Home

TopSpin 1.3 - Installation Guide for Windows XP

1. E ing spect i printconf cmd pwrdwn bat sh exe shmrm cmd Showconf all showconf bat StartGuide ES fe a IEG topspinversi xwinnmr sa Each of them our example here is miscellaneous have a number of batches or executables or plain commands that you can run by just double clicking on the respective icon For example to see the system ID of the current PC you can just double click on the icon called get_hostid It will open a text window and deliver the system ID you need to know when you apply for TOPSPIN license encircled cx D WINDOWS System32 cmd exe lof x Imutil Copyright lt C gt 1989 2662 Globetre e Se are Inc he FLEX1m host ID of this machine is d6b 7fGeb c 66366e26cd23 nly use ONE from the list of hostids ress any key to close this window E X E If you press any key the window will be closed again As you can see from the next screen produced by the command ipconfig all ina command prompt flexlm takes the address of one of the Ethernet cards in the PC Which one is used depends on the binding order of the two cards You Configuration of TOPSPIN 99 can check the binding by clicking the icon from the Control Panel D WINDOWS System32 cmd exe icrosoft Windows XP Version 5 1 26061 lt C gt Copyright 1985 2661 Microsoft Corp Documents and Settings augn gt ipconfig all indows IP Configuration
2. Display a notification when Windows Firewall blocks a program What are the risks of allowing exceptions Windows XP Tips and Tricks 243 4 Click on Add a Program This will open a dialog box Add a Program To allow communications with a program by adding it to the Exceptions list select the program or click Browse to search for one that is not listed Programs a Antiviruskit 2004 EP CheckCD Create boot CD amp Download Driver 2 FileOnCD E FreeCell P Hearts Intemet Backgammon Intemet Checkers Intemet Explorer ws Path C Program Files Common Files Adobe ESD Browse Click the program that you want to add and then click OK The program will appear selected on the Exceptions tab under Programs and Services 5 Click OK 20 8 2 5 Open a Port in the exception tab If you still do not find the program you can open a port instead When you open a port remember to close it again when you are done using it Adding an exception is preferable to opening a port because it is more secure than opening a port because the firewall is only open while the program is waiting to receive the connection 1 Click Start Control Panel 2 In the window Control Panel click Windows Security Center 3 Click Windows Firewall 244 Windows XP Tips and Tricks 4 A window Windows Firewall appears Click on the Exceptions ta
3. Oo O Q Oo Oo Ou Or Oo JO E gt con E gt con E gt con E gt con E gt con f ins f ins f ins f ins f ins E gt QTP E gt exp stan nmr py E gt prog server tr probe tr lt spec tr lt spec tr lt spec tr autos head t gt prosol t gt cortab t gt inmrusers him refmaps E gt data final nmr protocolfiles lt spect gt represents the current spectrometer name or the name specified explicitly when nmr_ save is started From the following directories every file is saved that does not belong to the genu ine Bruker distribution lt TOPSPIN lt TOPSPIN lt TOPSPIN lt TOPSPI lt TOPSPIN lt TOPSPI lt TOPSPIN lt TOPSPIN lt TOPSPI Additionally lt TOPSPI lt TOPSPIN lt TOPSPI lt 7 lt T lt 7 O O Or OF On O 0O O O gt TOPSPIN TOPSPI Oo OC OC OG OG OC Oo TOPSPIN E gt con E gt con E gt con E gt con E gt con E gt con E gt exp s E gt exp s E gt exp s E gt exp s E gt exp s E gt exp s E gt exp s E gt prog tan tan tan tan f ins f ins f ins f ins f ins f ins nmr lists pp nmr lists cpd nmr lists gp amr lists wave E gt plot layouts tr lt spec tr lt spec tr lt spec tr lt spec tr lt spec tr lt spec tan nmr au scl tan nmr au src tan nmr par tcl xwish3_scripts following files are al
4. e In the appearing dialog box Select the spectrometer configuration name Click Next ie Expinstall for Datastation Customize Available spectrometer or datastation configurations Select the configuration you want to use spect xj s lt Back Next gt Cancel f In the appearing dialog box Select the default printer and plotter and the desired paper format Click Next amp Expinstall for Datastation Customize Select your printer Default printer HP LaserJet 1200 Series PS x Select your plotter Default plotter MEERA aA EEEE Y Select the plotter paper format Paper format a4 Letter xj v lt e lt Back I Next gt Cancel Finish g Inthe appearing window Click Next ee Expinstall for Datastation Customize Select the basic frequency of your spectrometer Basic frequency MHz 300 13 Select the digitizer Type of digitzer SADC Select the acquisition mode Acquisition mode pap x Select the pre scan delay DE Default pre scan delay us s lt Back Next gt Cancel Configuration of TOPSPIN 93 8 1 3 8 1 4 h In the appearing information box gt Check the configuration selection and if it is correct Click Finish ee Expinstall for Datastation Customize Expinstall will be executed with following options Installation for Datastation Customize High Resolution Install
5. the Very e Important Files of the configuration of TOPSPIN There are many reasons like e g head crash or theft of the hard disk that makes it important that a weekly or monthly backup is made of important data so that you would be able to restore the spectrometer configuration in a very short time TOPSPIN offers an AU program nmr_save for saving those important files that are not delivered by BRUKER This AU program can save and extract user spe cific data from the TOPSPINHOME directory and puts them into a tar file Files that start with an are ignored The AU program can be started as follows e Start TOPSPIN and type in the command nmr_save e or start TOPSPIN and click Options Spectrometer Tools Save Restore configuration A window Password request will appear amp Password request Please enter the NMR administration password Please enter the NMR administration password and click OK 1 BRUKER also offers a script xwinnmr save which can be used for saving the VIF s see chapter 21 4 106 Configuration of TOPSPIN A window NMR_ Save will appear PANMR_ Save Save or restore user specific files User specific files of an installation are collected and stored into a tar file Can be used to copy an old configuation to a new installation or to create a backup of installation specific files Location of backup file Overwrite existing backup file
6. 232 Windows XP Tips and Tricks configuration 20 9 2 Disable Internet Connection Firewall Windows XP SP1 1 Click Start gt Control Panel double click Network Connections 2 Right click the connection on which you would like to disable the firewall Click Properties 3 On the Advanced tab click the box to clear the option to Protect my com puter or network 21 1 Chapter 21 Appendix Windows XP Important Information about your PC 1 What is the Bruker BioSpin order number HH 2 Customer details Name Organization Adrl Adr2 Adr3 3 Manufacturer and Type of the PC 4 Manufacturer s system ID number of the PC 5 Which service pack of Windows XP is installed SP 253 254 Appendix Shown at boot time on blue screen 6 What type of graphics controller is installed 7 Name of NUR SUPERUSER 21 2 Some notes for the helium handling In the TOPSPIN installation path normally C Bruker TOPSPIN in the direc tory prog logfiles are two files named heliumlog and helium log err The heliumlog saves every night at 3 00 am the actual helium level in a new line The he Liumlog err documents every error during detecting the helium level 21 2 1 Automatic notification for helium refill 1 Open a Command Prompt and enter cd d c Bruker TOPSPIN e notepad heliumlimit type in the number without of the helium level should activate the notifi cation e g 25
7. 3 A window Add Printer Wizard will appear a b c Click Network printer Click Next A window Locate your printer will appear enable one of the three fields under the point What Do You Want To Do Find a Printer in the Directory is a powerful search tool that is looking for a printer with the properties you want in the active directory if you are mem ber of domain e Click Next a window Find Printers will appear e choose the domain path in the field In e In the menu Features you have the possibility to enable some addi tional search modes like resolution paper size etc e Click Find Now Type the Printer Name e use this option if you already know the name of the printer you want to install use the form lt Print Server gt lt Printer Name gt or if you want to start a search in the subdomain of your network e Click Next gt Connect to a Printer e Use this option if you want to connect yourself to a internet printer that has an own URL adress Wait until list of shared printers on that UNIX host appears If this list does not appear within one minute click the My Network Place icon on the desktop and try to connect to the remote UNIX host Then go back to the window Connect to printer click the remote UNIX host again and see if get a list of shared printers now e Double click the printer connected to the UNIX host e g laserjet 4 A message
8. All Programs Bruker TOPSPIN gt GNU Shell A GNU shell will open in which you can enter a restricted set of UNIX commands Chapter 19 Useful tools for Windows Windows XP This chapter contains a description of some tools we found useful We realize that many other tools are available for various purposes and we are very interested in your experiences Just send your comments to nmr software support bruker biospin de 19 1 Update the operating system There are two things that help you to be up to date with the operating system e email notification about security fixes e download and installation of hotfixes and service packs Please see also chapter Microsoft Security Center chapter 20 8 19 1 1 Email notification about security fixes Microsoft offers the possibility to subscribe for a newsletter that will inform you about security problems and their available fixes Open Internet explorer and type in 223 224 Useful tools for Windows Windows XP http register microsoft com regsys pic asp You can subscribe there with your email address and after registration you can decide which kind of newsletter you want to get It is recommended to subscribe at least for the Microsoft Security Notification Service to get all information about security leaks and their fixes 19 1 2 Update of the operating system e Click on Start All Programs Internet Explorer Windows Update e The Internet Explorer will op
9. Click file save as and save it as lt TOPSPINHOME gt heliumlimit Of course you can also install the heliumlimit file from the Explorer We have chosen the Command Prompt because the Explorer might add the extension t xt to the file he Liumlevel which makes it unusable see chapter 7 2 2 2 3 Now you could create a command script lt TOPSPINHOME gt heli umwarn cmd that will be executed if the actual helium level is the same or below the entry in in the file lt TOPSPINHOME gt heliumlimit E g it is possible to create a message window on the screen of the spectrometer PC and or every other PC in your network e g the PC of the responsible person for helium refill You could do this in the following way Open a Command Prompt and enter cd d c Bruker TOPSPIN Appendix 255 e notepad heliumwarn cmd type in the following text echo off rem rem heliumwarn cmd example MS cmd script to send a warning rem argument 1 LEVEL rem argument2 LIMIT rem rem user defined variables rem INSTRUMENT is the name of the spectrometer rem ADDRESS the address where the message is sent to rem type net help send for details rem set INSTRUMENT Avance 300 set ADDRESS1 COMPUTERNAMES set ADDRESS2 NMR SUPERUSER PC set ADDRESS3 SHELIUM REFILLER
10. usr samba docs 6 Reboot the UNIX host 7 If the Samba on the UNIX host is configured as encrypt passwords no check it in the SWAT and you want this configuration you must enable plain passwords on your PC You could do that as follows but be aware that this would create a security leak see chapter 20 5 3 a Log in as Administrator b Get the file usr samba docs WinXP_PlainPassword reg from the UNIX host e g with FTP c Execute this file by clicking on its icon in the Explorer d Reboot the PC 13 4 4 Mounting Windows XP partitions from a UNIX host using NFS If your PC is controlling a spectrometer installation of the Hummingbird NFS Server is mandatory The partition C Bruker Diskless clients spect is mounted via NFS by the spectrometer CCU which is a UNIX host In the same way you can mount any Windows XP partition or directory on any UNIX host Proceed as follows 1 Export the Windows XP partition as described in chapter 6 6 1 In step 4 you must enter the partition and optionally the UNIX host s to which it must be exported 2 On the UNIX host a Open a UNIX shell b Type su to become superuser c Create a mount directory e g mkdir ntdata d mount the partition e g e onSGI mount nthost c data ntdata e on X32 mount f NFS nthost c data ntdata Note that if the pathname on the Windows XP hosts contains uppercase let 148 Windows XP Networking ters these must also be specifi
11. 1 TOPSPIN can only be installed on a NTFS filesystem not on a FAT file system However you can convert FAT to NTFS as described in chapter 12 1 2 2 Before you proceed make sure you are logged in as a Local Administrator If you are not sure about this press Ctrl Alt Del just as for a logon The popup screen tells you the current user id If you are indeed logged in as a Local Administrator click Cancel Otherwise click logoff and then log on as an Administrator 3 Click Start All Programs Accessories Command Prompt enter ipconfig all and check if the local network is configured If it is not configure the network as described in chapter 13 If your PC controls a spectrometer 1 Click Start All Programs 43 44 Installing TOPSPIN and check if you see the entry NFS Maestro If it does not appear install NFS Maestro Server as described in chapter 4 3 Click Start All Programs Accessories Command Prompt enter ipconfig all and check if the second Ethernet adapter is configured If it is not configure it as described in chapter 13 6 2 NMR SUPERUSER and NMR ADMINSTRATION PASSWORD TOPSPIN offers a complete new password check for the configuration tools of TOP SPIN During the TOPSPIN installation you are prompted to define 1 The username for the so called NMR SUPERUSER If you choose an NMR SUPERUSER other than Administrator make sure that this user exists The NMR SU
12. 209 210 Plotting and Printing under Windows XP e or Enter print or Crtl p All these actions are equivalent they open the Print dialog box Pf Print ctrl P plot f xj Options C Print active window prnt C Print with layout plot directly autoplot Required parameters LAYOUT 1D_H wp z Apply Use plot limits Fill data set list fram screen CY from Plot Editor Reset Actions as saved in Plot Editor from your default portfolio from portfolio saved in data set OK Cancel Help 2 In the Print dialog box a Select Print active window prnt b Click OK Before printing starts the operating system print dialog box will appear to se lect e g the printer and printer properties The Print dialog box contains two further options Print with layout start Plot Editor plot If you select this option and click OK the Plot Editor will be started This option is equivalent to entering plot on the TOPSPIN command line Print with layout plot directly autoplot Selecting this option activates the Plot Editor layout list box Select the desired layout and click OK to print Standard layouts are delivered with TOPSPIN They use the Windows default printer User defined layouts use the printer defined in the TOPSPIN PLOT EDITOR On a 1D dataset only 1D layouts are listed on a 2D dataset only 2D layouts are listed etc For the last two options the following Required Param
13. Certain system software was installed after installing an Windows XP Service Pack Re install the Service Pack b TOPSPIN was removed and re installed without rebooting the computer in between gt Remove TOPSPIN reboot and re install TOPSPIN 3 NUTCRACKER OE will not install with an error message that the services workstation and server are not running Service workstation is still active but the service server does not appear in the list of services Please check the network configuration if the option File and Printer Sharing for Microsoft Networks is disabled or de installed The con sequence is that the service server is not available If hostid O or ffffffff occurs You may run Windows XP and your network adapter has no link to the network Establish an link to the network or install the NWlink IPX SPX NetBIOS Compatible Transport Protocol a Click Start gt Control Panel Network Connections b Right click Local Area Connection xxx c Click Properties Install Protocol Add d The Select Network Protocol menu will appear after some seconds Click NWlink gt OK e After some seconds the Properties menu will reappear gt Click Close The file License dat was found but Flexlm does not run Maybe a Flexlm is not installed Install Flexlm from the TOPSPIN CDROM b the Service Bruker Flexlm license server is not running
14. Click Yes e If you do not want to use this printer as default printer gt Click No i Click Next j Printer Sharing Do one of the following If the printer must be available for other computers in the network e Click Shared e In the field Share Name enter the name by which the printer can be accessed from a remote host e g viola_deskjet e Click Next e A window Location and Comment appears Write in some informa tions about the location the printer administrator and individual print er specifications e g the fax default printer etc Click Next If this printer should only be used on the local computer e click Not shared k Click Yes to print a test page Click Next Click Finish 5 If the window Jnsert disk appears Insert the CDROM Windows XP Professional gt Click OK 6 A window Files Needed will appear e Click OK to copy the Driver files for your printer from the CD 7 A new icon will appear in the window Printers see step 3 a Click the right mouse button on the new printer s icon b Click Printing Preferences in the pop up menu 8 A window Printing Preferences will appear a Click Advanced a Click in the Field Paper Size b Select the correct paper size for your printer c Click OK gt OK Step 8 makes sure that applications like Word Excel Paint and TOPSPIN will use this paper size as default 160 Installing a Printer
15. Click the symbol in the upper left corner of the window b Click Properties 3 A window GNU shell properties will appear a Click Layout b In the field Screen Buffer Size e Set Width to 200 e Set Height to 100 c Click OK 4 A window Apply properties to shortcut appears a Click Modify shortcut which started this window b Click OK Enabling the cut amp paste function 1 Click Start All Programs Bruker TOPSPIN gt GNU Shell 2 A GNU shell window will appear a Click the symbol in the upper left corner of the window b Click Properties 3 A window GNU shell properties will appear a Click Options b Select QuickEdit Mode 4 A window Apply properties appears e Click Apply properties to current window only e Click OK The reason we do not recommend to enable the cut amp paste function by default is that it would also count for the GNU shell started by TOPSPIN Accidentally using cut amp paste in that window could cause TOPSPIN to crash 20 5 Connecting UNIX and Windows XP with Samba Samba is a suite of programs which work together to allow clients to access UNIX file systems and printers via the SMB Session Message Block protocol Windows XP Tips and Tricks 231 In practice this means that you can share disks and printers with UNIX systems You can then access them from LanManager clients Windows for Workgroups 3 11 clients Windows95 clients Windows NT clients Windows
16. Expinstall installs pulse programs AU programs parameter sets and various other resources for spectrometer or datastation usage It must be performed once after the installation of TOPSPIN For spectrometer control do cf first For a customized datastation configuration copy your spectrometer configuration directory typically called spect to lt TopSpin installation dir gt conffinstr WARNING Please archive all your MODIFIED Bruker PARAMETER files AU programs and PULSE programs before running expinstall mi AU programs and Pulse programs or if you have archive them in a different directory Your individual Parameterfiles AU programs and Pulse pro grams that have different names to the original Bruker BioSpin files will not be destroyed during the installation c In the appearing window Check Installation for Datastation Customize Click Next EY Experiment installation and AU compilation Select the type of installation Installation for Datastation Default Installation for Datastation Customize Installation for Spectrometer lt Back I Next gt JI Cancel d In the appearing window Check High Resolution Systems Click Next i Expinstall for Datastation Customize Select the type of acquisition m High Resolution Systems O Solid State Systems Micro Imaging Systems lt Back Next gt Cancel 92 Configuration of TOPSPIN
