in this
document:
•
All workstations must have the Analyst 1.4 software
installed.
•
All workstations must be connected to the Active Directory.
Installing Analyst 1.4.1 Software Over the
Network
Use the following procedures to install the Analyst software over
the network.
To prepare the environment
Important! If you receive the following message during the
administrative install: “1: InstallShield engine is missing from
this machine. If available, please run ISScript.msi or contact your
support personnel for further assistance,” then run ISScript8.msi,
located on the Analyst 1.4.1 Software CD in the Install folder,
and then run the administrative install again.
1.
On a server, create a distribution point for the software.
2.
Insert the Analyst 1.4.1 Software CD into the CD-ROM
drive.
3.
When the installation browser appears, click Exit.
39
Network Installation
4.
To create an administrative image, in a command line, type
Msiexec.exe /a <PathToAnalyst.msi>
SHORTFILENAMES=1
TARGETDIR=<PathToDistributionPoint>
NAMESOFPROPERTIES=value /qr.
The SHORTFILENAMES parameter is a Windows Installer
property that uses short file names for the names of target
files, rather than long file names. If the target volume does
not support long names, this property has to be set to 1.
NAMESOFPROPERTIES is a parameter used to define the
installation requirements.
5.
40
As desired, use the following parameters and settings to set
the installation requirements.
Analyst 1.4.1 Software Installation Guide
NAMESOFPROPERTIES Parameters
Parameter
Definition
ANALYSTDATAPATH Destination
location of
Analyst Data
folder.
ISHELPTYPE
Help files.
SECURITYDATA
COMPOUNDDATA
APIDATA
Settings
Default is NTFS
disk with the most
free space.
•
“regular”:
Triple Quad
Help (default).
•
“special”:
Q TRAP/4000
Q TRAP Help.
Overwrite or •
do not
•
overwrite
security
database if it is
found.
1 - overwrite
Overwrite or •
do not
•
overwrite
Compound
database if it is
found
1 - overwrite
Overwrite or •
do not
overwrite API •
folder if it is
found
1 - overwrite
0 - do not
overwrite
(default)
0 - do not
overwrite
(default)
0 - do not
overwrite
(default)
The following is an example of an installation command
where the Analyst Data folder is installed in the Managed
Applications folder on drive C, the Q TRAP/4000 Q TRAP
help file is installed, and all the databases are overwritten:
Msiexec /a “d:\install\analyst.msi” SHORTFILENAMES=1
TARGETDIR= “C:\Managed Applications\Analyst141”
ISHELPTYPE= “special” SECURITYDATA= “1”
COMPOUNDDATA=“1” APIDATA=“1” /qr.
41
Network Installation
Note: You do not have to type the default values in the
command line.
To install the image over the network
1.
Create an Organizational Unit containing all the
workstations where the Analyst 1.4.1 software will be
installed.
2.
Create a Group Policy for the unit.
3.
In the Group Policy, expand the Computer Configuration
and Software Settings nodes.
4.
Right-click Software Installation, point to New, and then
click Package.
5.
Navigate to the .msi package in the distribution point.
6.
Restart each workstation.
42
Analyst 1.4.1 Software Installation Guide
Troubleshooting Installation
This section describes some issues you may encounter while
installing or upgrading to the Analyst® 1.4.1 software. It suggests
possible causes and offers solutions.
At Applied Biosystems/MDS Sciex, we are committed to
providing the highest level of support for Analyst software users.
To obtain answers to questions about any of our products, report
problems, or suggest improvements, please visit
www.appliedbiosystems.com.
Issue
After upgrading, I
cannot log on to the
Analyst software.
Possible Cause/Solution
Your user name might not have been
successfully added to the security database
during the upgrade. Log on to the computer
as the local administrator, and then add your
user name to the Analyst software through
the Security Configuration dialog box.
I see the error
message “Failed to
load the parameter
settings file” when I
try to start a profile in
the Analyst software.
If you restored any files or folders from a
CD, or copied over files shipped with your
instrument, these files might be set as read
only. To use these files, remove the read
only setting from the files through
Windows.
