Preliminary Service Note Subject: G3335AA MASSHUNTER SOFTWARE-35A G3335AA MASSHUNTER SOFTWARE-35A Supersedes G3335AA MASSHUNTER SOFTWARE-35 Release of Qualitative Analysis rev. B.02.00 Service Pack 3 (SP3) Service Serial Numbers: US00000000-US99999999 A new Service Pack is available that fixes defects in MassHunter Qualitative Analysis rev. B.02.00 and adds features to the G6829AA MassHunter BioConfirm Software. Superseded information: G3335AA MASSHUNTER SOFTWARE-35A (Build 197.7) has a version of SP3 which fixes the following problem with G3335AA MASSHUNTER SOFTWARE-35 (Build 197.6): 16311 Can't read saved results with profile MS spectra (B197.6 fails to read results containing profile MS spectra.) To Be Performed By: Agilent-Qualified Personnel or Customer (for Both) Parts Required: G3336-60036 MassHunter Qual DA SW Disk B.02.00 SP3 The Service Pack is available for Agilent support personnel on the \\wscsfs01\Lsca\apgsup server under: \Software\CURRENT\G3335AA MassHunter Qualitative Analysis Software B.02.00 Build 197\Service Packs\SP3 Situation: A Service Pack is available to fix defects in MassHunter Qualitative Analysis rev. B.02.00 and add features to the G6829AA MassHunter BioConfirm Software. This is Service Pack 3 (SP3) (Service Pack 1 was never generally released to customers. Service Pack 2 was discovered to have an error before final release. Service Pack 3 is cumulative in that it contains all the fixes from Service Pack 1 and 2). The Service Pack SP3 fixes the following defects in the Qualitative Analysis software: 1. (#03737) Plot window report not working when in Overlaid mode 2. (#03747) Acquisition method report from Qual causes tune report to fail 3. (#03760) Database search ignores Identity Scoring parameters 4. (#03753) DRM chromatogram looks zig-zag 5. (#03762) Compound Automation without Report does not create correct info.xml file 6. (#03765) Error when ChemStation integrator used for targeted MS/MS 7. (#03748) Error when trying to calculate system suitability values 8. (#13310) Qual: MFE crash if run with advanced parameter "include w/o neutral mass" 9. (#13360) Exception when doing formula generation on MFE compound with species of ""M+?" 10. (#13387) Crash of compound database search (MFE creates bad spectrum) 11. (#13490) Time ranges do not apply to ChemStation integrator 12. (#3758) A4 report templates were not used 13. (#13381,#13382,#13368,#13507) Various specific formulas cannot be found with MFG or the formula calculator 14. (#15775) Export to MzData that requires profile->centroid conversion is too slow 15. (#13671) Qual Extracts Chromatograms for transitions not asked for: Dynamic MRM 16. (#15939) Exception when loading multi-digest-sequence-matched result data 17. (#15949) Formula calculator does not honor [nnXx] syntax when Xx is not "H" or "C" 18. (#16020) Find by Formula with MS/MS integrator does not honor EIC Peak Filters 19. (#16133) TOF MS peak areas are needed for MALDI users In addition, it adds the following enhancements to the G6829AA MassHunter BioConfirm Software rev. B.02.00: 1. Predicted modification - replace the "protein modification" and "sample handling artifacts" matching rules with "predicted modification" for protein and protein digest sequence types. User can specify a list of predicted modifications for sequence matching. 2. Variable modification - support site specific variable modification for protein and peptide sequences 3. Oligonucleotide - allow you to create oligonucleotide sequences and do sequence matching for oligonucleotides. Solution/Action: This Service Pack must only be applied to the Qualitative Analysis rev. B.02.00 software. The version is displayed in the Help-->About splashscreen. It will state "Version B.02.00 Build 2.0.197.0" This Service Pack can be installed either before OR after BioConfirm Software rev. B.02.00 is installed. Installation: 1) Shutdown any MassHunter Qualitative Analysis programs that are running. 