17. Features you have the possibility to enable some addi tional search modes like resolution paper size etc e Click Find Now e Type the Printer Name e Use this option if you already knows whats the name of the printer you want to install use the form lt Print Server gt lt Printer Name gt or if you want to start a search in the subdomain of your network e Click Next Connect to a Printer e Use this option if you want to connect to a internet printer that has an own URL address appear within one minute click the Network Connections icon on the desktop e and try to connect to the remote host Then go back to the window Connect to printer click the remote host again and see if get a list of shared printers now l Wait until list of shared printers on that UNIX host appears If this list does not 4 The window Add Printer Wizard will appear a Do one of the following e Click Yes if you want to use this printer as default printer e Click No if you do not want to use this printer as default printer b Click Next click Finish 14 3 Remote printing from a UNIX host to a PC 14 3 1 On the PC to which the printer is physically connected Install the printer as described in chapter 14 2 1 1 Log in as Administrator 2 Insert the CDROM Windows XP Professional 3 Close the window Windows XP CDROM by clicking Exit 4 Click Start gt Control Panel Network Connection 162
18. Installation to be saved or restore destination C Bruker topspin Spectrometer name spect Display default information Do not display any messages Display additonal information C Brukeritopspininmr_backup spect o O l Save fl Restore ji Close Please check the Location of Backup file the default is lt TOPSPIN HOME gt nmr_backup Enter the location of the installation to be saved the default is lt TOPSPINHOME gt and click on Save This will create a tar file of all necessary information from respective installation The tar file is called nmr_backup tar and will be stored in the directory lt TOPSPINHOME gt nmr_backup Files and directories will be saved into the special tar file nmr_backup tar which is by default in the directory TOPSPINHOME nmr_backup The following directories are saved completely hidden files are ignored lt 7 lt T lt 7 lt 7 lt T lt 7 TOPSPINHOM TOPSPINHOM TOPSPINHOM TOPSPINHOM TOPSPINHOM TOPSPINHOM E gt exp s E gt exp s E gt exp s E gt exp s E gt exp s E gt exp s tan nmr 1 tan nmr 1 tan nmr 1 tan nmr 1 tan nmr 1 tan nmr 1 is is is is is is ts group ts scm ts bsms ts mac ts f 1 ts ds Configuration of TOPSPIN 107 lt TOPSPIN lt TOPSPI lt TOPSPIN lt TOPSPI lt TOPSPIN lt TOPSPI lt TOPSPIN lt TOPSPIN lt TOPSPI
19. Installing a Printer 14 3 2 5 A window Network and Dial up Connection will appear e Click on the pull down menu Advanced Optional Network Component 6 A window Optional Network Component will appear e Enable Other Network File and Print Services e Click on Networking Services to highlight it then click Details e enable Simple TCP IP Services OK e The check box for Other Network File and Print Services is now white and that one for Networking Services grey and both have a tick click Next 7 Click Start gt Control Panel Administrative Tools Services 8 A window Services will appear a Scroll down and check the following entries e Simple TCP IP Services e Print Spooler e TCP IP Print Server If one of these entries is set to manual e Click that entry to highlight it e Click Action Properties Startup type select Automatic gt OK 9 Click Start gt Turn Off Computer Restart Yes On the UNIX host from which you want to print On the UNIX host you must setup a network printer as follows 1 Open a UNIX shell 2 Become superuser type su 3 Edit the file etc printcap and make an entry like laserjet HP rm viola netx applic com 1 rp hplj4ml1 sd usr spool lpd hplj 4ml sh 1 Depending on your network you must enter hostname or hostname domainname Installing a Printer 163 where e laserjet is the name for the printer on the UNIX host
20. Properties will appear Enable Use the following IP address b In the field IP Address enter the IP address of your computer c In the field Subnet Mask enter the subnet mask of your network Windows XP Networking 139 e g 255 255 255 0 or 255 255 0 0 d In the field Default Gateway enter the IP address of the Default Gateway in your network if available e If you have a nameserver e In the field Prefered DNS Server enter the IP address of the nameserver e If you have a second nameserver enter his IP address in the field Alter nate DNS server f Click Advanced DNS g Enable the field Append these DNS suffixes in order Add e Inthe window TCP IP Domain Suffix Enter the network domainname Add h Click OK i Ifthe question appears This connection has an empty primary WINS address Do you want to con tinue YES OK gt OK CLOSE 13 1 3 Configuring the TCP IP of the Spectrometer Control o Nn bk UDN Log in as Administrator Click Start gt Control Panel gt Network Connections A window Network Connections will appear Highlight the connection you want to configure File gt Properties Highlight the TCP IP entry and click Properties The window Internet Protocol TCP IP Properties will appear e In the field IP Address enter 149 236 99 1 e In the field Subnet Mask enter 255 255 255 0 For the spectrometer ne
21. TOPSPIN is removed as described above the corresponding entry in the Registry is automatically deleted 10 3 Autorun of installation programs TOPSPIN like many other software packages support the Autorun feature This means that the installation program automatically starts up when you insert the CDROM This however only works if the Autorun is enabled If it is not nothing will happen after inserting the CDROM In this case you can start the installation program as follows 1 Click Start Control Panel 2 Double click the icon Add Remove Programs 3 Click Add New Programs CD or Floppy 4 A window Install Program from Floppy Disk or CD ROM will appear 126 Installation procedure The system is looking for a Floppy and or a CD ROM If there are one of these the path will be shown in the field Open Click Finish 4a If the field Open is empty a Click Browse b In the field Look in select the CDROM drive c Find an icon Setup or Setup exe d Click Setup or Setup exe or 1 Open the explorer see 18 1 5 2 Select the path of the CDROM drive normally D 3 Double click on the file setup exe The Administrator can re enable Autorun by changing the Registry entry Warning You are about to edit the Windows Registry File This is Windows XP s nerve center and errors in your setup may render your Windows XP installation UNUSABLE Please make sure you have a recent Windows XP Repair Disk cr
22. Troubleshooting form the indicated steps a If booting stops at position 1 and you get the messages Fast ethernet FEN 100 MBit s half duplex No server for usr diskless clients spect root un ix r4600_std BRUKER CCU R4600 Monitor Version 5 40 MIPS OPT Wed Jun 11 19 30 43 MSZ 1997 root Memory size 16777216 0x1000000 bytes 16 MB Icache size bytes Dcache size bytes gt gt then you might have one of the following problems The Service bfs not running Click Start Control Panel Administrative Tools Services gt bfs Start The Diskless package is not installed see chapter 6 4 The ethernet cable between PC and CCU allows no data throughput check the connection between the cable and the PC CCU check if the correct ethernet card is connected check the configuration of the ethernet port see chapter 13 1 b If booting stops at 2 you may have one of the following problems The Service bootparam is not running Click Start gt Control Panel Administrative Tools Services gt bootparam Start The file C Windows system32 drivers etc Hosts is wrong It should contain the following entries 149 236 99 1 ASP_ST2 149 236 99 99 spect Be sure that spect is the first entry after the number in this line c If booting stops at 3 you might have the following problem The file c Bruker Diskless WinApp bootparams is
23. click the reconnect at logon box If you want a permanent connection that auto matically is re established any time the client PC is booting up click this box If you don t check it this connection will only last until the next reboot Dive es Path AWDMX lt 400WB quadcourse Cancel I Reconnect at logon Step 3 Press OK As you press OK the system will connect this network share as a new drive called U You can look up the new virtual disk in Windows Explorer after a few seconds BY Exploring U olx File Edit View Tools Help All Folders Contents of U Mtg on Www S E Tmp on Sws T chabasite 27al Software on Www we 9 Caibin on Sws X 2000 on Www Y amp Main Z PN 23N Control Panel E E NaPN 23Na E Printers z 21 object s 48 2KB Disk free space 1 07GB 7 On the right hand side the files shared out from UNIX are shown and you can go about copying moving etc just like with native Windows files 234 Windows XP Tips and Tricks 20 5 3 20 5 4 20 5 5 Configuring Windows XP to handle UNIX style password requests One of the most annoying problems with SAMBA is that older versions are not able to authenticate network connectors using encrypted passwords In SAMBA 2 0 x the default setting is still plain password but you could change it to encrypted This is the best way for the security of your network If you want to use the pl
24. domain admins are automatically a member of the local group administrator so it is not necessary to create a second user with administrator rights 9 2 2 Adding a local user in a domain PC 1 2 Log in as Administrator Go to the icon My Computer on the desktop right mouse click Manage or Open the Microsoft Explorer Go to My Computer right mouse click Manage A window Computer Management will appear e Click Local Users and Groups Highlight User e right mouse click New User A window New User will appear e Enter the users Full Name and Description optional and the users pass User Management 119 word in the fields Password and Confirm Password Create Close 6 Highlight the user you had just create e right mouse click Properties 7 A window lt Username gt Properties will appear e Click Member off Add 8 A window Select Groups will appear e Click Advanced Click Find Now e highlight every name you want to be a member of NmrUser e Click OK gt OK 9 Close the window lt Username gt Properties by clicking OK Click Start gt Shut Down Select Log off Administrator Click OK Press CTRL ALT DEL Now you can log on as the new user 9 2 3 Adding normal users to the group NmrUser in a domain PC Each user who wants to run TOPSPIN must be a member of the group NmrUser This group is automatically created during the TOPSPIN installation
25. 14 2 Remote printing from a PC to a PC 14 2 1 On the PC to which the printer is physically connected If the printer is not installed yet e Install the printer as described in chapter 14 1 During this installation you have to choose between shared and not shared click Shared If the printer is already installed as a local printer a Log in as Administrator b Click Start Printers and Faxes c Click the right mouse button on the printer icon and select Sharing d A window lt printer name gt properties will appear e Click Shared e In the field Share Name enter the name under which the printer can be accessed on the network e g viola_deskjet e Click OK e Close the window Printers by clicking the X button 14 2 2 On the PC from which you want to print 1 Click Start Printers and Faxes 2 A window Printers will appear e Double click the icon Add Printer 3 A window Add Printer Wizard will appear a Click Network printer b Click Next c A window Locate your printer will appear enable one of the three fields under the point What Do You Want To Do e Find a Printer in the Directory is a powerful search tool that is looking for a printer with the properties you want in the active directory if you are mem ber of domain e Click Next a window Find Printers will appear Installing a Printer 161 e Choose the domain path in the field Iw e In the menu
26. 20 to 29 CCU 08 38 part H2570 EC level 30 to 39 CCU 08 46 part H2570 EC level 40 to 49 CCU 09 55 part H2570 EC level 50 to 59 CCU 09 62 part H2570 EC level 60 to 69 ccu 11 i part H2570V1 requires no specific EC level 1 Note that CCU 10 does not exist for AQX AQR spectrometers Further note that CCU 11 also exists for AQS spectrometers TCU TCU required minimum EC level TCU 1 main board 03 part H5811 or 5812 TCU 0 main board 07 part H2558 TCU extention board 03 part H2562 TCU extention board part H2562 20 in DMX DRX with gt 5 channels 18 Introduction e RCU RCU required minimum EC level RCU 1 1 part Z002488 06 64kB SRAM amp IMB DRAM RCU 1 2 part Z012488 06 256kB SRAM amp 2MB DRAM RCU 1 3 part Z022488 06 1MB SRAM amp 2MB DRAM Note normal RCUs and multiple receiver RCUs should not be mixed Multiple Receiver RCU required minimum EC level RCU 1 2 part Z052488 requires no specific EC level RCU 2 4 part Z062488 requires no specific EC level RCU 3 4 part Z072488 requires no specific EC level RCU 4 4 part Z082488 requires no specific EC level RCU 1 5 part Z003206 requires no specific EC level RCU 2 5 part Z003207 requires no specific EC level RCU 3 5 part Z003208 requires no specific EC level RCU 4 5 par
27. 214 Ethernet adapter 44 Ethernet cable 180 Ethernet card 13 67 68 70 137 Event Viewer 172 Events 172 examld_lh 28 77 87 Excel 159 expinstall 26 30 54 81 90 93 expinstall command 28 Explorer 71 141 216 227 254 F FAT 133 FAT filesystem 188 202 224 FAT32 135 FEATURE line 68 69 71 176 file 44 file extensions 229 find command 221 Find program 202 firewall 111 237 238 251 alerts 245 configuration script 111 Windows XP SP1 251 Windows XP SP2 240 firmware 30 80 101 Flexlm license manager 19 67 69 71 72 73 173 176 Floating license 67 68 69 141 176 focus 216 ftp 123 147 202 205 ftp server 55 Full license 66 71 72 Full Name 117 118 full screen 218 G gateway 138 GLP 46 51 65 GNU gcc 61 GNU shell 205 222 229 230 GNU TOOLS 46 Good Laboratory Practice 46 51 GRAD tool 187 Graphical Interface 219 graphics card 13 shared memory 13 Graphics driver 35 131 graphics file export 213 import 213 png 213 tif 213 wmf 213 grep 221 gs 180 H hardware requirements 13 hardware_list 94 headcrash 93 helium 254 helium refill 254 heliumlog 254 help 218 222 hostid 69 70 176 hostname 129 140 141 hosts lpd 165 hp workstation xw4100 13 127 137 HPCU tool 187 HPPR tool 187 Hummingbird Inetd 171 NFS Server 57 171 Port Mapper 172 Hyper Terminal 181 182 186 I ICON NMR 46 51 65 125 IDE 191 installation directory 28 93 Installation G
28. Create the user e diskless_user_sys with account is disabled l and the groups with no members e diskless_group_root e diskless_group_other e diskless_group_sys 2 Click Start Control Panel 3 The window Control Panel will appear e Double click the icon Hummingbird NFS Server 4 A window NFS Maestro Server will appear 1 Creation and configuration of the necessary user and groups are most convenient if it is done in the user management tool of the management console and not in the user management of the control panel For starting the management console click right on My computer and choose manage A new window appears where you can choose local users and groups 58 Installing TOPSPIN a Click the Exported File Systems tab NFS Maestro Server Configuration General Name Mapping Exported File Systems Exported Printers List of Exported File Systems C Bruker Diskless clients s Exported File System C Bruker Diskless clients spect Web I Read Only Lower Case JV Restrict Access to Hosts Vv spect P Use P Address for Secure Access jae OA Security Permissions Insert Remove SES ES Jers e Cancel Apply Help In the field Exported File System browse for the location of the DISK LESS package e g C Bruker Diskless clients spect Important the Uppercase letters in this path are necessary e Select the Allow Acces
29. Express Installation and Configuration of TOPSPIN 2 3 1 2 3 2 4 You have to configure the software on a new hard disk without a backup of the spectrometer configuration so you have no configuration files go to chapter 8 1 4 5 You have a new spectrometer hardware component so you have no configura tion file go to chapter 8 1 5 If you would like to take over the configuration of an existing XWIN NMR or TOP SPIN installation into TOPSPIN 1 3 please check chapter 8 2 If you want to use a default configuration on a datastation A default configuration can be used on a PC that is used for processing only It is automatically performed no cf required during the installation of TOPSPIN on a new computer a new disk or in a new TOPSPIN installation directory The default configuration name is Bruker_default_av500 and corresponds to an Avance 500 MHz spectrometer For data processing the automatic default configuration is sufficient If however you want to use AU programs you must execute expinstall and select Instal lation for Datastation Default For further details please refer to the respective chapters see chapter 8 1 2 If your PC controls a spectrometer 1 Be sure that the spectrometer is booted see chapter 6 4 and also 15 5 3 2 Open a dataset e Type new and create a new dataset e You can also select a dataset e g exam1d_1h acquired with another TOP SPIN or XWIN NMR version 3 Enter cf Th
30. Help t System Your choice to 1 2 3 4 5 6 7 8 3 A B D E F Q 102 Configuration of TOPSPIN 5 To check and eventually download a new firmware from TOPSPIN e type 2 gt ENTER The check starts and ends for example as shown in the following picture ct D WINDOWS System32 cmd exe ol x a sch cnf scb cnf lock cnf sleb cnf cpu cnf AD REPORT Keyboard up to date A SCB L is up to date SCB M is up to date SCB R is up to date Lock needs autodownload SLCB 16 256 1 no firmware for this boardversion contact your serviceoffice CPU is up to date ee communicationtest 15 seconds eee B Oh Estimated autodownload time 18 min Press y to start autodownload Any other key aborts e if there is a problem with a component you get an information to contact your serviceoffice B e if you need a firmware update you will get a message A with the length of time for the download C It is recommended to do the download as soon as possible 6 Press y ENTER to start the download During the download it is absolutely necessary that spectrometer and PC are not disturbed Make sure that no one pulls a cable out of the spectrometer or uses Windows XP parallel Yes we know this seems very improbable but if the download would crash your board might be unusable afterwards o _D e A normal error during downloading the new firmware s
31. It could happen that you restore Windows XP to a previous configuration that you do not want To undo the restoration 1 2 Log on to Windows as an administrator Click Start gt All Programs Accessories gt System Tools System Restore System Restore starts A window Welcome to System Restore appears Click Undo my last restora tion Next A System Restore message may appear that lists configuration changes that System Restore will make gt click OK On the Confirm Restoration Undo page click Next System Restore restores the original Windows XP configuration and then restarts the computer Log on to the computer as Administrator A window The System Restore Undo Complete appears Click OK 15 14 Turn on and turn off System Restore in Windows XP 15 14 1 The System Restore is the feature that allows a computer system to be rolled back or restored to a point in time before certain events took place for example prior to specific software or hardware installations System Restore monitors changes to the system and some application files and automatically creates restore points You can also create your own restore points at any time In Windows XP the System Restore is enabled by default Turn on System Restore To turn on System Restore follow these steps 1 2 3 Click Start gt right click My Computer click Properties Click the System Restore ta
32. License manager required for starting TOPSPIN programs GNU TOOLS System tools required by TOPSPIN automatically installed as part of the TOPSPIN package PERL language interpreter required for certain TOPSPIN commands automatically installed as part of the TOPSPIN package 6 4 Installing TOPSPIN This chapter describes the installation of the TOPSPIN as a local Administrator using a local NMR Superuser account Chapter 13 6 describes additional steps which must be taken if you want to install the TOPSPIN in a Domain Installing TOPSPIN 47 The main decision you have to make during installation is where do you want to install the new TopSpin version If you have a previous NMR SUITE or TOPSPIN installation on this PC available you can either e install the new version in parallel to the previous one M e install the new version in the same directory as the previous one The installation in parallel has the advantage that the previous version remains unchanged After a parallel installation you can start working with the new version and if you want to go back to the previous version for whatever reasons you can just start and reuse it The installation of TOPSPIN 1 3 offers an automatic import of your individual con figuration of a previous version so that there is no advantage to install the new version in the same directory as the old one 1 Log in as a Local Administrator 2 Close ALL WINDOWS on the desktop 3