My Analyst screen
no longer locks or
logs out
automatically when I
have not used the
computer for a period
of time. What
happened to these
settings?
After installing the Analyst 1.4.1 software,
the settings for Screen Lock and Auto
Logout are not retained. You must reenter
the information in the Security
Configuration dialog box.
43
Troubleshooting Installation
44
Analyst 1.4.1 Software Installation Guide
Appendix A: Supported Instrument
Firmware and Configuration Tables
The following instrument firmware and configuration table
versions are required for the Analyst® 1.4.1 software.
Instructions for ensuring you have the latest versions of these
files are included in the upgrade instructions. These tables are for
reference purposes only.
Firmware Files for Analyst 1.4.1 Software
Firmware
340 Main
332 Main
Version
M401402
M3L1415
Configuration Table Files for Analyst 1.4.1 Software
Instrument
4000 Q TRAP
Q TRAP
API 5000
API 4000
API 3000
API 2000
API 365
API 300
API 165
API 150EX
API 150MCA
API 100LC
API 100
Configuration
Table File
B9609010.fw
B9611003.fw
B9669001.fw
B5366005.fw
B5366020.fw (for
the NanoDCI source)
A8958000.fw
A7483000.fw
A7095000.fw
A6186002.fw
A6188000.fw
A8429000.fw
A6865000.fw
A6185002.fw
A6179002.fw
45
Appendix A: Supported Instrument Firmware and Configuration Tables
46
Analyst 1.4.1 Software Installation Guide
Appendix B: Supported Peripheral
Devices and Firmware
The Analyst® software supports the peripheral devices listed in
the following table. Firmware versions tested that have been fully
qualified with the Analyst 1.4.1 software are listed without
parentheses. Versions shown in parentheses have functioned
acceptably in more limited testing.
Firmware used with the Analyst 1.4 software should work
well with the Analyst 1.4.1 software, with some exceptions for
the Agilent well-plate autosamplers. Agilent users should
read the note regarding firmware following the table.
In most cases, more recent firmware versions from the device
manufacturer will work with the Analyst 1.4.1 software. If you
encounter difficulties, consider changing the device firmware to
the version listed in this table. For information on checking and
upgrading firmware, refer to the documentation provided by the
peripheral device manufacturer. For information on installation
and configuration of peripheral devices, refer to the Peripheral
Devices Setup Manual located on the Operator Documentation
CD.
Manufacturer
Peripheral
Device
Agilent
Binary Pump
1100 series
Tested Firmware
Communi(and Other
cation Cable
Firmware)
Required
A.05.06, 4.11
WC024736*
Quarternary
Pump
A.04.11 (5.04)
WC024736
Isocratic Pump
A.04.11
WC024736
Capillary Pump
A.04.11
WC024736
Nano Pump
A.05.06, 5.04
(5.05)
WC024736
47
Appendix B: Supported Peripheral Devices and Firmware
Manufacturer
Peripheral
Device
Standard
Autosampler
Tested Firmware
Communi(and Other
cation Cable
Firmware)
Required
A.04.10 (5.04)
WC024736
Micro
Autosampler
A.05.04 (4.10)
WC024736
Well-plate
Autosampler
A.05.07, 4.14
(5.02)
WC024736
Micro Well-plate (A.05.09, 4.14)
Autosampler
CTC
Gilson
WC024736
Column Oven
A.05.06, 4.11 (5.05) WC024736
DAD – Diode
Array Detector
A.05.06 (5.09, 4.11) Ethernet/
GPIB
HTS PAL
Autosampler
2.4.0, 2.3.6
WC024736
HTC PAL
Autosampler
2.3.6
WC024736
LC PAL
Autosampler
2.3.6
WC024736
215 Autosampler 2.20
WC024735**
with 819 Valve
Gilson GSIOC
1.00
233 Autosampler BV1.11
WC024735
with 402 Syringe SV1.10
(SV2.3)
Gilson GSIOC
Harvard
22 Syringe Pump 22.90
WC024735
LC
Packings
UltiMate
Integrated
System
Cables avail.