2) Browse to the directory, CD, or USB drive where the Service Pack file is located. 3) Find and double-click on the file named Qualitative Data Analysis B.02.00 SP 3.exe. When the software Service Pack executable is double-clicked, a window will appear with information regarding the installation of the Service Pack. You will not be able to make any changes unless the software was not installed in the default locations. 4) A Command Prompt window will open to apply the Service Pack. DO NOT CLOSE THIS WINDOW. The Service Pack may take up to five minutes to complete the installation process. If the system has previously been qualified, the Service Pack installation will run an Installation Qualification Test (IQT). At the end of the test, a dialog named "iqtwizard" will state "IQ Completed". When you click OK, the dialog will open the default browser with the Installation Qualification Report. Print this report out and place it with any qualification materials that you save. Once the installation process is complete, a small window will appear saying "Patch is Complete". 5) Start up MassHunter Qualitative Analysis and begin using it. If BioConfirm Software is installed you may begin using its new features. The new version is displayed in the Help-->About splashscreen. It will state "Version B.02.00 Build 2.0.197.7 Patch 3". If the BioConfirm Software is installed it will state in addition "with BioConfirm Software". Additional Information: Files included in this Service Pack: File name Version/Date Directory QualReportGenerator.dll 2.0.197.7 bin MassHunter Reporting Qual.xlam 10/13/2008 \Program Files\Microsoft Office\Office12\Library AcquisitionMethodReport.xlt 9/3/2008 D:\MassHunter\Report Templates\Qual\Letter AcquisitionMethodReport.xlt 9/3/2008 D:\MassHunter\Report Templates\Qual\A4 BaseTof.dll 2.0.197.7 bin CoreDefinitions.dll 2.0.197.7 bin CoreDbSearch.dll 2.0.197.7 bin BaseDataAccess.dll 2.0.197.7 bin CoreTypes.dll 2.0.197.7 bin qualdefinitions.dll 2.0.197.7 bin QualAppLogic.dll 2.0.197.7 bin MfeBase.dll 2.0.197.7 bin CoreMassHunter.dll 2.0.197.7 bin CoreScda.dll 2.0.197.7 bin CoreFormulaMSCalculator.dll 2.0.197.7 bin MzDataExport.dll 2.0.197.7 bin AgtQual.exe 2.0.197.7 bin CoreDataDictionary.dll 2.0.197.7 bin BioConfirmDefinitions.dll 2.0.197.7 bin BioConfirmTypes.dll 2.0.197.7 bin BioConfirmUI.dll 2.0.197.7 bin PeptideServer.dll 2.0.197.7 bin datadictionarypreset_peptide.xml 2/23/2009 D:\MassHunter\ChemicalDataDictionary\preset BioConfirmOligonucleotideCompoundReport.xltx 3/2/2009 D:\MassHunter\Report Templates\Qual\A4 BioConfirmOligonucleotideCompoundReport.xltx 3/2/2009 D:\MassHunter\Report Templates\Qual\Letter BioConfirm-Oligonucleotide.xml 2/25/2009 D:\MassHunter\Layouts\Qual info.xml 2/25/2009 D:\MassHunter\Methods\BioConfirmOligonucleotideSmall-Default.m\DaMethod\Qual qualitative.xml 2/25/2009 D:\MassHunter\Methods\BioConfirmOligonucleotideSmall-Default.m\DaMethod\Qual info.xml 2/25/2009 D:\MassHunter\Methods\BioConfirmOligonucleotideLarge-Default.m\DaMethod\Qual qualitative.xml 2/25/2009 D:\MassHunter\Methods\BioConfirmOligonucleotideLarge-Default.m\DaMethod\Qual QualDA.chm 3/9/2009 bin\EN-US Date: 5/7/2009 ****************************************************************************** * * * Modification Recommended * * * ****************************************************************************** * * * Standards: Labor hours: 0.50 / Travel: None * * Action Category: On specified failure * * Location Category: Customer installable * * Service Inventory: See text * * Used parts: Scrap * * Availability: Product Support Life * * Agilent Responsible Until: 4/30/2010 * * Author/Entity: SPM/2300 * * Additional Information: None * * * ****************************************************************************** Copyright 2009 Agilent Technologies Printed in U.S.A.