33. PC rem rem catch command line arguments rem set MYSELF 0 set LEVEL 1 set LIMIT 2 rem rem get the name of the spectrometer host rem set HOST SCOMPUTERNAMES rem rem prepare th mail message rem set MSG Attention At the magnet of the SINSTRUMENTS spec trometer is the heliumlevel of L the helium level limit of LIMIT lium and refill the helium tank EVELS S equal or lower than please order liquid he This message has been 256 Appendix sent by MYSELF on HOST to ADDRESS1 ADDRESS2 and ADDRESS3 rem rem send the messag rem net send SADDRESS1 MSG net send SADDRESS2 SMSG net send SADDRESS3 SMSG You have to write in your individual parameters replace Avance 300 with the name of your spectrometer replace NMR SUPERUSER PC with the name of the PC of the NMR Supe ruser replace HELIUM REFILLER PC with the name of the PC of the responsible person for helium refill Attention the text sequence set MSG Attention At the magnet of the INSTRUMENT spectrometer is the heliumlevel of LEVEL equal or lower than the helium level limit of LIMIT please order liquid helium and refill the helium tank This message has been sent by MYSELF on t HOST to ADDRESS1 SADDRESS2 and tADDRESS3 o 6 o o had to be written in one line click file save as and save it as
34. PLOT EDITOR functionality is described in its online manual that can be opened from the TOPSPIN PLOT EDITOR Help menu 17 1 5 Print the Integral list 1 Click the Integrals tab of the data window 212 Plotting and Printing under Windows XP 2 Enter print or Ci rl p to print it oxi Spectrum ProcPars AcquPars Title PulsProg Peaks Integrals molecule Fia a Integrated Region Integral 564 7 877 1 58861 877 410 1 586 409 044 3 50548 151 504 10 1067 503 215 0 774846 214 987 0 747927 986 167 81 6904 17 1 6 Print the Peak list 1 Click the Peaks tab of the data window 2 Enter print or Ctrl p exam1d_1H 1 1 C BrukeriTOPSPIN guest Spectrum ProcPars AcquPars Title PulsProg Peaks Integrals Molecule Fid Peak v F 1 ppm Intensity 1 2 3 4 5 A 7 8 17 1 7 Copy data to Other Applications Under Windows XP you can easily copy the data window contents to other appli cations To do that e Click Edit Copy copy This will copy the data window contents to e the clipboard After that you can paste the clipboard contents to any Win dows application Plotting and Printing under Windows XP 213 e the Windows Metafile file screenDump wmf in the user properties directory enter hist to locate this directory The Windows Metafile can be imported by other applications or send to a different computer Note Some programs
35. Pulse Programs Install Bruker Library AU Programs Install Library CPD Programs Install Library Gradient Files Install Library Shape Files Convert Standard Parameter Sets Install Standard Scaling Region Files Enable Define Statements in Pulse Programs Basic frequency 300 13 MHz Digitizer SADC Acquisition mode DQD Pre scan delay 6 0 ys Printer HP LaserJet 1200 Series PS Plotter HP LaserJet 1200 Series PS Papertormat A4 Letter The installation of the selected items will start now Wait until this process has fin ished For more details on expinstal11 please refer to the description of this com mand in the Acquisition Reference manual If you want to use a default configuration on a datastation A default configuration can be used on a datastation It is automatically performed no cf required during the installation of TOPSPIN on a new computer a new disk or in a new TOPSPIN installation directory The default configuration name is Bruker_default_av500 and corresponds to a Avance 500 MHz spectrometer For manual or interactive data processing the automatic default configuration is sufficient If however you want to use AU programs you must execute expin stall once selecting Installation for Datastation Default If you do not know the configuration of your spectrometer If you do not have any spectrometer configuration information e g after a head crash then you have to recreate the configura
36. SP2 users with enabled firewall If you have installed the NFS server after TOPSPIN you have to execute set firewall cmd again see chapters 4 5 and 8 8 35 36 General Installing Information 11 Installing a PDF viewer see chapter 5 If your PC is already in use steps 1 to 3 are probably already done In that case you can start with step 4 Chapter 4 Installing NFS Server 4 1 TOPSPIN NT Toolkit CD The Bruker BioSpin ToPsPIN NT Toolkit CD for Windows XP contains the Hum mingbird NFS Server 7 1 The version of the NFS Server for Windows XP that is currently supported is 7 1 If this is already installed you can skip this chapter The NFS Server is available on the TOPSPIN NT Toolkit CD that can be ordered from Bruker BioSpin part number H9437W0 Please contact your sales representative for the price of the NFS Server Alterna tively you can contact NFS manufacturer Hummingbird for information on how to obtain NFS 7 1 or how to upgrade from an earlier version 4 2 Preparing for the TOPSPIN NT Toolkit installation The NFS Server is required if your PC controls a spectrometer it makes the DISK LESS package available for the CCU 1 See www hummingbird com 37 Installing NFS Server Before you install the NFS Server e Click Start All Programs Accessories Command Prompt e Enter ipconfig all and check if the network is installed If it is not install the network as described
37. Under Windows you locate other computers in the network with Windows Explorer and then you can use drag and drop multiple files and entire directo 123 124 Installation procedure ries You can also connect to UNIX machines in that fashion using a UNIX tool called samba Installation details are in chapter 13 4 3 Nevertheless in some cases FTP is still the easiest way to get a file quickly 10 2 Removing existing software Windows XP is more complex than you might think Many files that are uploaded during an installation go into other parts of the system or replace existing versions of files Thus an uninstall is more like a build back and you need that to really clean things out By removing the directory you don t solve your problem and also you lose the installation log which is stored as the software is installed This log is very important and used by the uninstaller to make sure it finds every file that went on in the first place Use the uninstaller from Control Panel i e the icon labeled Add Remove Programs Without a log this software will not work any more If the TOPSPIN is already installed and you want to install a new version or re install the same version you must first remove the old version and reboot the computer Your own AU programs pulse programs and parameter sets are NOT removed when you de install TOPSPIN If you want to re install any other package like NFS you must first remove that packa
38. about a missing NULL printer driver will appear Click OK 5 A window Add Printer Wizard will appear a In the field Manufacturers select the manufacturer of the printer e g HP Installing a Printer 167 b In the field Printers select the type of the printer If your printer does not appear in the list select a related printer type or click Cancel and get the driver from CDROM or from the Web c Click Next d If other printers are already installed you will be asked if the new printer must be the default printer e If you want to use this printer as default printer click Yes e If you do not want to use this printer as default printer click No e Click Next click Finish 14 6 Installing a printer with a JetDirect print server If your printer is connected to the network via a HP JetDirect print server you must install it in the following way 1 2 Install the Service Microsoft TCP IP Printing as described in chapter 14 3 1 3 4 A window Printers will appear Log in as Administrator Click Start Printers and Faxes e Double click the icon Add Printer A window Add Printer Wizard will appear a Click Next gt Local Printer disable Automatically detect and install my Plug and Play Printer click Next a Enable Create New Port select Type LPR Port Next A window Add LPR compatible printer will appear a In the field Name or Address of server providing Ipd
39. access folders files at Level 3 you must share them out on the network Level 4 or 5 To configure a file folder and all of the files in it to Level 3 a Start Microsoft Windows Explorer b Copy or move the file folder to the Shared Documents folder under My Computer 4 Level 4 Shared on the Network Read Only For everyone on the network and local users including the Guest account if ac tivated the files are shared to read But they are not allowed to modify the con tents User that can connect to the computer on the network are able to read and change these files To configure a folder and all of the files in it to Level 4 a Right click the folder click Sharing and Security b Click to select the Share this folder on the network check box c Click to clear the Allow network users to change my files check box gt click OK 146 Windows XP Networking 5 Level 5 Shared on the Network Read and Write This level is recommended only for a closed protected network that has a fire wall configured This level is the most available and least secure of all access levels Any user can read write change or delete a file in a folder shared at this access level To configure a folder and all of the files in it to Level 5 a Right click the folder click Sharing and Security b Click to select the Share this folder on the network check box click OK NOTE All NTFS permissions that refer to Everyone inclu
40. and you need to see the configuration given in chapter 6 6 If settings have to be altered do this reboot the PC and then the CCU before checking again e The minimum test is this Try to ping spect and then to telnet spect see chapter 8 3 Here is how to proceed If you can ping and telnet and get spect s login prompt you should be able to run TOPSPIN from here You are all set If you can ping but cannot Telnet to CCU the physical connection is all right but CCU doesn t boot Please connect a monitor cable to CCU and open a Hyper Terminal connection HyperTerminal is Windows s text terminal emulator and it comes with every copy of Windows The details are in chapter 15 5 5 If you can t even ping CCU try a new Ethernet cable and if it still doesn t work try another type of Ethernet card 15 5 2 Software related problems Please check if the required Services are running as described in chapter 15 1 1 15 5 3 View the output of the CCU console In order to view the output of the spectrometer CCU you must connect the COM2 port of the PC to tty00 of the CCU The hyper terminal application can be used to make the output of the CCU visible on the PC this has the same function as cu and kermit on UNIX systems 15 5 4 Configuration of HyperTerminal 1 Click Start All Programs Accessories Communications Hyper Terminal 2 If you do this for the first time HyperTerminal will ask for some informations in 182 Tr
41. b Enter in the TOPSPIN command line logoff Open Command Prompt Click Start All Programs Bruker TOP SPIN Bruker TOPSPIN x y Bruker Utilities Command Prompt and start a second TOPSPIN topspin client Has the first TOPSPIN window been closed and does the second one work fine e Yes The problem is solved you can go ahead with TOPSPIN e No Go ahead with step 2 Troubleshooting 179 2 Stop all TOPSPIN windows and end the program itself a Try to stop all TOPSPIN windows by enter the command logoff in the TOPSPIN command line b Kill TOPSPIN in the following way a Press CTRL SHIFT ESC to start the Task Manager b Click Applications c Click Bruker TOPSPIN 1 x d Click End Task e Go to the Bruker Utilities e Click Start All Programs gt Bruker TOPSPIN Bruker TOP SPIN x y Bruker Utilities e A window Bruker Utilities appears e Double click Miscellaneous e Double click the entry shmrm 15 4 Send debug information to Bruker BioSpin If you are in a situation that TOPSPIN problems appear periodically you can send the information about this situation to Bruker BioSpin To get the information go into the error message in the window where the TOPSPIN startup messages appear and press the keys Ctrl and Break simultaneously This will create a debug output inside the shell Please copy this output into an email and send it to this address nmr software suppor
42. c If you prefer a Domain NMR Superuser do the following 1 Log on at the Domain Controller BOSS as the Domain Administrator 2 Open the User Manager and create an account for the NMR Superuser e g with the name nmrsu see also chapter and 9 1 Note that the installation of TOPSPIN which must be done as local Administrator relies on the fact that the NMR Superuser was correctly installed It cannot check if a Domain NMR Superuser really exists Installing TOPSPIN The installation of TOPSPIN involves the following steps 1 Log on as local Administrator on Windows XP Professional WTSPEC 2 Install the TOPSPIN as described in chapter 6 4 During the installation process you will be asked for the NMR Superuser Enter the name of the NMR Superuser account as created before see chapter 13 6 1 After the installation process NMR users cannot start TOPSPIN yet First they must be added to the local group NmrUser Users with a local account e g lo calnmrusera can simply be added to NmrUser as described in chapter 9 1 3 However for users with a Domain account which is typical in a Domain scenar io we recommend to use global groups as described in chapter 13 6 2 13 6 2 Installing global user groups The TOPSPIN installation program creates a local group NmrUser Each user who wants to use TOPSPIN must be a member of this group Domain users could be added individually to the local group NmrUser but in a network wit
43. enter the name or IP address of the Print Server b Inthe field Name of printer or print queue on that server you must enter e rawl if you have an internal JetDirect adapter e rawl raw2 or raw3 if you have an external JetDirect print server depending on the JetDirect port to which the printer is connected c Click OK 168 Installing a Printer 7 In the window Printer Ports e Click Close 8 In the window Add Printer Wizard e Click Next 9 Continue the installation as described in chapter 14 1 1 step 4d Part IH Tips Tricks and Troubleshooting Chapter 15 Troubleshooting 15 1 General checks 15 1 1 Windows XP Services The TOPSPIN requires the following Windows XP Services to control a spectrome ter Proceed as follows 1 Click Start Control Panel gt Administrative Tools 2 Double click Services 3 A window Services will appear At least the following services should appear with status Started Bfs Bootparam Bruker FLEXIm License Server only if the PC has a local license If the license server is a remote machine the FLEXIm service has to be started only there Hummingbird Inetd Hummingbird NFS Server 171 172 Troubleshooting e Hummingbird Port Mapper e NuTCRACKER Service e Schedule Note that this list only contains the Services required for the TOPSPIN Several other Services are required for Windows XP and possibly for other software packages on
44. gt and click on Restore Examples for backing up the current Topspin installation 1 Default backup directory used e Location of backup file lt topspinhome gt nmr_backup e g C Bruker TOPSPIN nmr_backup e Installation to be saved or restore destination lt t opspinhome gt e g C Bruker TOPSPIN e Spectrometer name spect lt spect gt e g spect e Click Save 2 Default backup directory used but the spectrometer directory spect_org is saved which is not the default being defined in lt TOPSPINHOME gt conf instr curinst e Location of backup file lt topspinhome gt nmr_backup e Installation to be saved or restore destination lt topspinhome gt e Spectrometer name spect spect_org 110 Configuration of TOPSPIN Click Save 3 tmp as backup directory Location of backup file C tmp Installation to be saved or restore destination lt topspinhome gt Spectrometer name spect lt spect gt Click Save Example for backing up the current XWIN NMR installation If TOPSPIN is parallel installed to XWIN NMR 1 To create a tar file of all important files and directories from the XWIN NMR installation in C Bruker XWIN NMR and TopSpin installation in C Bruker TOPSPIN Location of backup file C Bruker TOPSPIN nmr_backup Installation to be saved or restore destination lt topspinhome gt e g C Bruker XWIN NMR Spectrometer name spect lt spect gt e g spect Click S
45. gt hardware exam e Copy the modified file hardware exam into the directory lt TOPSPINHOME gt conf instr lt spect gt e Rename the file lt TOPSPINHOME gt conf instr lt spect gt hardware exam to lt TOPSPINHOME gt conf instr lt spect gt hardware_list Configuration of TOPSPIN 95 8 1 5 If you added a new hardware component to your spectrometer If you want to add a new hardware component it is recommended to order some body of your local Bruker BioSpin office to do this for you If you have to add a new hardware component to the configuration file of the soft ware do the following TOPSPIN 1 3 offers the default file hardware exam which contains a list of all available hardware components which are important for the cf command This file was generated in XWIN NMR with the command cf makelist now it is available in lt TOPSPINHOME gt conf instr e Open this file with a text editor e g kedit and search and copy these line s that describe the new hardware component s Please carefully check the PN C D E and ECL number s of the component s e Copy the file lt TOPSPINHOME gt conf instr spect hardware_list to lt TOPSPINHOME gt conf instr spect hardware_list_sav e Open the file lt TOPSPINHOME gt conf instr spect hardware_list and paste the new entries to the correct positions 8 2 Take over the configuration of XWIN NMR or TOPSPIN into TOP
46. htm click OK If TOPSPIN does not start after installing the license please check chapter 15 Chapter 8 Configuration of TOPSPIN The idea of this chapter is to give you some guidelines to full spectrometer or workstation configuration We do not discuss the commands in detail here For a full description refer to the TOPSPIN manual 8 1 Configuring TOPSPIN There are two ways to start TOPSPIN 1 Click the icon TOPSPIN on the desktop 2 Click Start All Programs Bruker TOPSPIN gt TOPSPIN lt vers gt After the first startup of TOPSPIN a window License will appear 75 76 Configuration of TOPSPIN Please read and accept license If you don t agree press Cancel The program will terminate in this case C Match Case LICENSE AGREEMENT FOR BRUKER TOPSPIN Version of September 10th 2004 8 THIS IS A LEGALLY BINDING AGREEMENT hereafter AGREEMENT BETWEEN YOU AND BRUKER BIOSPIN GMBH hereafter BRUKER BY INSTALLING BRUKER S SOFTWARE PRODUCT hereafter SOFTWARE AND OR IT S STANDARD DOCUMENTATION hereafter DOCUMENTATION ON A ORKSTATION COMPUTER AND OR BY USING THE SOFTWARE AND OR DOCUMENTATION YOU ARE AGREEING TO BE BOUND BY THE TERMS AND CONDITIONS OF THIS AGREEMENT INCLUDING THE SOFTWARE LICENSE AND DISCLAIMER OF SOFTWARE WARRANTY BELOW PLEASE READ THIS DOCUMENT CAREFULLY BEFORE INSTALLING AND OR USING THE SOFTWARE IF YOU SHOULD NOT AGREE WITH THE TERMS AND CONDITIONS OF THIS AGREEME
47. it to highlight the entry gt Properties e No see 13 1 1 e A window Internet Protocol TCP IP Properties will appear e Click on Advanced e A window Advanced TCP IP Settings will appear e make sure that the entry Enable NetBIOS over TCP IP is enabled Also click Start Control Panel Administrative Tools Double click Services 176 Troubleshooting e A window Services will appear make sure that server and TCP IP NetBIOS have the status started 7 Failed to register Kernel Service the Service Nutcracker Kernel is probably not running Click Services in the Control Panel Select Nutcracker Click Start 8 Cannot find resolution file Reboot the computer and try again 9 Invalid license key inconsistent license key The file License dat might contain one of the following errors e The hostid in the SERVER line is wrong e The FEATURE line contains the wrong license key the wrong date and or the wrong number of licenses e The hostid is appended at the end of the FEATURE line this is correct for Node Locked licenses but not for Floating licenses see chapter 7 1 10 Invalid data returned from license server e Hostname in the file License dat is incorrect 11 Invalid host e The file license dat contains additional characters at the end of the FEATURE line after For more information on the Flexlm license manager Click Sta