from LC
Packings
48
5.06 (6.00)
Analyst 1.4.1 Software Installation Guide
Manufacturer
Peripheral
Device
Famos
Autosampler
(well-plate)
Famos
Autosampler
(carousel)
PE Series
200
Shimadzu
Autosampler
Tested Firmware
Communi(and Other
cation Cable
Firmware)
Required
2.02
Cables avail.
from LC
Packings
1.14
Cables avail.
from LC
Packings
1.08
WC024737
Column Oven
1134
WC024736
Micro Pump
2.43
WC024736
Quaternary
Pumps
2.43
WC024736
SCL-10Avp
System
Controller
5.40 (5.33)
WC024736
SIL-10ADvp
Autosampler
5.32
SIL-HTA
Autosampler
6.02
SIL-HTC
Autosampler
6.02 (6.03)
LC-6AD Pump
1.4
LC-8A Pump
1.5
LC-10AD Pump
3.1
All other
Shimadzu
devices
require 2-pin
optical cables
to connect to
the System
Controller.
These are
available from
Shimadzu.
LC-10AS Pump
3.1
LC-10AT Pump
3.1
LC-10Ai Pump
3.1
49
Appendix B: Supported Peripheral Devices and Firmware
Manufacturer
Peripheral
Device
LC-10ADvp
Pump
LC-10ATvp
Pump
50
Tested Firmware
Communi(and Other
cation Cable
Firmware)
Required
5.27, (5.25, 5.26)
5.27
CTO-10A[C]
Column Oven
3.0
CTO-10Avp
Column Oven
5.24
CTO-10ACvp
Column Oven
5.24
CTO-10ASvp
Column Oven
5.24
SPD-10A
Detector
3.0
SPD-10Ai
Detector
3.0
SPD-10AV
Detector
3.0
SPD-10AVi
Detector
3.0
SPD-10Avp
Detector
5.22
SPD-10AVvp
Detector
5.23 (5.22)
OptionBox-L
Subcontroller
3.2
SubcontrollerVP
5.20
Analyst 1.4.1 Software Installation Guide
Tested Firmware
Communi(and Other
cation Cable
Firmware)
Required
FCV-12AH Valve N/A
FCV-13AL Valve N/A
FCV-14AH Valve N/A
SparkEndurance
2.05
Requires
Holland
Autosampler
Analyst
Driver Kit p/n
0920-768
from Spark
(sales@spark.
nl)
Valco
2 Position Valve 1-PD-EPX88RL
* WC024736 is a Standard Null Modem cable DB9/DB9 female.
** WC024735 is a Standard Modem cable DB25 male/DB9 female.
Manufacturer
Peripheral
Device
Notes on Firmware for Agilent users
It is recommended that Agilent users use the most recently
distributed firmware from Agilent. Due to Agilent’s frequent
firmware release schedule, Applied Biosystems/MDS Sciex
cannot test all firmware on all devices in all Analyst software
versions, but Agilent’s releases are backwards compatible. If a
problem occurs, try downgrading to the firmware indicated in the
chart above. Remember that Agilent CAN support requires that
all firmware in the CAN-linked stack be of the same major
revision (4.x, 5.x, etc.).
For Agilent well-plate autosamplers (Well-plate and Micro Wellplate), Applied Biosystems/MDS Sciex recommends an upgrade
to firmware version 5.09. A large number of supported plates
have been added to Agilent’s firmware between versions 5.01
and 5.09, and the Analyst software has been updated to include
all plates supported as of firmware version 5.09. Should you
choose not to upgrade your well-plate autosampler firmware, all
51
Appendix B: Supported Peripheral Devices and Firmware
plates previously supported will work with the Analyst software
(with the exception of the *96DeepAgilent* plate); however if
you select in Analyst a plate that is not supported in your Agilent
firmware version, an error will be generated during acquisition.
Agilent removed support for the *96DeepAgilent* plate in
firmware version 5.04; use *96DeepAgilent41mm* instead.
52