48. might be using a program that Windows can t find If you are not sure about the status of your antivirus or firewall solution or if you receive a Security Center alert that seems incorrect check with your antivirus or firewall vendor to find out if the software you are running is supported in the Security Center Note If your computer is part of a domain your security settings are typically managed by your network administrator In this case the Security Center does not display your security status or send alerts What do the new security icons mean Windows XP SP2 contains a set of security icons that can help you recognize potential security risks and choose appropriate security settings These icons means Indicates important security information and settings Notifies you of a potential security risk Situation is more secure Your computer is using recommended security settings Warning situation is potentially harmful Consider adjusting security settings to enhance the security of your computer ee Your computer s current security settings are not recommended Firewall Windows Firewall previously known as Internet Connection Firewall or ICF is a protective tool that monitors and restricts information that travels between your computer and a network or the Internet This provides a line of defence against someone who might try to access your computer from outside the Windows Fire wall without your permis
49. ooo ee ce eeeecceeeeeceeeeeecseeeeecasesaecaecsaecneceseeaeenesearenes 46 Installing TOPSPIN cote cee esd ee A He a ect eRe ES a 46 Installing TOPSPIN patches 5 aee a a aore r A E E ey eevee ashes 55 Configuring NES Server ton aeree ee a ini een E ee ee 56 Configuring NES Servet 7 lorries enese sei cavecstanessudcstancde gas taausssdeabeacestsladeua sce tbsddeadeccestdteages TSE ieta 57 Adding a user to the group NmrUser 0000 ee ee eceeeeecseeeeeceeaecseceaecscesesecneeeeenes 60 Check if the TOPSPIN installation is correct eee eeeceeeeeeseeeeseeceeeseecaeeaeeaeenaees 61 Compiling AU programs enn e E E eee gee ee hes eer ege debe 6l The usage of the NMR GUIDE nire erir e e Ea a e aa SeA E 62 Requirements for NMR Guide 4 4 snesiicinei siiin a E E a i 62 Java Requirements for NMR GUIDE A Qnei cece cee caececaeeceesesseaseesesseseeesaeeeaseceesessesseesenaeaee 63 Working with the NMR GUIDE ccecsssssesesseeseseeseseeseesesaenceacesceeceecaecaeesseaesaeaeeaeeeceecaecaeceseesaeeaeaaeaeeeeeees 63 Configuration of Internet Explorer for the NMR GUIDE 0 eee ee cere eee caeeeeeecaenesaeesenenaeas 64 The TOPSPIN license ssssessssssrssssscssssessrcsesscsscssssessessssssesecsesscssscsesscssssscssessneses OD Questions and answers about the TOPSPIN license cecsseeesseceesteeeeeeeeeeneeeeeaes 65 Ordering and installing the TOPSPIN license 0 0 eee eeeceesecsecesecneceeeeeeneeereees 70 H w do determine the Correct
50. prog bin installnmr lt TOPSPINHOME gt lt NMRSUPERUSER gt If you installed TOPSPIN in the default directory and you want to use the user nmrsu as NMR SUPERUSER you have to type in perl bin perl prog bin installnmr C Bruker TopSpin nmrsu 5 Enter the old password and new password as requested How to define a new NMR ADMINSTRATION PASSWORD To define anew NMR ADMINISTRATION PASSWORD for example because 46 Installing TOPSPIN you have forgotten it you have to 1 Login as the Administrator 2 Open a Windows Command Prompt 3 Delete the file lt x gt conf nmradminpassword 4 Enter perl bin perl prog bin installnmr lt TOPSPINHOME gt lt NMRSUPERUSER gt 5 Enter new password as requested 6 3 Packages on the TOPSPIN DVD 1 TOPSPIN Acquisition and processing software N v E sw w 12 TOPSPIN PLOT EDITOR Object oriented WYSIWYG plot editor automatically installed as part of the TOPSPIN package ICON NMR Icon driven interface for Routine Spectroscopy and Automation NMR GUIDE Web browser based teaching and training program DISKLESS Spectrometer CCU operating system NMR SIM Program for numerical simulation of NMR experiments AMIX Viewer new multiple object viewer requires a separate license AURELIA Analysis of 2D 3D 4D NMR data requires separate license GLP Program for Good Laboratory Practice tests requires separate license 10 11 FLEXLM
51. step Part two describes the scratch installation of Windows XP and some configuration steps for Windows XP the network and printers If you want to install Bruker BioSpin TOPSPIN on a PC which is already in use you can skip this part In the last part you can find some additional information for working with Win dows XP and TOPSPIN and also some tips for troubleshooting Note that all text messages and graphics shown in this book are taken from the current version of the respective software products Small differences to other ver sions are possible but generally speaking they should be very similar If you have any comments or suggestions or if you find any errors in this manual please do not hesitate to contact us at nmr software support bruker biospin de Conventions Bold Courier Windows XP commands to be entered from the keyboard Bold Times Windows XP commands applications or buttons to be clicked with the mouse Bold Courier Italics TOPSPIN commands to be entered from the key board Bold Times Italic TOPSPIN commands to be clicked with the mouse Courier a file name or directory name Courier Small Italics response of the system Courier Small the contents of a file Times italics any name which is not a file name e g hostnames usernames etc lt gt place holder Introduction 13 1 3 Hardware and software requirements for TOPSPIN 1 3 1 Operating system requirements The following operating sys
52. that the first character must be alphanumeric and underscores are not allowed e Click OK 4 A window Network Identification will appear e Click OK 5 In the window System Properties Windows XP Networking 141 e Click Close 6 A window System Setting Change will appear e Answer the question if you want to restart the computer now by clicking Yes 7 If you have Floating licenses you must change the hostname in the file license dat By default it resides in C flexlm Bruker licenses You can do this in the following way a Click Start All Programs Accessories Command Prompt b Enter cd c flexlm Bruker licenses c Enter notepad license dat e Change the hostname in the SERVER line then save and exit the file Of course you can also change the license file from the Explorer We have cho sen the Command Prompt because the Explorer might add the hidden exten sion txt to the file License dat which makes it unusable see chapter 16 1 3 13 3 Network diagnostic commands Here is a list of the most important network diagnostic commands as they can be entered from the Command Prompt e arp displays or modifies the IP to physical address translation tables e hostname displays the name of the current host e ipconfig displays information about the current TCP IP configuration e netstat displays protocol statistics and current TCP IP connections e ping checks if a destination host
53. the auto negotiate protocol of certain cards doesn t work That means CCU can t find out whether to go for 10baseT or 100baseT Some of the newer Ethernet cards allow you to switch the auto negotiate off Soft ware configuration allows you to set a fixed speed of 10 In some cases you can also force a card into 10Mbps by putting a hub a 10Mbps hub between PC and CCU The hub will tell the card to switch to 10Mbps and CCU gets around auto negotiate too If the light still doesn t come on please connect the Ethernet board with some operational network e g corporate network If you get a physical connection light goes on obtain a temporary IP address for the PC and install the card net work netmask DNS etc to the point where you see the rest of the company through the network neighborhood of your PC This will make sure that your card works at all Then switch back to the IP netmask for spect and reboot PC Is the light on If not get a new Ethernet card Troubleshooting 181 b If the light is on At this point you know that the physical connection is intact that is the connec tion light on the PC s Ethernet board came on There are two possibilities to check from here e CCU is indeed booting OK yet you can t access it for some reason e CCU really does not boot and you have to find out why Before you proceed you might want to quickly check the settings in NFS Mae stro Call it from the Control Panel HCL NFS Server
54. the net work If more than one license is available as many copies of the program as are covered by the license can be started simultaneously For example if you have a license file with 5 licenses for TOPSPIN TOPSPIN can be started 5 times from any 5 computers in the network The number of licenses is stated in the FEATURE for the respective program What is the difference between 1 Server 3 Server Licenses Floating licenses can be ordered as 1 server or 3 server licenses In a 1 server license you have only one license server and in a 3 server license there are three license servers defined in the license file e The advantage of a l server license is that it is only necessary to have one computer active at a time to make the license available 68 The TOPSPIN license 8 10 e The advantage of a 3 server license is that any of the three license servers can be inactive and the license management is then done by the remaining two servers e One requirement for the three license servers is that all of them have TCP IP active e The operating system on the three computers can be the same or can be dif ferent Linux Windows What is a Node Locked license A node locked license allows you to start the respective program only on the computer with the Host ID for which that license was generated Typically this license form is used for Demo and Teaching licenses No other computer can use the license in the way descr
55. the nmr_save AU program to transfer the configuration see chapter 8 7 a Start TOPSPIN as Administrator b Open a dataset e Type new and create a new dataset e You can also select a dataset e g exam1d_1h acquired with another TOP SPIN or XWIN NMR version c Enter cf The command cf now configures the software according to the hardware of your spectrometer a A window will appear Password request Please enter the NMR administration password Type in the NMR ADMINISTRATION PASSWORD Click OK 88 Configuration of TOPSPIN b A window will appear Spectrometer configuration Cf Configure the hardware of your spectrometer or create a configuration for a datastation Active configuration spect Available spectrometer configurations 4 Configuration Spectrometer type Frequency MHz Bruker_default_av500 Avance 500 500 13 Datastation Select one of the available configurations or create a new one Press Edit to modify or use an existing configuration e g add new hardware or use previous installation Press New to create a configuration from scratch Press Edit to confirm this configuration c A window will appear The selected configuration is displayed Choose Datastation to configure your PC as a datastation Edit configuration Configuration name Spectrometer Datastation Spectrometer type Avance 1H frequency of magnet MHz 300 13 Debug Use debug mo
56. where backup tar file nmr_backup tar will be created backup directory absolute path where backup tar file can be found backup directory the target directory must also be specified see examples below overwrite existing nmr_backup tar file do not display any messages absolute path to Topspin xwin nmr installation that should be saved spectrometer name e g spect default is the cur rent name For safety reasons the tar file will not be replaced by executing the xwin nmr save script once again So if you like to use the script several times you have to move the xwin_backup tar file from the directory TOPSPIN HOM E xwin_backup on a backup medium floppy CD and then start the script once again or you have to use the replace option Appendix 259 21 5 Where Do I Find What If you cannot find the required information in this manual please check the manu als listed below Further useful information you can also find in the Release Letter for the respec tive TOPSPIN version TOPSPIN Users Guide Window handling diplaying data interactive data manipulation user interface related items Acquisition Reference Description of all acquisition commands parameters and files Processing Reference Description of all processing commands parameters and files AU Reference How to write AU programs Description of all AU macros functions and vari ables List of Bruker AU programs TOPS
57. window UserAccounts will appear e Click Create a new account 4 A window UserAccounts will appear e Enter the name of the new account e g root Next 5 A window Pick an account will appear 115 116 User Management 9 1 2 Click Computer administrator Create account Now you have created a new account But this account is not protected by a pass word by default Therefore you have to set a password for this account 1 Click Start Control Panel User Accounts 2 A window UserAccounts will appear Click Change an account Click the account you want to change Click Create a password Type in the password confirm it and type in a password hint gt Create Password Now you have for example two users with local Administrator rights Administra tor and root Whenever the password of one of them gets lost you can login as the other one open the User Manager and define a new password The creation of the new administrator account means that the user Administrator is hidden in the log in menu You are able to log in as the user Administrator by pressing twice Ctrl Alt Delete in the log in window Adding a new user in a standalone PC method 2 1 Go to the icon My Computer on the desktop gt right mouse click Manage or Open the Microsoft Explorer Go to My Computer gt right mouse click Manage 2 A window Computer Management will appear g Computer
58. you will answer yes ENTER Delay between SX and next command sec e Type in the length of the delay e g 10 ENTER The nuclei table appear Check if the frequency of the nuclei are set correctly If in doubt click Re store then click Save A window Edit spectrometer configuration will appear Check if the preamplifier connections are set correctly and click Save The results of cf appears in a text window Check this list carefully and compare the result with an list from an earlier configuration if available click Print and store the paper output with your other spectrometer documentation then click OK These data are saved in lt TOPSPINHOME gt conf instr lt spect gt uxnmr info 30 Express Installation and Configuration of TOPSPIN If during cf an error message occurs that invites you to do a firmware update check chapter 15 5 After finishing cf the window config will appear showing a list of configura tion steps You will be asked for the NUR ADMINISTRATION PASSWORD several times Continue with expinstall a b c d e g h i Type in the NMR ADMINISTRATION PASSWORD and ENTER Click Next if you either have not modified Bruker BioSpin Parameter files AU programs and Pulse programs or if you have archived them in a differ ent directory Your individual Parameter files AU programs and Pulse pro grams etc that are named different to the original Bruker BioSpin files w
59. 2000 clients Windows XP clients and OS 2 clients A share is a term used to describe resources directories printers etc that the server is making available for others on the network to use More information you may find in chapter 13 4 3 in the directory usr samba README and usr samba docs or if you have Internet access on http samba org The license conditions are described in usr samba COPYING 20 5 1 Accessing the network share provided by Samba 5 You can access shares from any Windows XP PC using the Run feature available from the Start button Run 1 1 x Type the name of a program folder or document and Windows will open it for you Open dmx400wb z Cancel Browse Type in two back slashes followed by the UNIX computer name this operation is equivalent to running a find on a particular computer 6 The corresponding response shows up in a Windows Explorer window Dmx400wb OF x File Edit View Help mtg quadcourse zx zxdata 1 object s selected Ui You can double click on the share you want to see and it will come up with either a 232 Windows XP Tips and Tricks password request for shares with managed access nter Network Password 2i xi You must supply a password to make this connection Cancel Resource ADMx400WBAMTG Password IV Save this password in your password list or the list of contents in yet another Explore
60. 41 1 8 25 91 11 Fax 41 1 8 25 96 96 web server www bruker ch E Mail epweb bruker ch all_ap bruker ch France Bruker BioSpin S A 34 rue de l industrie F 67166 Wissembourg Cedex Tel 33 3 88 73 68 00 Fax 33 3 88 73 68 79 web server www bruker fr E Mail support rmn bruker fr customer support Bruker BioSpin addresses 263 England Bruker BioSpin LTD Banner lane Coventry CV4 9GH Tel 44 2476 855200 Fax 44 2476 465317 web server www bruker co uk Email service bruker co uk apps bruker co uk Our webpage http www bruker biospin de NMR about offices index html e provides contact adresses of our facilities and offices worldwide INDEX Numerics 2D 51 3D 51 4D 51 A ACB tool 187 account Computer administrator 116 acquisition mode 30 83 Acquisition Reference Manual 23 93 Acrobat Reader 19 41 Add Remove 124 Additional license 66 Adobe 19 adware 249 250 Amix 65 Antivirus program 248 antivirus program 237 arp 141 AURELIA 46 51 Aurelia 65 automatic configuration of a datastation 28 93 Automatic Updates 237 Autorun 125 126 B backup 191 192 222 BASH 100 Bfs 171 binary mode 205 BIOS 128 Boot Disk 189 boot partition 189 boot ini 189 Bootparam 171 Browsing options 201 Bruker addresses 261 Bruker FLEXIm License Server 171 Bruker Utilities 55 97 101 112 177 178 179 187 Bruker_default_av
61. 500 28 93 BSMS 100 BSMS tool 187 C Carriage Returns 206 cat 221 CCU 25 37 46 51 147 180 181 182 186 cf 26 28 54 77 87 180 cf makelist 94 95 chown 165 classic logon screen 226 clipboard 213 218 COM2 181 182 command acquisition 180 cf 28 44 93 configuration 44 180 expinstall 44 Command Prompt 25 38 43 44 51 70 71 141 148 175 202 216 220 221 228 254 compiler 61 Compress attribute 205 206 Computer Name 129 140 configuration Bruker_default_av500 28 93 datastation 28 93 default 28 93 directory 87 name 30 82 92 confout txt 103 Control Panel 215 copy 221 Counted license 69 cp 221 CPU 13 critical updates 246 cu 181 cut amp paste 229 230 D DAEMON line 69 datastation configuration 93 date 220 221 debug information send 179 default printer 30 83 92 selection in expinstall 30 82 De install 125 del 188 219 221 deli 188 delp 188 Demo license 66 69 71 72 deselect 229 Developer license 66 diff 221 Disk Administrator 134 DISKLESS 46 56 DISKLESS package 37 40 46 124 172 display resolution 13 DNS 137 139 Documentation 99 Domain 46 151 152 153 238 Domain account 44 151 153 Domain Administrator 151 152 Domain NMR Superuser 153 Domain user 151 domainname 137 138 139 165 183 double paned window 199 Download 130 131 157 187 E edhead 30 85 edlock 31 86 edprosol 30 85 edscon 31 86 edsolv 30 84 Enhanced Metafile
62. 500 mw preamplifier X BB19F_2HS Save Clear preamplifier connections Cancel i Param 90 Configuration of TOPSPIN f The results of cf appears in a text window click Next Configuration summary uxnmr info CONFIGURATION INFORMATION Sun Dec 19 23 50 06 2004 Release TopSpin Acquisition Version ts_1 3pl 0 Host SVEN Windows 5 1 User gaty System Datastation configured as DRX spectrometer no acquisition hardware available 1H frequency 300 13 MHz lt Previous Next gt Cancel lI Print After finishing cf window Additional configuration programs will appear showing a list of configuration steps Additional configuration programs Config Installation of standard experiments Expinstall Solvent table setup Edsolv Probe table setup Edhead Solvent dependent parameter setup Egprosoi Lock parameter setup Eok Spectrometer parameters setup Edscon gt Accept the default selection and click on the buttons You will be asked for the NMR ADMINISTRATION PASSWORD a couple of times e Continue with expinstall a Type in the NMR ADMINISTRATION PASSWORD and OK EY Password request Please enter the NMR administration password iI Configuration of TOPSPIN 91 b Click Next if you either have no modified Bruker BioSpin Parameterfiles EY Experiment installation and AU compilation Expinstall
63. 7 7 1 7 2 7 2 1 7 2 2 7 2 3 7 2 4 7 2 5 7 2 6 Chapter 8 8 1 8 1 1 8 1 2 8 1 3 8 1 4 8 1 5 8 2 Installation orders scscsceeceschecstecaeesde Dist bas deb ae teesiasdssetactdadevaei set dhs caseastsTaonsossastuceoseehs Installing NFS Server TOPSPIN NT Toolkit CDi aaa stieeaies cusenes E E EREA A T EE Preparing for the TOPSPIN NT Toolkit installation 0 eee cee ceteeeeeeeeeeeeees 37 Installing NES Server jo tess erse asses bagesss esa siean ieee EEEE bate netiste SEE eiT 38 Installing NFS 7 1 from the Bruker BioSpin TOPSPIN NT Toolkit CD o oo ecce ce ceeeeeeeees 38 Configuring the NFS Server for spectrometer control oo eee eee cee cseeeteeneees 40 Firewall configuration for the NFS Server 0 cece ceeesecseesseceeceseceeceeeereneeeeenes 40 Installing a PDF Viewer scscccsccscscsssscscssecsecessesccssssscscssscescscsccccssssssscsseseee FL When do I need a PDF Viewer oseere roenn eer aere ea a ea aE irani 41 Installing TOPSPIN issssticcesesbesenecvscssseestcsstsusstenersenss enea so ean os eao eesis AS Preparing for the TOPSPIN installation 0 0 0 eee ee eeeeeeeeeeeseeseeeneeneee 43 NMR SUPERUSER and NMR ADMINSTRATION PASSWORD 055 44 How to change the NMR ADMINSTRATION PASSWORD oo oeceececessecneceeceeeesceaeeeeeeesaecaeeaeeneeeaes 45 How to define a new NMR ADMINSTRATION PASSWORD ceccsesssessetseseesceeceecaeteeeeeeeeseeaeeaeanenes 45 Packages on the TOPSPIN DVD
64. 8 Boron rA 53 732257 11B Boron 7540 3 2 160 461579 13C Carbon 10 12 125 757789 14N Nitrogen 569 1 36 128816 15N Nitrogen 0 0219 1 2 50 677733 170 Oxygen 00611 5 2 67 799908 19F Fluorine 4730 0 1 2 470 592377 21Ne Neon 0 0359 3 2 39 481743 23Na Sodium 525 0 3 2 132 293887 25mg Magnesium 154 5 2 30 616133 27A Aluminum 11700 5 2 130 318169 2951 Silicon 209 1 2 99 361762 331P Phosphorus 3770 1 2 202 456335 338 Sulfur 0 0973 3 2 38 389979 Aaweat Print Delete Restore save lt Previous next gt cancel 80 Configuration of TOPSPIN Check if the frequency of the nuclei are set correctly and click Save If in doubt click Restore then click Save f A window Edit spectrometer configuration will appear Check if the preamplifier connections are set correctly and click Save 4 Edit Spectrometer Parameter frequency BFi 00 SFO1 0 0 OFS1 0 0 SFO2 0 0 OFS2 0 0 BF3 00 SFO3 0 0 OFS3 0 0 logical channel amplifier preamplifier MHz NUCI MHz Ft Fouvscur _xtsow ma Hz XBB19F 2HS MHz NUC2 Leow 2H te MHz NUC3 Mhz Fa Fousscus 2H20w Hz l Save Clear preamplifier connections f Cancel jl Param g The results of cf appears in a text window Check this list carefully and compare the result with an list from an earlier configuration if available click Print and store the paper output with your other spectrometer documentation
65. 9 1 2 9 1 3 9 2 9 2 1 9 2 2 9 2 3 9 2 4 Take over the configuration on the same PC cccceesesesseseeseeeceecaecseeeeeeseeaeseeseeececaecaeceeeeseeeaeeaeaeeeeeees 96 Take over the configuration on another PC wo cece cesses caeceeseeceesessessesesseseeecaeeesenecaetesaesseseeaeaee 97 How to use the Bruker Utilities Folder oo ccs ceecseesseceeceseceeceeeeeeneeeeeenes 97 Configuring the BSMS Keyboard ooo eee eceeseecsecssececeseeeceseeeceeeeeeseneeaeeenes 100 Firmware update of the spectrometer hardware 0 0 0 0 ceeseeceeeesceeeeeeeeeeeeaes 100 A log of the entire system configuration 0 eee ceecseceseeneceeeesrceseeeeeeeeeseeenes 103 Backup of VIFs Very Important Files with nmr_save oo eects 105 Windows XP SP2 firewall configuration script eee secs eeeete eects ceseeteeereees 111 User Management sccsssscssssscsssscccssccessccsssssccsssceccsssccssssccscssecscssesssssssssess User Management in a standalone PC ooo eee eee csecee ene ceeeeeceeeeeceseeseseaeeaeeaes Adding a new user in a standalone PC method 1 Adding a new user in a standalone PC method 2 Adding normal users to the group NmrUser in a standalone PC ee eecececeseeseeseeeeeeeesaececneeeeeeaaes 117 User Management in a Domain PC Adding a second user with Administrator rights in a domain PC 0 ceceeeseeseseeeeeeceeceeeeeeeeeeeeaeneeeees Adding a local user in a domain PC herenean a EAA K E aasia Adding normal users to the group Nm
66. 9 51 September 29 2003 2 27 01 AM 2003 2 27 01 AM monday Tuesday September 30 Intel R PRO 100 VE Network Connection 00 30 6E 26 CD 23 NO 149 236 99 1 2 255 255 255 0 a diskette is right from within the miscellaneous folder Right click on the confout icon and select send to and then A G gt C Bruker TOPSPIN prog bin utilities Miscellaneous File Edit View Favorites Tools Help QO BB LO search gt Folders B a xX E f bsmsdisp cmd Explorer get printconf cmd pwrdwn bat ai l Telnet spect topspinver _hostid bat sh exe E xwinnmr sa gt D Hardware shmrm cmd patchlevel showconf bat StartGuide Homepage mel Showconf all exam i Open Print Edit Open with Compressed zipped Folder Desktop create shortcut LJ Mail Recipient My Documents Cut Copy Create Shortcut Delete E Shortcut to NOTEPAD EXE Rename a _ B Shortcut to wordpad exe Properties JB CD RW Drive E The size of this report is mostly less then 100 kbytes DO KEEP A COPY OF THIS FILE IN A SAFE PLACE Configuration of TOPSPIN 105 8 7 Backup of VIFs Very Important Files with nmr_save It is not only necessary to create some backups for the operating system like Boot Disks and to store the acquired datasets it is strictly recommended to create a frequently backup of the VIFs
67. CE bar or click the field left to the product name Processing and Acquisition Modules 1 3 b ES Plot Editor 4 3 b 10240 K ICON NMR Automation Module 4 1 b 10240 K NMA Sim 4 3 b Experiment Simulator 10240 K NMR GLP 4 5 b Spectrometer Validation Tool 4096 K NMR Guide 3 6 b NMR Guide and Encyclopedia 25600 K NMR DATA 4 3 b NMR Example Data Sets 13312 K Diskless 20040501 CCU Operating System 40960 K AureliaAmix Viewer 3 2 Data analysis 20480 K Auremol 2 1 nD Spectrum Analysis U Regensburg 30720 K SBASE 1 1 2 Spectra base 18432 K FLEXIm 9 2 FLEXIm network license manager 2048 K Select All Clear All cren Select the packages which you want to install note that DISKLESS is only Select Data Processing Acquisition and Automation if you want to use TOPSPIN for spectrometer control This will install Diskless automati Select Data Processing if you want to use TOPSPIN for data processing Customized setup allows components selection if you want to install selected programs only If you have selected the following window will Installing TOPSPIN 51 required if your PC controls a spectrometer or you want to configure it like this e ToPSPIN Acquisition and processing software e TOPSPIN PLOT EDITOR Object oriented WYSIWYG plot editor e ICON NMR Icon driven interface for Routine Spectroscopy and Automation e DISKLESS Spectrometer CCU
68. Click Start Control Panel Administrative Tools e Double click Services e A window Services will appear e Select Flexlm click Start Server node is down or not responding 96 379 The server could not answer because he is down the entry lt SERVER NAME gt Troubleshooting 175 in license dat is wrong or the server has been wrong configured Check if the server in the license dat file is down Click Start All Programs Accessories Command Prompt type ping lt SERVER NAME gt and check if the correct reply occurs a A reply like this Reply from lt SERVER_IP_ADRESS gt bytes 32 time lt 10ms TTL 128 shows that the server is okay b A reply like this Request timed out shows that the server is down c A reply like this Bad IP address lt SERVER NAME gt shows that the lt SERVER NAME gt is wrong or the server is not correctly configured Check if the entry of the server in the license dat file is wrong wrong name blanks if so correct it Check if the server has a wrong configuration e g TCP IP protocol or NetBIOS network service is not installed For this you should have a look at Start Control Panel Network Connections e Click on the LAN entry of your ethernet card File Settings e A window Local Area Connections Properties will appear e Look if there is an entry Internet Protocol TCP IP e Yes click on
69. Connection Firewall in Windows XP SP1 This chapter Windows XP provides internet security in the form of a firewall Internet Connection Firewall This feature is designed for home and small busi ness use and provides protection for computers directly connected to the Internet This feature is available for local area network LAN or dial up connections It also prevents scanning of ports and resources file and printer shares from exter nal sources Enable Internet Connection Firewall Windows XP SP1 a Use the Network Setup Wizard to enable the Internet Connection Firewall 1 Run the Network Setup Wizard Click Start Control Panel double click Network Connections and then click Setup or change your home or small office network 2 The Firewall is enabled when you choose a configuration in the wizard that indicates that your computer is connected directly to the Internet b Configure the Internet Connection Firewall manually for a connection 1 Click Start gt Control Panel double click Network Connections 2 Right click the connection on which you would like to enable the firewall Click Properties 3 On the Advanced tab click the box to select the option to Protect my com puter or network 4 If you want to enable the use of some applications and services through the firewall you need to enable them by clicking the Settings button Then select the programs protocols and services to be enabled for the firewall
70. DelsL isu E nmrenv cmd Blnmrsim cmd l pathScript exe Etopspin cmd B TOPSPIN Setup log B TOPSPIN Setup_uninstall log E xwinplot cmd Size 1 248 KB 20 KB 54KB 7KB 12KB 748 KB 7KB 3KB 45 KB 6KB 183 KB 58 KB 3KB Type File Folder File Folder File Folder File Folder File Folder File Folder File Folder File Folder File Folder File Folder File Folder File Folder File Folder ISU File ISU File ISU File ISU File TSU File TSU File Windows NT Comm Windows NT Comm Application Windows NT Comm Log File Log File Windows NT Comm Date Modified 9 15 2003 5 40 PM 9 15 2003 4 44 PM 9 15 2003 2 44 PM 9 15 2003 2 42 PM 9 15 2003 5 41 PM 9418 2003 2 20 PM 9 15 2003 5 40 PM 9 15 2003 5 40 PM 9 15 2003 5 40 PM 9 15 2003 5 40 PM 9 15 2003 5 32 PM 9 15 2003 4 52 PM 9 15 2003 5 40 PM 9 15 2003 2 43 PM 9 15 2008 2 44 PM 9 15 2003 2 44 PM 9 15 2003 2 44 PM 9 15 2003 2 44 PM 9418 2003 2 20 PM 9 15 2003 2 43 PM 9113 2003 2 39 AM 9415 2003 2 43 PM 9 14 2003 10 09 PM 9 18 2003 2 20 PM 9 15 2003 5 32 PM 9 13 2003 2 37 AM The My Computer window provides an overview over all drives directories and files The differences under Windows XP between the Explorer and My Compu ter are very small In fact you can use both windows with the same layout and han dling 1 2 3 4 Double click the icon My Computer on the desktop A window My Computer will appear showi
71. Does Not Start If Windows does not start restart Windows by using the Last Known Good Configuration feature 1 Start the computer and then press the F8 key when Windows begins to start The Windows Advanced Options menu appears Select Last Known Good Configuration your most recent settings that worked and then press ENTER If a boot menu appears use the ARROW keys to select Microsoft Windows XP and then press ENTER Windows XP restores the computer to the most recent restore point Windows XP Does Start 1 Log on to Windows as an administrator Click Start All Programs Accessories gt System Tools gt System Restore System Restore starts A window Welcome to System Restore appears click Restore my computer to an earlier time if it is not already selected gt click Next A window Select a Restore Point appears Click the most recent system checkpoint in On this list click a restore point list gt click Next A System Restore message may appear that lists configuration changes that System Restore will make gt click OK On the Confirm Restore Point Selection page click Next The System Restore will restore the previous Windows XP configuration and then restarts the computer Log on to the computer as an administrator A window The System Restore Troubleshooting 195 Restoration Complete will appear gt Click OK 15 13 2 Troubleshooting
72. E lines the vendor_info does not necessarily exist In that case a FEATURE line would look like FEATURE TOPSPIN1 bruker_ls 0 0 6 aug 2018 3 OBOE4011FFOCD32FBFF1 To inform Flexlm about the new license proceed as follows 1 Open the Windows Explorer and go to lt Flexlm_Home gt Bruker gt Double click Lmtools exe 2 A window LMTOOLS appears Click the Start Stop Reread tab Click Stop Server Click Start Server Click ReRead License file Click OK 3 Close the window LMTOOLS by clicking the X button Installing a full license on a license client On a license client license can be installed in two different ways as described for a Demo license chapter 7 2 2 The only difference is that you do not have to setup a new file License dat You can just copy it from the license server which can be another PC see question 10 in chapter 7 1 The TOPSPIN license 73 7 2 5 Modifying the license file To inform Flexlm about the new license proceed as follows 1 Open the Windows Explorer and go to lt Flexlm_Home gt Bruker gt Double click Lmtools exe 2 A window LMTOOLS appears Click the Start Stop Reread tab Click Stop Server Click Start Server Click ReRead License file Click OK 3 Close the window LMTOOLS by clicking the X button 7 2 6 Further information For more information on the Flexlm license manager Click Start run enter c flex1lm bruker help index
73. EA IEI PN C PN D PN E ECL SN description commenta m Transmitter entri 8 B LTH166 500 609 26 4GdB 1H 26 40dB 19F 26 46dB 3H 111345931 8 4H Ecoupler 300 1x26dB 1H m 1113011890 3 1H Ecoupler 300 2x26dB 1H F Ecoupler 360 1x26dB 19F m 111301247 3 119F Ecoupler 368 2x20dB 19F E 11361567 8 19F 1H Ecoup 368 26 46dB 1H 26 46dB 19F 20 40dB 3H E w 111301282 2 3H Ecoupler 466 2x26dB 3H 41361283 8 3H Ec 8 8l Tube 100 1H 19F 60Win 1009WoutE l H5342 8 Tube 200 1 HPTXcus3 Custom3 X BB 36Win 1606WoutH JHPTXcus4 204686 SE451 490 SE451 RG table no Quad Hixer E 203686 2062816 RX22 RX22 RG via RS485 no Quad Mixer E 2602811 43623 MCI Mem Ext 64kW chEamt PTS entries 06173 00 MHz doubling 2612289 PTS 626D Trip 566 3 outputs 620 MHz max 369 6 8973 I PTS 626 1NHZ 1 output 626 MHz max 369 68 MHz doubling E 01173 Sample Changer seriell E H11888 B ACS66 686 Sample Changer Oxford E 141100625 JUTU B UT2606 sep unit E 111101054 That doesn t mean that the file is damaged it only means that the editor cannot resolve the issue One reason to pick WordPad as an editor is that WordPad unlike Notepad is smart enough to render such files File and directory handling 207 oela Sia al eel amp hardware exam list of all hardware detectable by cf To copy one of these entries into har
74. ER DAEMON lines in license dat No a Demo license is Node Locked and therefore only requires FEATURE lines If SERVER and or DAEMON lines exist they are ignored I have a Floating license Must the file license dat be identical on all hosts server and clients Yes you can install license dat on the server and then copy it to all clients Must the FlexIm license manager run on all hosts in the network No it only needs to run on the license server If the license manager also runs on a license client this is simply ignored Must the Flexlm license manager run on a host with a Demo license No it only needs to run on the server for Counted licenses What can I do if TOPSPIN does not start after I installed the license See chapter 15 How is it possible that TOPSPIN starts even though I do not have a license If you do not have a license for TOPSPIN it will start up in an emergency mode if your PC is connected to a spectrometer Also one TOPSPIN PLOT EDITOR ses sion without portfolio editor can be started from within TOPSPIN However NMR SIM and NMR GUIDE will not run without a valid license What can I do if TOPSPIN cannot find the license server Please try to restart the license server 1 Open the Management Console My Computer gt right click Manage 2 A window will appear 70 The TOPSPIN license Right click Bruker FLEXIm License Server gt right click Properties 3 A window will appear If the Se
75. Ea E a e aiiai 217 The question mark in the upper right corner ssesessesesessreressreteesretsrsrseststststseststseststsesssteeessressete 217 Tips on Windows KP isss astearte cessed E EI EEEE steers EELEE EEEE E 217 Windows XP tips and tricks on the WeDo ccsceeeesssseesenseseesceeceecaeseeceseeeseeaeaeeaeeeeecaecaeseeeeseeeeaeaeeaees 217 Keyboard Shortcuts eee cecesceseeseceeceeeseeeeeeeeaeeseecaecsaecsecacesecseeseeeseeeseaeeaeeeaes 218 General SHOT CUES 5 5553 reeeo SELE Ar REEL ERAEN LATARA NOSTAA ssouvassestts IIS ESEE LEEENA INS 218 Shortcuts for Windows Explorer s sessssssssseseesesssestetesssssststettntsssststtttntrastritrtntraretierentnrssesenrentersseset 219 Command Prompt versus Graphical Interface oo cece eee ces ceeeceeeeeeeeeeeneeeees 219 Windows XP Command Prompt versus UNIX shell oo eee eee ceeeeeeereeneeenee 220 Directory Specification airen eneen a eE a O oadeutenctaved de S A a A A Windows XP commands versus UNIX commands a The UNIX GNU shell Suso vir done ih a ee ee Mixes Useful tools for Windows Windows XP sssssssssscsssecsssssssecsessssscesessessssseees 229 Update the operating system oo eee eee csc csecseesseceecesececeseeeceeeeeseeeeeeseneeaeeenes 223 Email notification about security fixes ccesesesseseeseesesesceseeeceeceecaeseeseeaesaeaceaeeeeeeceecaecaeeeeeeeaeeaeaeeates 223 19 1 2 Update of the operating system ecesesessesceeceseseesesceseesceeceecaecaeseesesaesaeaee
76. HIS PARTITION WILL BE LOST Data on other partitions which might be on the same disk remain untouched If you want to for mat this partition press F to start formatting and wait 9 A window Your Computer will reboot in 15 s will appear Remove any Floppy but keep the CD in its drive 10 After the reboot the setup will continue automatically A window Windows XP Setup occurs please wait 11 A window Windows XP Professional Setup will appear a Click NEXT or wait for a short time b Installing Devices wait c Regional Settings e Normally you could leave English United States for system locale Set the right keyboard layout NEXT d Personalize Your Software e Type in your name and organization gt NEXT e Your Product Key see list in chapter 21 1 e Enter the Product ID which is specified on the manual Microsoft Win dows XP Professional on the Certificate of Authenticity NEXT f Computer Name and Administrator Password see list in chapter 21 1 e Enter the Name hostname you have chosen for your computer Note that the first character must be alphanumeric and underscores are not allowed e Choose an Administrator password and enter it in the field Password enter the same password in the field Confirm Password NEXT Important remember the Administrator password g Date and Time Settings e Check if Date amp Time are set correctly change if
77. Host Name Primary Dns Suffix Node Type IP Routing Enabled WINS Proxy Enabled DNS Suffix Search List thernet adapter Local Area Connection Connection specific DNS Suffix Description Physical Address Dhep Enabled Autoconfiguration Enabled Subnet Mask Default Gateway DHCP Server DNS Servers Primary WINS Server Lease Obtained Lease Expires thernet adapter Local Area Connection 2 Connection specific DNS Suffix Description a kastor software bruker de Hybrid No No software bruker de bruker de service bruker de Intel lt R gt PRO 100 Management Adapter 46 D6 B F EB 7C es Yes 149 236 12 86 255 255 255 8 149 236 12 1 149 236 4 80 149 236 19 51 z Monday September 29 2003 2 27 61 AM Tuesday September 380 2003 2 27 61 AM Intel lt R gt PR07100 VE Network Connection 66 36 6E 26 CD 23 No 149 236 99 1 255 255 255 0 Another interesting tool in the miscellaneous section actually issues commands to the CCU rather than to the PC One of the items is pwrdwn in this category that logs in to CCU and issues the UNIX command that powers down the CCU All YOU do is double click on it and watch it do the rest The other categories are Test Tools Service Tools and Documentation You can just double click the appropriate icon and the command shell and tool programs will start up automatically Ge c Bruker TOPSPIN prog bin utilities Service Tools BEE i F
78. Insert the DVD TOPSPIN 1 3 4 Start of the installation e If the automatic start of the DVD is enabled the window described in the next step appears automatically go to step 5 e If this window of the next step does not appear automatically autorun is probably switched off see chapter 10 3 or open the Windows Explorer go to the DVD device and double click install cmd 5 The windows Welcome to the TOPSPIN Setup will appear Click Next 1 Please note that there is also a file called install on the DVD This file is the installation script for Linux under Windows you have to click on the file install cmd 48 Installing TOPSPIN Welcome to the TOPSPIN Setup x This program will help you to install TOPSPIN oftware It is strongly recommended that you exit all Windows programs before running this Setup program Click Cancel to quit Setup and then close any programs you have running Click Next to continue with the Setup program WARNING This program is protected by copyright law and intemational treaties Unauthorized reproduction or distribution of this program or any partion of it may result in severe civil and criminal penalties and violators will be prosecuted to the maximum extent possible under law 6 A window Release Letter TOPSPIN will appear B rellet txt Notepad File Edt Format Yiew Help RELEASE LETTER TOPSPIN 1 3 with Topspin 1 3 supports the full range of Avance sp
79. LESS program is shown Do not worry about this it is automatically interpreted as an Windows XP path like C Bruker Diskless Autoboot Waiting to load bfs usr diskless cli Troubleshooting 183 ents spect root unix r4600_std CTRL C to abort loading Fast ethernet FEN 100 MBit s half duplex Obtaining usr diskless clients spect root unix r4600_std from server hostname 8333284 1079844827152 entry 0x80021000 CPU MIPS Processor Chip Revision FPU MIPS Floating Point Unit CP1 Revision RISC os Release 4_52 mips Version UMIPS Total real memory 16777216 Available memory 14360576 Root on nfs file Swap on nfs f Fast ethernet FEN 100 MBit s half duplex 2 hostname spect domainname software bruker de 3 Root fstype nfs Available memory 12713984 4 The system is coming up Please wait etc init d sym_install start etc init d sym_install calls sym install Adding swap device swapfile Fast ethernet FEN 100 MBit s half duplex Internet daemons portmap inetd NFS daemons nfsd biod lockd statd tmp Permission denied var tmp Permission denied The system is ready spect Console login Booting might hang stop and print an error message or go into an endless loop at one of the positions 1 through 3 This might be caused by one of the problems mentioned below Check the indicated files and correct them if necessary or per 184
80. Management SJ File Action View window Help e Am AB la x 3 Computer Management Local Bh System Tools E Event viewer 5 Application 5 Security 8 System G Shared Folders z Local Users and Groups I Users E Groups A Performance Logs and Alerts Device Manager amp Storage Removable Storage Disk Defragmenter Disk Management Gp Services and Applications Name Full Name Description administrator Gre diskess_user m Goe G Guest Buelpassistant Brew Brower Bree G Yir SUPPORT _38 Wwa Admin aa diskless_user_sys Ga taker taas RE wr CN Microsoft Corporation you Remote Desktop Help Assi Built in account for administering tH Built in account for guest access to Account for Providing Remote Assi This is a vendor s account For the F User Management 117 3 4 e Click Local Users and Groups Right mouse click User Select New User A window New User will appear e Enter the users Full Name and Description optional and the users pass word in the fields Password and Confirm Password Create Close 9 1 3 Adding normal users to the group NmrUser in a standalone PC Each user who wants to run TOPSPIN must be a member of the group NmrUser This group is automatically created during the TOPSPIN installation To add a user log in as Administrator otherwise you will be asked for the adminis
81. NISTRATION PASSWORD and OK EY Password request Please enter the NMR administration password LI b Click Next if you either have no modified Bruker BioSpin Parameterfiles EY Experiment installation and AU compilation Expinstall Expinstall installs pulse programs AU programs parameter sets and various other resources for spectrometer or datastation usage It must be performed once after the installation of TOPSPIN For spectrometer control do cf first For a customized datastation configuration copy your spectrometer configuration directory typically called spect to lt TopSpin installation dir gt conf instr WARNING Please archive all your MODIFIED Bruker PARAMETER files AU programs and PULSE programs before running expinstall AU programs and Pulse programs or if you have archive them in a different 82 Configuration of TOPSPIN directory Your individual Parameterfiles AU programs and Pulse pro grams that have different names to the original Bruker BioSpin files will not be destroyed during the installation c Inthe window that appears gt Check Installation for Spectrometer gt Click Next Experiment installation and AU compilation Select the type of installation Installation for Datastation Default Installation for Datastation Customize Installation for Spectrometer lt Back Next gt cance d In the window that appears Check High Resolution
82. NT YOU SHOULD CONTACT BRUKER TO NEGOTIATE THEM BEFORE INSTALLING AND OR USING THE SOFTWARE AND OR DOCUMENTATION IF YOU AND BRUKER ARE UNABLE TO NEGOTIATE A MUTUALLY SATISFACTORY RESOLUTION OF YOUR OBJECTIONS YOUR PLACE OF PURCHASE WILL REFUND YOUR LICENSE PRICE IF YOU RETURN YOUR PACKAGE CONTAINING THE MEDIA AND THE DOCUMENTATION THIN THIRTY 30 DAYS OF PURCHASE LICENSE AGREEMENT Subject to the provisions contained herein BRUKER hereby grants to you a non exclusive license to use its proprietary SOFTWARE and DOCUMENTATION contained in the package As described below Our use of the SOFTWARE when enabled is limited to a NUMBER of simultaneous users a Please read the License Agreement for TOPSPIN b When you have finished reading the License Agreement for TOPSPIN and you can confirm the agreement click on I accept After the window License a window configuration check appears 3 Configuration check Caution Expinstall is not executed for this installation yet Some functions of the program will not work correctly until expinstall has been executed For spectrometer control press Cf to execute cf first for datastation press Expinstall to execute expinstall or press Cancel to ignore this message and execute cf or expinstall later Do not show this message again cf Expinstall Cancel Please configure the software depends on the hardware of your spe
83. No Go to chapter 14 3 1 6 Click Start Printers and Faxes 7 A window Printers will appear e Double click the icon Add Printer 8 A window Add Printer Wizard will appear a Click Next Local Printer disable Automatically detect and install my Plug and Play Printer click Next b Enable Create New Port select Type LPR Port Next 9 A window Add LPR compatible printer will appear a Enter the name of the LPD server the UNIX host b Enter the name the printer has on the UNIX host c Click OK d Close the window Printer Ports by clicking Close 10 In the window Add Printer Wizard a Click Next b In the field Manufacturers select the manufacturer of your printer c In the field Printers select your printer type d Click Next to accept the default printer name e Click Not shared Next Finish f Answer the question Was the test page printed correctly with Yes g Close the windows Printers and Control Panel by clicking the X button 14 4 2 Configuring the UNIX host to which the printer is physically connected 1 Open a UNIX shell 2 Become superuser type su 3 Edit the file etc printcap and make an entry like laserjet HP lp dev plp sd usr spool lpd laserjet sh 1 You can check this name by logging in on the UNIX host and entering Ipstat t Installing a Printer 165 VSL where e laserjet is the name for the printer
84. Overwrite Events as Needed e Overwrite Events Older than 7 Days 15 2 TOPSPIN does not start If TOPSPIN does not start you should first look for an error message in the window where the TOPSPIN startup messages appear Then check if you have one of the fol lowing problems 1 A window Choose Server or File appears The file License dat was not found You might have one of the following problems e The Flexlm license manager is not installed Install Flexlm license manager from the TOPSPINCDROM e license dat has been deleted or renamed Setup the file License dat as described in chapter 7 2 3 e license dat has a hidden extension txt or example o gt Rename the file to License dat 2 NuTCRACKER fatal error failed to register this Service NuTCRACKER fatal error x x Failed to register with Service Make sure that Service is running Click OK then just try starting TOPSPIN again it might work the second or third time This error appears if TOPSPIN started immediately after booting the PC and so the Nutcracker Service is not yet running If this does not work a Click Start Control Panel Administrative Tools b Double click Services c A window Services will appear gt Select Nutcracker click Start 174 Troubleshooting 5 Cannot connect to license server WinSock Error code If the service Nutcracker does not start there might be 2 different causes a
85. PERUSER can be Administrator this is the default or any other user can also be a Domain account We recommend installing a special user for this purpose e g a user named nmrsu This user does not need any special per missions under Windows standard access permissions are sufficient e After the installation the NMR SUPERUSER is the owner of all TOPSPIN program files Logging in as this user allows you to remove these files change file permissions etc The name of the NMR SUPERUSER will be stored in the file lt TOPSPINHOME gt conf nmrsuperuser the NMR ADMINISTRATION PASSWORD to be used for TOPSPIN configura tion commands This password can be freely chosen and is not connected to any user It is asked for by TOPSPIN commands like cf expinstall1 etc The encrypted NMR ADMINISTRATION PASSWORD is stored in the file lt TOPSPINHOME gt conf nmradminpassword Note The NMR SUPERUSER login password and the NMR ADMINISTRA TION PASSWORD have different purposes and are totally independent Changing one of them does not affect the other With the information about the NMR ADMINISTRATION PASSWORD and NMR SUPERUSER TOPSPIN is ready to be configured The NMR ADMINIS TRATION PASSWORD will be asked for every time a configuration type com mand is entered If this password is typed in correctly the command will be Installing TOPSPIN 45 6 2 1 6 2 2 executed independent of which user is logged in the opera
86. PIN PLOT EDITOR Printing and plotting of data sets NMR SIM Experiment Simulator Simulation of NMR experiments ICON NMR Automation Interface Comprehensive user interface tailormade for all your laboratory man agement and control needs For further manuals please refer to TOPSPIN Help http www bruker biospin de NMR nmrsoftw passwd docu index html NMR GUIDE Chapter 22 Bruker BioSpin addresses Germany Bruker BioSpin GmbH Silberstreifen D 76287 Rheinstetten Tel 49 721 51 61 0 Fax 49 721 51 71 O1 Bruker BioSpin Software Department Silberstreifen D 76287 Rheinstetten Tel 49 721 5161 455 Fax 49 721 5161 943 http www bruker biospin de ftp server ftp bruker de Email nmr bruker biospin de mbu bruker de servic applik bruker de application nmr software support bruker biospin de license bruker de licenses software 261 262 Bruker BioSpin addresses USA Bruker BioSpin Corporation 15 Fortune Drive Manning Road Billerica MA 01821 3991 Tel 1 978 667 9580 5195 center 1 978 667 9580 5444 application Fax 1 978 667 6168 center 1 978 667 2955 application http www bruker biospin com ftp server ftp bruker com Email applab bruker com center bruker com software bruker com Switzerland Bruker BioSpin AG Industriestrake 26 CH 8117 Fallanden Tel
87. PIN or Xwin nmr is found in the TOPSPIN Processing Reference Manual Installation and configuration of Outlook Express Outlook Express gets automatically installed with Microsoft Internet Explorer 6 0 or newer e Open Start All Programs Outlook Express Windows XP Networking 149 e or double click the Outlook Express icon on the desktop Supply all parameters asked for by the setup wizard Contact your network admin istrator if you are not sure what to fill in Select Options from Outlook Express Tools menu and configure the General Set tings as shown below Signatures Security Connection Maintenance General Read Receipts Send Compose General a When starting go directly to my Inbox folder Notify me if there are any new newsgroups Automatically display folders with unread messages a M Automatically log on to Windows Messenger Send Receive Messages 5 7 Play sound when new messages arrive ts Send and receive messages at startup Check for new messages every 30 minute s If my computer is not connected at this time C t only wh t working offli Connect only when not working offline select Default Messaging Programs This application is the default Mail handler This application is the default News handler Apply Outlook Express version 6 is able to handle the default mail handling and the sim ple MAPI client as one It is sufficient to enab
88. PS Select the plotter paper format Paper format Ad Letter y lt Back TETS cancei_ Eini g In the window that appears Enter the desired spectrometer frequency acquisition mode and pre scan delay or accept the default values Click Next Expinstall for Spectrometer Select the basic frequency of your spectrometer Basic frequency MHz 500 13 Select the digitizer Type of digitzer HADC Select the acquisition mode Acquisition mode Select the pre scan delay DE Default pre scan delay ys 6 0 lt Back Next gt Cancel 84 Configuration of TOPSPIN h In the information box that appears Check the configuration selection and if it is correct Click Finish Expinstall for Spectrometer Expinstall will be executed with following options Installation for Spectrometer High Resolution Install Pulse Programs Install Bruker Library AU Programs Install Library CPD Programs Install Library Gradient Files Install Library Shape Files Convert Standard Parameter Sets Install Standard Scaling Region Files Enable Define Statements in Pulse Programs Basic frequency 500 13 MHz Digitizer HADC Acquisition mode DQD Pre scan delay 6 0 us Printer HP LaserJet 5100 PS Plotter HP LaserJet 5100 PS Papertormat AA Letter lt Back caneet_ Finish While expinstall will be executed you are able to continue with ne
89. RUKER IOSPIN TOPSPIN 1 3 Installation Guide for Windows XP Copyright C 2004 by Bruker BioSpin GmbH All rights reserved No part of this publication may be reproduced stored in a retrieval sys tem or transmitted in any form or by any means without the prior consent of the publisher Part No H9556SW1 V3 revision state 2004 12 20 Product names used are trademarks or registered trademarks of their respective holders Bruker software support is available via phone fax e mail Internet or ISDN Please contact your local office or directly Address Bruker BioSpin GmbH Software Department Silberstreifen 76287 Rheinstetten Germany Phone 49 721 5161 296 Fax 49 721 5161 943 E mail nmr software support bruker biospin de FTP ftp bruker de ftp bruker com WWW www bruker biospin de www bruker biospin com ISDN on request Contents Chapter 1 1 1 1 2 1 3 1 3 1 1 3 2 1 3 3 1 3 4 1 3 5 1 3 6 1 4 1 4 1 1 4 2 Chapter 2 2 1 2 2 2 3 2 3 1 2 3 2 2 3 3 Chapter 3 Introduction 0 EA ninss isisiivis Sopenceasy socestasy Se ceesoasanss Gersois ebseseuess ei obeaue 11 About thismantial raciigi states hed so eats sss i ina OSes 11 COVEN ONS see e eas EET ETEEN gin ete pelts ees i AOA 12 Hardware and software requirements for TOPSPIN 13 Operating System requirements 94s sis cedeyilss ad cedeenssvsssceddensssicenccdedesseaaccedaaecsvaesceusguasoots crdaayovacde ce
90. SPIN 1 3 The decision how to install TOPSPIN is very important in case you have already XWIN NMR or TOPSPIN installed on the same or another PC If so you might will take over the configuration of XWIN NMR or TOPSPIN 1 2 into TOPSPIN 1 3 because of e incase the XWIN NMR TOPSPIN installation was used for controlling a spec trometer there are very important configuration files like the spectrometer configuration shim files your own pulse programs parameter sets etc e if XWIN NMR TOPSPIN was used for processing only there can be also very important configuration files like AU programs macros plot layouts etc 96 Configuration of TOPSPIN Note Transferring files could cause permission problems especially if they are l transferred from one PC to another o 8 2 1 Take over the configuration on the same PC If TOPSPIN 1 3 is installed parallel to TOPSPIN 1 2 or XWIN NMR the AU program nmr_save can be used to take over the configuration of XWIN NMR TOPSPIN You can take over the configuration during the Installation of TOPSPIN 1 3 see chapter 6 4 or after the installation with the AU program nmr_save If you like to get more information about the command nmr_ save refer to chap ter 8 7 Insert the TOPSPIN DVD and start installation You will be asked to define the installation path Accept the default or choose another one but not the XWIN NMR installation directory During the installation you will be asked if you want to impor
91. Shows installed printers and fax printers and helps you add new ones Customize settings for the display of languages numbers times and dates Add remove and configure scanners and cameras Schedule computer tasks to run automatically Control Panel For SoundMAX Change the sound scheme for your computer or configure the settings For yo Change settings for text to speech and for speech recognition iF installed See information about your computer system and change settings for hardward Customize the Start Menu and the taskbar such as the types of items to be disg Change user account settings and passwords For people wha share this comput il gt Chapter 2 Express Installation and Configuration of TOPSPIN 2 1 About this chapter This chapter gives a brief description of how to install Bruker BioSpin s TOPSPIN This chapter is directed to users who would like to install TOPSPIN 1 3 on a PC on which XWIN NMR or a version of TOPSPIN is already installed and configured cor rectly Therefore this chapter provides an overview and provides not information on all aspects of configuring Windows XP and TOPSPIN For more details on the installation see chapter 6 4 For more details on the TopSprw commands like cf expinstal11 etc please refer to the description of this command in the Acquisition Reference manual 2 2 Installing TOPSPIN The main decision you have to make during installation is where do you want to install
92. SpectUser NMRLAB ProcUser The installation of the global user groups involves the following steps 1 Log on at the Domain Controller as Domain Administrator 2 Create the global groups SpecUser and ProcUser Windows XP Networking 155 3 Log on as local Administrator at workstation WTSPEC selecting WTSPEC as Domain 4 Add the global group NMRLAB SpecUser to the local group NmrUser as described in chapter 9 2 4 5 Repeat step 3 and 4 for WTPROC adding NMRLAB ProcUser to the local group NmrUser 13 6 3 Check for the HOME directory of every nmr users There are two possibilities for the HOME directory of an user local on every PC or fixed on one PC in the domain Bruker supports both scenarios the last one is a lit tle bit more convenient because the resource file used by command setres of TOPSPIN is stored in the home directory of the user If there are individual settings it is easier to have to create this file only once and use it on all TOPSPIN installa tions of the windows domain Note that the configuration of TOPSPIN relies on the fact that the given HOME directory of an user exists The HOME directory cannot be created by TOPSPIN Chapter 14 Installing a Printer Printers must be installed at a Windows XP level and can then be used in TOPSPIN and TOPSPIN PLOT EDITOR 14 1 Installing a new local printer Installing a local printer implies installing the software e g the printer driver for th
93. System Tools gt Backup Under Windows XP ntbackup is possible to use ZIP tape and external hard disks as backup media You cannot choose a CD R CD RW or DVD R device because ntbackup exe does not support backing up to these devices The Removable Storage Management RSM does not have the ability to recognize these three devices as backup pool media RSM regards CD R CD RW or DVD R as just a file system capable media type but the Windows file system does not support formatting these media types When it attempts to write an RSM free label RSM does not succeed because the disc appears to be write protected This means that RSM treats CD R CD RW or DVD R media as a read only media type even if you add them to the ntbackup media pool Before you buy a tape drive make sure it is compatible with your PC s interface s IDE and or SCSI Bruker BioSpin recommends to make a regular backup of the partition s on which Windows XP and the TOPSPIN are installed Complete Backup of the PC 1 Click Start All Programs Accessories gt System Tools gt Backup a window backup will appear 2 Click Welcome Backup Wizard a window Backup Wizard will appear gt Next 3 Enable Backup everything on my computer Next 4 Choose the media drive you want to store the backup gt Next 5 Click Finish to start the backup 192 Troubleshooting 15 11 2 Backup of specific directories 1 Click Start All Progra
94. Systems Click Next amp Expinstall for Spectrometer Select the type of acquisition 7 High Resolution Systems Solid State Systems Micro Imaging Systems lt Back Next gt Cancel e In the dialog box that appears Select the spectrometer configuration name Click Next 4 Expinstall for Spectrometer Available spectrometer or datastation configurations Select the configuration you want to use spect v lt Back Next gt Cancel In the dialog box that appears gt Check the items you want to install or accept the default selection Click Next Configuration of TOPSPIN 83 amp Expinstall for Spectrometer Select the items you want to install Install Pulse Programs Install Bruker Library AU Programs Recompile All User AU Programs Install Library CPD Programs Install Library Gradient Files Install Library Shape Files Convert Standard Parameter Sets Install Standard Scaling Region Files Enable Define Statements in Pulse Programs Select al Select none lt Back Nees cancei_ f In the dialog box that appears Select the default printer and plotter and the desired paper format gt Click Next EY Expinstall for Spectrometer Select your printer Default printer HP LaserJet 5100 PS Select your plotter Default plotter HP LaserJet 5100
95. TOPSPIN in your license dat file If you have XWINNMR3 you can only start XWIN NMR The TOPSPIN license 67 3 x If more than one license is available as many copies of the program as are cov ered by the license can be started simultaneously Which licensing program is used for TOPSPIN The Flexlm license manager is used and is delivered on the TOPSPIN CDROM The Flexlm package occupies about 3 MByte of disk space It contains the m gr license manager the mutil program Help files and example li cense dat file What are the requirements for the Flexlm to function e your PC must have an Ethernet card e the network TCP IP must be installed e the network Service NetBIOS Interface must be installed What is a Floating license Floating licenses are licenses that are available for more than one computer in a network Floating licenses are issued based on the Host ID of one particular computer This computer becomes the license server All computers that can communicate with this license server computer can use the licenses managed by this computer For this to work the same license file must be installed on all participating computers including the license server The Flexlm license man ager software must only run on the license server computer A Floating license can have just one license for a program like TOPSPIN In such a case the respective program can be started once on one computer in
96. TRL ESC Start Documents CTRL ESC d Start Help CTRL ESC h F1 from desktop or explorer Start Run CTRL ESC r WIN R Start Search CTRL ESC c F3 from desktop or explorer WIN F Start Shutdown CTRL ESC u Taskbar Task Manager CTRL SHIFT ESC Close the active window ALT F4 Close a hierarchy of windows ALT SHIFT F4 Switch to other task ALT TAB Minimize all windows on desktop WIN M Restore all windows as seen before WIN SHIFT M Toggle normal full screen Com ALT ENTER mand Prompt Copy entire screen to Clipboard Copy active window to Clipboard PRTSC Print Screen ALT PRTSC Print Screen 1 Be careful If no window is active Windows XP will prompt for re boot Windows XP commands 219 18 3 2 Shortcuts for Windows Explorer Function Keyboard shortcut 1 Open new Explorer window WIN E Rename file F1 Open online help F2 Open Find dialog F3 Open Folder drop down list F4 Force refresh of windows contents F5 Switch between left and right pane F6 Go up one level in folder hierarchy BACKSPACE open context menu SFHIFT F10 right mouse click 18 4 Command Prompt versus Graphical Interface In a Windows environment you normally work with a graphical interface i e the Start button Icons on the desktop the Explorer etc Nevertheless Windows XP offers a Command Prompt a shell from which you can run various commands The following table compares the Command Promp
97. The script will automatically detect the installation path and register this instal lation with the firewall I e if your installation were in F Bruker ts 3beta it would register that and only that 4 Recommended for experienced administrators Copy the downloaded zip file to any location on your hard disk that does not contain prog bin utilities Miscellaneous in its path Execute it from a CMD prompt You will get usage information like the following setfirewall INSTDIR SCOPE DISKLESS_PATH NFS_PATH where INSTDIR installation directory of TOPSPIN e g c Bruker TOPSPIN SCOPE either ALL or SUBNET to specify whether firewall should allow remote connections to this installation from any address or local subnet only Configuration of TOPSPIN 113 DISKLESS_PATH installation directory of DISKLESS e g c Bruker Diskless NFS_PATH installation directory of Hummingbird NFS Server e g C Program Files Hummingbird Connectivity 7 10 NFSServer Note You must have administrative rights to do this successfully This way you have the possibility to register a specific installation of TOPSPIN with the firewall Example setfirewall f Bruker ts12 ALL would do the required settings for an installation in f Bruker ts 2 and allow the remote connection feature to be accessed without restrictions to the initiating network address You can customize the script for different address ranges if re quired In ca
98. To add a user log in as Administrator otherwise you will be asked for the admin istrator password during the process and proceed as follows 1 Go to the icon My Computer on the desktop gt right mouse click Manage or Open the Microsoft Explorer Go to My Computer right mouse click Manage 2 A window Computer Management will appear 3 Click Local Users and Groups e Click Groups 4 Highlight the group NmrUser e right mouse click Properties 120 User Management 5 A window NmrUser Properties will appear e Click Add 6 A window Select Groups will appear e Click Advanced Click Find Now e highlight every name or group you want to be a member of NmrUser e Click OK gt OK 7 Close the window lt Username gt Properties by clicking OK 9 2 4 Adding a global group to the local group NmrUser in a domain PC Users who want to use TOPSPIN must be member of the group NmrUser In a Domain scenario we recommend to administrate users in global groups which are added to the local group NmrUser Proceed as follows 1 Go to the icon My Computer on the desktop right mouse click Manage or Open the Microsoft Explorer Go to My Computer right mouse click Manage 2 A window Computer Management will appear 3 Click Local Users and Groups e Click Groups 4 Highlight the group NmrUser e right mouse click Properties 5 A window NmrUser Properties will appear e Click Ad
99. UNIX host using NFS 147 FTP Telnet Requirements for the Send function in TOPSPIN 0 0 0 0 ceeesesceceseceeeeeeteeeeneeenes 148 Installation and configuration of Outlook Express csssessescescescsecseeeeeeeceaeaceseeeeeeceecaeseeeeseneaeeaeaeeaees 148 Sending an e mail with Outlook Express cccessesssscescesceecseeseseeseesesaeseeaeeeceecaecaeceeeesseeaesaeeeaeeeseeeaeeas 151 Installing the TOPSPIN in a Windows XP Domain 151 Creating an NMR Superuser account ccc ee seeeseeeeeeeeeeeeneeee as 152 Installing global user groups ieereeeeee 153 Check for the HOME directory of every NMT USELS se sssssssssssssssiseeseststereterttststererententnrstetentreneneetenees 155 Installing a Printer eesooeesooesseossscsesosssscesesecesoeescossscoecsseesoosssoosssecessecesossesosseseee LOT Installing a new local printer s Installing a printer from the Windows XP CDROM ceccessescescesssesseeeeeesesceneeseeeeecaecaesaeeeseeeaenaeaeeares Remote printing from a PC to a PC oo ec ceeseecsecesececeseeseceseeseeeseeeeseneeaeeenes On the PC to which the printer is physically connected 0 cccececcseeseeeeseeseeceneeseeeceeceecaeceeeeeeesaeeaeaeeetes On the PC from which you want to print cece ceseseecoeceseeecaetesaeecsesecseaseesesscaeecaseesenecaeasans Remote printing from a UNIX host to a PC 7 On the PC to which the printer is physically connected cececcsess
100. Windows XP and your network adapters are disabled Click Start Control Panel gt Network Connections The TOPSPIN license 71 Right click all Local Area Connection xxx items and there click Enable if it is visible b If hostid 0 or ffffffff occurs You may run Windows XP and your net work adapter has no link to the network Establish an link to the network or install the NWlink IPX SPX NetBIOS Compatible Transport Proto col Click Start gt Control Panel gt Network Connections Right click Local Area Connection xxx Click Properties Install Protocol Add The Select Network Protocol menu will appear after some seconds Click NWlink gt OK After some seconds the Properties menu will reappear Click Close See also C flexlm Bruker help Index htm for FlexLM related problems 7 2 2 Installing a Demo license 7 2 3 A Demo license can be installed as follows 1 Log in as Administrator 2 Install the Flexlm license manager as described in chapter 6 4 3 Open a Command Prompt and enter e cd d c flexlm Bruker licenses e notepad license dat enter the FEATURE lines save and exit the file You can also install the license file from the Explorer We have chosen the Com mand Prompt because the Explorer might add the perhaps hidden extension txt to the file License dat which makes it unusable see chapter 16 1 3 Installing a full license on a licens
101. ain text password it is possible on Windows XP side to enable the authenti cation with clear text passwords sent over the networking enabling the respective registry key see the following chapters 20 5 5 and 20 5 4 NOTE THAT THIS INTRODUCES A SIGNIFICANT SECURITY LEAK Enable Plain Text Password Log in as administrator Click Start gt Control Panel Click Administrative Tools gt Local Security Policy Enable the tree Local Policies Security Options On the right side double click the entry Send unencrypted password to Click on enabled If your computer is part of a Windows NT 2000 XP domain contact your domain administrator about this policy setting and its interaction with possible group policies NA wn B NY There is one shortcut you can try with newer samba versions They deliver a file called WinXP_PlainPassword reg in the samba docs directory If you can locate this file in the Windows Explorer and double click it it will automatically make the additions to the registry file detailed hereafter If you double clicked the file and it worked you are done here If not you need to proceed as detailed in chapter 20 5 4 and manually make the necessary changes Windows XP Tips and Tricks 235 20 6 How to log on to Windows XP if you forget your password 20 6 1 Method 1 Log On as an Administrator and Reset the Password If you can not log on to Windows by using a particular us
102. all drive letters to upper case 186 Troubleshooting 3 c If booting stops at 4 and you get messages like this lt date gt INIT Can t open etc ioctl syscon errno 13 touch etc mtab cannot create mount etc mtab No such file or directory lt date gt INIT warning etc ioctl syscon does not exist default settings assumed lt date gt INIT Can t open etc ioctl syscon errno 13 lt date gt INIT Cannot create etc utmp lt date gt INIT failed write of utmp entry n Please check diskless tree permissions and NFS User and Group Map pings see Chapter 6 6 d If you see the message mount dumpfile ASP_ST2 C Bruker Diskless clients spect dump failed during the boot process you can ignore this The CCU will boot anyway Click File Exit to finish your Hyper Terminal session 15 6 Troubleshooting for NUR GUIDE If you have some trouble with your installation of the NMR GUIDE please check the following 1 Check for the NMR GUIDE license see chapter 7 Edit the file C flexlm Bruker licenses license dat and check weather there is a FEATURE NMRGUIDE line If not enter the FEATURE line or apply for a li cense at license bruker de Check for all necessary components e Internet Explorer gt 6 0 see chapter 3 Install the NMR GUIDE program from the TOPSPIN CD once again and reboot This is necessary because installation of the operating system components might have overw
103. all networks For large networks the Domain scenario is usu ally preferred In this case one computer the Domain Controller DC maintains the security database for an entire group of Windows XP Computers A Domain user can log on at each workstation in the Domain with a single account and pass word Furthermore the Domain Administrator s account has administration rights on every computer in the Domain Nevertheless a local Administrator account exists on each computer for local administration tasks Bruker BioSpin TOPSPIN fully supports both security scenarios The description of the TOPSPIN installation in chapter 6 4 is valid for a Workgroup scenario This chapter describes the additional installation steps which are required for a Domain scenario The NMR Superuser see chapter which is specified during the installa tion of TOPSPIN can now be a local account or a Domain account In both cases the NMR Superuser only needs standard access permissions The installation of TOP SPIN however requires Administrator rights because certain system services and two user groups are installed Furthermore TOPSPIN must be installed as local Administrator This means no Domain wide administrative tasks are done during the installation The installation of TOPSPIN in a Domain involves the following steps 1 Make sure that there is a Local or Domain account for NMR Superuser or cre 152 Windows XP Networking ate one 2 Installation o
104. all than Windows Firewall the Security Center 246 Windows XP Tips and Tricks 20 8 2 8 20 8 3 20 8 3 1 may still be able to tell you the status of that firewall and may also display an alert if it stops working There are some firewalls that Windows Security Center will not find such as a hardware firewall or certain types of software firewalls If your computer is using a hardware firewall you should not disable Windows Firewall If you install and run another firewall you should turn off Windows Firewall If you use another soft ware firewall that Windows doesn t recognize you may want to disable the Secu rity Center firewall alerts Note You should only disable these alerts if you are sure that your computer is protected by a firewall The following procedure assumes that you have already turned off Windows Firewall and that you have received an alert telling you that you do not have a firewall installed How to specify a firewall that Windows does not find 1 Click Start Control Panel 2 Double click Security Center 3 Select Firewall click Recommendations Note The Recommendations button is not available when your Firewall setting is marked ON 4 In the Recommendations dialog box select the I have a firewall solution that I ll monitor myself check box gt click OK When you use this procedure the Security Center displays your Firewall setting as Unknown and does not send you alerts Au
105. at printer You can get printer drivers from various sources 1 From a CDROM or floppy which was delivered with the printer Please follow the instruction in the printer installation guide If you do not have one just insert the floppy or CDROM The Setup program might start automat ically If it does not open the Explorer and find a file named Setup or Install and click it 2 From the Web Just go to the manufacturers Web home page e g www hp com www canon com Or www epson com and look for Download or Drivers Usually an executable file can be downloaded which can be unpacked and installed simply by clicking on it 3 From the Windows XP CDROM If you do not have a CDROM or floppy with printer software and no Web access you can install a printer driver from your Windows XP CD You will get 157 158 Installing a Printer a list of printers for which a driver was available at the time your Windows XP version was released If your printer type does not appear you can select a related printer However Bruker BioSpin does not guarantee that this will work see chapter 14 1 1 for installation instructions Note Bruker BioSpin does not supply printer drivers for Windows XP 14 1 1 Installing a printer from the Windows XP CDROM A large number of printer drivers are available on the Windows XP CDROM Note that these are the drivers which were available at the time Windows XP was released For older printers these are us
106. atest security and virus What s new in Windows to help protect my computer information from Microsoft Check for the latest updates from Firewall ON yx Windows Update Get support for security related Saivat 2 Automatic Updates GON y Get help about Security Center j EG Change the way Security Center Z Virus Protection ot alerts me G DATA AntiVirenKit 2004 reports that it is up to date and virus scanning is on Antivirus software helps protect your computer against viruses and other security threats How does antivirus software help protect my computer Note You now have antivirus software that Windows can monitor Click Recommendations to find out how Recommendations Manage security settings for K rtemet options Ry Automatic updates GB Windows Firewall The Security Center helps to check that you have e A software firewall e Configure the settings for Automatic Updates e An up to date antivirus program If the Security Center detects that your computer might benefit from enhanced security in one of the three areas Firewall Automatic Updates and Antivirus pro gram it displays an alert in the notification area to the right of the taskbar An 238 Windows XP Tips and Tricks 20 8 1 1 20 8 2 alert message is displayed every time you log on until the problem is fixed Windows Security Center checks for many common antivirus and firewall pro grams but it is possible that you
107. ation Small memory dump 64 KB w Small dump directory oSystemRoot o Minidump The default entry for the time the system waits for your boot selection during boot up is set to 30 seconds You can set this entry to 5 seconds which is usually enough to select a different boot mode or partition if you want to do that 3 Click OK Chapter 13 Windows XP Networking In order to run TOPSPIN you must setup the network TCP IP protocol even if your PC is not connected to a spectrometer or to the laboratory network You can setup the network as a so called Domain scenario or as Workgroup scenario This chapter describes the Workgroup scenario 13 1 TCP IP configuration This chapter describes how to install both the laboratory network Workgroup sce nario and the spectrometer internal network for a hp workstation xw4100 The description for other PC s with a different Ethernet card might be a little different Before you start make sure all network hardware components network card adapter cables etc are properly connected Then make a list of the following information e IP address for the PC in the laboratory network e subnet mask of the laboratory network e DNS domainname of the laboratory network e IP address of the DNS nameserver s if a nameserver exists 1 The TOPSPIN license requires TCP IP to be installed 137 138 Windows XP Networking 13 1 1 13 1 2 e IP address of the default gatewa
108. ave Examples for restoring the backup file 1 Restoring the backup file C Bruker TOPSPIN nmr_backup nmr_backup tar into the Topspin home directory default Location of backup file C Bruker TOPSPIN nmr_backup Installation to be saved or restore destination C Bruker TOPSPIN Spectrometer name spect lt spect gt Click Restore 2 Restoring the backup file C Bruker TOPSPIN backup_old nmr_backup tar into the directory C Bruker TOPSPIN tmp Location of backup file C Bruker TOPSPIN backup_old Installation to be saved or restore destination C Bruker TIOP SPIN tmp Spectrometer name spect lt spect gt Click Restore Configuration of TOPSPIN 111 If nmr_backup tar does not exist in the backup directory the backup file xwin_backup tar will be taken if existing After this process is finished execute cf 8 8 Windows XP SP2 firewall configuration script Microsoft Windows XP Service Pack 2 SP2 includes significant changes to Win dows networking functionality with regard to security aspects After installation of SP2 Windows displays several informational dialogues about blocked compo nents and possible administrators activities during the start up of TOPSPIN Bruker BioSpin offers a configuration script set firewall cmd to apply the required settings to the new Windows XP SP 2 firewall Windows now includes fully featured firewall technology Windows Firewall previously known as In
109. b Windows Firewall S General Exceptions Advanced Windows Firewall is blocking incoming network connections except for the programs and services selected below Adding exceptions allows some programs to work better but might increase your security risk Programs and Services Name a M Bruker_TOPSPIN_xwish3_in_C Bruker ts13b13 Bruker_TOPSPIN_swish3_in_C Bruker wIN NMR_ cpr M cprserver dataserver M File and Printer Sharing M GoClient Hummingbird NFS Server M Hummingbird portmapper M java FA mard eve v Add Program Add Port J Edit Delete v Display a notification when Windows Firewall blocks a program What are the risks of allowing exceptions Cancel 5 Click on Add a Port This will open a dialog box Add a Port Use these settings to open a port through Windows Firewall To find the port number and protocol consult the documentation for the program or service you want to use Name Port number 1ce hat ar risks of Click the program that you want to add gt click OK gt click OK 20 8 2 6 Advanced Options Advanced users can open ports for and configure the scope of individual connec tions to minimize opportunities for intruders to connect to a computer or network To do this open the Windows Firewall select the Advanced tab and use the set tings und
110. b Click to clear the Turn off System Restore check box or the Turn off System Restore on all drives check box gt click OK 196 Troubleshooting 15 14 2 Turn off System Restore 15 15 15 16 When you turn off System Restore all existing restore points are removed and you are no longer able to track or undo changes to your computer To continue to use System Restore to restore your computer to a previous state do not turn off System Restore To turn off System Restore follow these steps 1 Click Start gt right click My Computer gt click Properties 2 Click the System Restore tab 3 Click to select the Turn off System Restore check box or the Turn off Sys tem Restore on all drives check box gt click OK 4 Click Yes when you receive the prompt to the turn off System Restore Start the system restore tool from a command prompt in Windows XP Windows XP includes the System Restore tool but you cannot start the System Restore tool from a Recovery Console prompt Because of this it may be useful to start the System Restore tool when you are unable to start your Windows XP based computer normally or in Safe mode NOTE You must log on with administrator rights 1 Start your computer to Safe Mode with Command Prompt 2 At the command prompt type Ssystemroot system32 restore rstrui exe and then press ENTER Follow the instructions on the screen to begin restoring your computer to a pre vious fu
111. bruker biospin de NMR nmr softw passwd docu index html 65 66 The TOPSPIN license or contact your local Bruker BioSpin representative License type Contents Acquisition Processing Automation ICON NMR Plotting Experiment Simulation and NMR GUIDE license period 15 years no restrictions Acquisition Processing Automation ICON NMR a Plotting Experiment Simulation and NMR GUIDE Additional license period 15 years one Full license has to be available Acquisition Processing Automation ICON NMR Plotting Simulation and NMR GUIDE license period 3 months Node locked uncounted free of charge Processing and Plotting Processing Only license period 15 years no Acquisition no NMR SIM no NMR GUIDE Viewing and Plotting Presenter license period 15 years no Processing no NMR SIM no NMR GUIDE NMR SIM and restricted Processing and Plotting license period 15 years Teaching TopSpin can only process datasets that are older than 4 weeks or datasets created by NMR SIM One TopSpin plot session without port folio editor can be started Node locked count 1 Special license for extending TOPSPIN with own functionalities Allows viewing of data Developer license period unlimited no Processing no Plotting no NMR SIM no NMR GUIDE free of charge 3 What kind of licenses do I need If you want to use TOPSPIN 1 x you need a FEATURE line
112. character is used For example the command for listing files sorted by date UNIX shell ls lrt Windows XP Command Prompt dir od Windows XP commands 221 18 5 2 Windows XP commands versus UNIX commands Under Windows XP most commands can be executed via the Graphical Interface You can however also open a Windows XP Command Prompt and run commands from there Here is a list of UNIX shell commands and the corresponding Win dows XP shell commands Function UNIX shell Windows XP Command Prompt Files List files ls dir copy a file cp copy rename a file mv ren delete a file rm del erase print a file lp print edit a file vi jot notepad display file contents cat type sort a file sort sort compare 2 files diff comp fc find text in file grep find find a file find Directories make a directory mkdir mkdir remove a directory rmdir rmdir copy a directory cp r xcopy change directory show current directory Utilities time and date cd lt dir gt pwd date cd lt dir gt cd date time 222 Windows XP commands Function UNIX shell Windows XP Command Prompt manual pages man help backup tar backup floppy or 18 6 The UNIX GNU shell ntbackup tape For compatibility reasons a UNIX shell is delivered on the TOPSPIN CD and auto matically installed during the installation of TOPSPIN When the installation is fin ished you can open a GNU shell by clicking Start
113. ck SOx w me Edit 2H Lock File x Curhead 33 BasisFreq 500 130000 MHz BsmsField CDCI3 573 0 Nucleus _ 2H mm TBI 1H BB 31P Z GRD Z1234 0001 x LockFreq 76 773000091518 Solvent Fielc C LockPo LoopGain LoopTime LoopFilt LockPh Distance Ref width Ref shitt 0 0 40 000 0 136000 200 000 1 000000 2 03 i 0 5 0 0 0 0 40 000 0 136000 200 000 1 000000 2 04 0 5 oo 0 0 0 0 25 000 30 000 0 136000 200 000 0 136000 200 000 0 7 24 05 loo 5 32 0 5 0 0 40 000 200 000 1 93 i 0 5 0 0 26 000 200 000 1 000000 7 28 i 0 5 0 0 20 000 200 000 1 000000 4 7 4 05 0 0 23 000 200 000 200 000 2014 7 _ f 0 5 1 07 0 5 200 000 1 000000 3 3 0 5 200 000 1 000000 2 91 i 0 5 200 000 1 000000 249 i 05 1 000000 0 0 5 05 200 000 1 000000 0 5 200 000 1 000000 0 5 200 000 1 000000 0 6 CH30H D20 200 000 1 000000 200 000 1 000000 4 7 0 5 05 200 000 1 000000 0 5 Check the lock table values field lock phase change them Click Save To close the window click on the X in the right corner e Continue with edscon amp Edsco
114. computer to the Internet you can be vulnerable to viruses worms hackers and other Internet intruders To help protect your computer against viruses and other security threats Bruker BioSpin recommends to have a firewall and updated antivirus software running at all times Microsoft Windows XP Service Pack 2 SP 2 contains the new Security Center which helps you to manage your computer s security settings and therefore more Windows XP Tips and Tricks 237 secure If you are not running a firewall or an up to date version of antivirus soft ware you will see an alert in the notification area to the right of the taskbar Wit the help of the Security Center you can check the status of the important secu rity settings You can also use it to find information about the latest virus or other security threat or to get customer support from Microsoft for a security related issue 20 8 1 How to open Security Center 1 Click Start Control Panel 2 Double click Security Center A window Microsoft Security Center will appear Windows Security Center EER amp Security Center Help protect your PC E Resources zy Security essentials g o Security Center helps you manage your Windows security settings To help protect your computer make sure the three security essentials are marked ON IF the settings are not ON Follow the recommendations To return to the Security Center later open Control Panel Get the l
115. csecescescecsccecscscsccscessesessescsssesssscesssseeees 13 1 13 1 1 13 12 13 1 3 13 2 13 3 13 4 13 4 1 13 4 2 13 4 3 13 4 4 13 4 5 13 4 6 13 5 13 5 1 13 5 2 13 6 13 6 1 13 6 2 13 6 3 Chapter 14 14 1 14 1 1 14 2 14 2 1 14 2 2 14 3 14 3 1 14 3 2 14 4 14 4 1 14 4 2 14 5 14 5 1 14 5 2 14 6 TCP IP configuration isinin eaaa e aE a scasasunsTicessssaheesedes 137 Create a New Network Connection 0 cece cece ceeseseeceesesseecaeesseecaesesaeessecessessesesseaeeecaeeeenecaeeaeaes 138 Configuring the TCP IP of an existing Network Connection ceccecceccsesseeseeeeseeetseeeseeececaeeaeeeeneaes 138 Configuring the TCP IP of the Spectrometer Control 00 cece cece ceesee cee ceesesseeceeseaeeecaeseeeecaeeesaes 139 Changing the hostname of the computer and its effects 0 eee eee eeereeeee 140 Network diagnostic commands 0 0 0 eeeceseeesseeeseeeseeeeseeeeeeceeeeceaeeeaeeceeeeeaeeeeaeeenees 141 Accessing remote files and directories eceescceseceeeeeseeeeceeteeeaeceeeeceaeeeneeeeneees 142 Sharing directories from a Windows XP host cssesseseeeceeceeeseseeeeeseeaeaceseeeceeceecaeceeeesseeaeeaeaeeateeseecaeens 142 Enabling and disabling Simple File Sharing 20 00 00 cccccccesescesceeceeceeceeeeeeeeseeaeceaeeeeeeceecaesaeeeseeeaeeaeeeeaees 143 Sharing directories from a UNIX host using Samba ccecessesssesseesenceseeeceeceecaeceeeeeseeaeeaeaeeaeeeceeeeeens 146 Mounting Windows XP partitions from a
116. ctrometer If you do this you are mainly in one of the four following situations You have just installed the software in a new directory and the old spectrom eter configuration of the software is still known to the new version go to chapter 8 1 1 You want to configure a only processing PC like your spectrometer PC so you have the spectrometer configuration on another computer go to chap ter 8 1 2 Configuration of TOPSPIN T11 You have to configure the software on a new hard disk without a backup of the spectrometer configuration so you have no configuration files anymore go to chapter 8 1 4 You have a new spectrometer hardware component so you have no configu ration file so far go to chapter 8 1 5 If you would like to take over the configuration of an existing XWIN NMR TOPSPIN into TOPSPIN 1 3 please check chapter 8 2 8 1 1 If your PC controls a spectrometer 1 Be sure that the spectrometer is booted see chapter 6 4 and 15 5 3 2 Open a dataset Type new and create a new dataset You can also select a dataset e g exam1d_1h acquired with another TOP SPIN or XWIN NMR version 3 Enter cf The command cf now configures the software according to the hardware of your spectrometer a A window will appear Password request password Type in the NMR ADMINISTRATION PASSWORD Click OK b A window will appear Spectrometer configuration Cf Configure the hardware of your spectromet
117. d 6 A window Select Users will appear e Select in the field Location the domain name e Inthe window Enter Network Password type in your login name and pass word e Highlight the global group you want to be a member of NmrUsers normally this is the group Domain Users e Click OK OK 7 Close the window NmrUser Properties by clicking OK Part Il Windows XP Installation and Configuration Chapter 10 Installation procedure Before you start 10 1 Do s and Don ts under Windows XP 10 1 1 Do not re install Windows XP Not only will it usually not cure the problem you also lose all additional pre installed software e g TOPSPIN Office package user accounting screen and net work drives etc YOU will have to put all of these back on manually In such a case it is very important to have a backup of the essential files see chapter 15 11 and 8 7 It will be many hours until you are back where you started If you have problems use the Event Viewer and the other diagnostic tools to locate the problem and cure it within Windows XP If you think you need a re install con sider an Windows XP repair Use the Windows XP Repair diskettes creating described in chapter 12 to repair Windows XP to the status of that repair disk rather than doing a scratch install Re installing Windows XP is a last resort and you should have very good reason to do it 10 1 2 Use Windows sharing rather than FTP
118. d become unusable if the update was done incorrectly 1 Start the Service Tools of the Bruker Utilities to check the firmware version of your spectrometer hardware 2 Double click on an icon starts an automatic procedure that opens a command prompt The following example shows the check of the bsms service tool et D WINDOWS System32 cmd exe 5 x going to start the service tool D Bruker TOPSPIN conf instr servtool bsmstool tool a bsms exe k Be sure that the spectrometer is free Press CTRL C to stop or pause ter WARNING 1 ia This is a hardware level debug tool Improper operation may damage your hardware EFFEEF EEPEEES pe gt gt gt bsms service toolbox lt lt lt e e Version bsms 2 14 pe Compilationdate 638926 pe Author R Eggli M Schenkel R Sauter e ye Copyright lt c 2003 by Bruker BioSpin AG Switzerland Press Return to abort or y to continue m 3 Type y gt ENTER 4 A dialog comes up in the command prompt cx D WINDOWS System32 cmd exe gt gt gt Main Menu lt lt lt Keyboard On Off Init BSMS Check Download all boards Show all versions Shim functions BSMS system functions Board functions CPU Board functions SCB13R Board functions SCB7 SCB13M without SCB13L Board functions SLCB Board functions LCB Board functions Keyboard without GAB Emulated functions GCB Service Quit
119. de the Guest account 13 4 3 Sharing directories from a UNIX host using Samba If you are logged in on a Windows XP host you can access data which reside on a UNIX host using the sharing mechanism This however only works if the Samba package is installed on the UNIX host Samba is available from http www samba org samba download html Proceed as follows 1 Download the correct version samba53 or samba6x depending on your IRIX version uname r 2 Install with inst f sambaxx 2 0 xx tardist 3 Within inst use list to show information about the package and go to install it 4 After installation is done you may configure it with the SWAT tool This tool Samba Web Administration Tool is started if you enter the address http ocalhost 901 into your Web Browser eg Toolchest Internet gt Open Web Browser e define the workgroup in the GLOBALS section e the directories you want to share in the SHARES section e and the password encryption settings The default is no see chapter 20 5 3 but Windows XP is sending encrypted passwords by default so you have to change it in Samba or in Windows XP see step 7 5 You will find an actual describtion of the current samba version and the corre sponding installation in ftp ftp bruker de pub nmr binaries indy samba x readme Windows XP Networking 147 More information on setting up samba password encryption and many other features of Samba can be found in
120. dow My Computer will appear Double click the CDROM icon 5 A window showing the contents of the CDROM will appear Double click the icon setupNFS or setupNFS cmd 6 A window Hummingbird Master Setup will appear Click Install NFS Maestro Server This window will change to the subtitle Installation Type Click Personal Installation A window Chose Setup Language will appear e Choose English USA this description is written for the English one e Click OK A window Hummingbird Setup Wizard will appear and display several progress bars Finally it shows The Hummingbird Setup Wizard will install Hummingbird NFS Maestro Server on your computer e Click Next A window License Agreement will appear e Click I accept gt Click Next A window Customer Information will appear Insert the appropriate information or leave the information unchanged it is important that this application will be installed for anyone who uses this computer e Click Next A window Destination Folder will appear e Click Next A window Setup Type will appear e Click Typical Click Next A window Ready to Install the Program will appear e Click Install A window Installing Hummingbird NFS Maestro Server will appear showing a progress bar Installing NFS Server e A window Hummingbird Setup Wizard Completed will appear e Click Finish e Back in the window Hummin
121. dule o lt Previous Configuration of TOPSPIN 89 d The nuclei table appear Edit nuclei table delete or modify values Note You can also edit this table with the command ednuc Nucleus Name 1H 2H 3H Hydrogen Deuterium Tritium Helium Lithium Lithium Beryllium Boron Boron Carbon Nitrogen Nitrogen Oxygen Fluorine Neon Sodium Magnesium Aluminum Silicon Phosphorus sulfur Receptivity rel 13C 5680 0 0 00821 1 0E 9 0 00326 3 58 1540 0 78 8 22 1 754 0 1 0 5 69 0 0219 0 0611 4730 0 0 0359 525 0 1 54 1170 0 2 09 377 0 0 0973 3 2 Frequency rel 1H 300 13 5 46 071782 320 130565 228 637344 44 167389 116 641914 42 173706 32 244941 96 293631 75467749 21 681046 30 411909 40 656994 282 404355 23 693151 79 390087 18 372063 78 204451 59 627388 121 494851 23 037979 Ado Edit_ _ print_ _ petete Restore save lt Previous Cancel Check if the frequency of the nuclei are set correctly and click Save If in doubt click Restore then click Save e A window Edit spectrometer configuration will appear click Save EY Edit Spectrometer Parameter frequency BFi 00 SFO 0 0 oFs1 0 0 BF2 00 SFO2 0 0 oFs2 0 0 BF3 0 0 SFO3 0 0 OFSS 0 0 logical channel we E lhe MHz NUC2 maz F2 FCUt FCU2 lhe MHz NUC3 MHZ F3 FCU3 Hz amplifier H
122. dvare_list proceed as described delete all lines except the one you want to copy vi hardware exam usable vi commands dd delete 1 line lt n gt dd delete n lines iwq hardware exam should now contain the desired entry only if available insert EC level and SN to keep data up to date vi hardware exam insert EC level and serial number iwq move hardware exam into instrument directory cd cat curinst my hardware exam insert desired entry into hardware_list su become superuser cp hardware _list hardware_save make backup vi hardware_list move cursor into line where you want to insert the new entry ix hardware exam insert file iwq finished hardware_list should now contain the new entry HHHHHHHHHHHHHH HAHA RAHRHRRR RAAB ARBR RAAB RAAB RRR RRR RRA B RRR A PN C PN D PN E ECL SN description conment Fk Fk k ee Fk Mk Fk Fk Mk Fk Fk Pk Mk Fk Fk Mk k Fk k F F Transmitter entries 41301248 ol B LT3 S 20 40dB X 20 400B 1H 20 40aB 19F 20 40dB 3H 41301642 ol B LT4 S 20 40dB X 20 40dB 1H 20 40aB 19F 20 40dB 3H 41301242 il B LT4 no att X 2x20dB 1H 2x20dB 19F 2x20dB 3H 41301242 2 B LT4 20 40dB X 20 400B 1H 20 40dB 19F 20 40dB 3H 41301240 il B LTS no att X 2x20dB 1H 2x20dB 19F 2x20dB 3H For Help press F1 zal Thus if you see displays like the Notepad example above please try a smarter edi tor WordPad comes with every Windows and thos
123. e EEEE AAR TA A A AEA 205 Known Problems in TOPSPIN for Windows XP Compressing files and directories oo eee eeeseecsecsseceeceseeecesceeeeeeeeeseaeeneeenes Setting the Compress attribute s scic scisedscesaseesseacassssatestadacadacecs sebccadsassedbacsedascesdeacsaddariousossesadaerentcaaasaveeats Editing text Tiles oe ceccccnsns coarcivocsctns concossscuccvsesseasedcewecesscocdenvas REE ENE EEEa Uppet ower Case letters oinnia E E a snes Plotting and Printing under Windows XP Printing plotting data niessessies eaa ao nE KTERE a NEE ERS Plotting and printing 342 on his E E Oba aida SE ESA E SEAE N Print Plot from the Menu Plot d t from th Processing guide sy rerini o s rrei a E E EE E EK TE E ei ees Plot data with the TOPSPIN PLOT EDITOR oiiro or rieta er REIRE O AR ARATE Print the Inte gral St arre na aaan rE a TEE EE E EE A ads ose eee 211 Print the Peak list 212 Copy data to Other Applications siirsi eaa E EE ahessaibg svabes Secus sas EE ASEEN E iea 212 Store Export a Data Window as Graphics File 0 00 cecceccescseeseseeseeeesesceseeeceecaecaeeeeeeesesaesaeaeeeeeesereaeens 213 TOPSPIN PELOT EDITOR esac setssiiiny o SaO PER A O A EAE ARAE coeds RAE ASCA Ar AARSET 213 Windows XP commands TER ony ern 215 Important Windows XP functions and their shoricuts E E ST 215 Online Help soran aeeoea paroon ainiti rin ae OEE EEEE EE EEEE EEEE EErEE TEE AKEE 216 Getting Help on specific topit Sinees e eia ar E E
124. e Mail Digital IDs also called certificates are special Tell me more Ra documents that allow you to prove your identity in electronic transactions Digital IDs To digitally sign messages or receive encrypted messages you must have a digital ID Get Digital ID J Encrypt contents and attachments for all outgoing messages T Digitally sign all outgoing messages To disable this warning might be a security leck If you do not disable this warning you get a warning every time if ICON NMR send an e mail Windows XP Networking 151 13 5 2 13 6 Sending an e mail with Outlook Express e Fill in the correct recipient s address e Click the Send button If you want to use an e mail application not mentioned here make sure it has some use as simple MAPI client feature and activate it Installing the TOPSPIN in a Windows XP Domain Windows XP provides two different security scenarios for computer networks the Workgroup and the Domain scenario With a Workgroup scenario each computer has its own local security database of user accounts and passwords This means that users from workstation A are not known at workstation B They might have the same name on both workstations but internally they are represented by two dif ferent security identifiers Users from workstation A can access files on worksta tion B via the sharing mechanism see chapter 13 4 1 The Workgroup scenario is typically used for sm
125. e Security Center sesessseseesse sterse stesse strtsrstetsrsisesrsesrsrseseeses 248 20 8 16 How to specify an antivirus program that Windows does not find sssssssssssssessissssssrererertssrsrsrereeees 249 20 8 7 Microsoft Pop up Blokeen obec coe E oS aed es ih csanaa bu deecaeshion scaes anions condecsteapseed aes 249 20 8 18 How to change Pop up Blocker settings cece cc eesseeceeees see caeceseeecaesesaeaseeseeseasesenseseeecaeeasaneas 249 20 8 19 How to block pop ups when you click a link or button on a Web site eceeeseeseeceseeeeeecneeaeeeeeeeaes 250 20 8 20 To turi on Popup Blocker vu 4 sacesceayedesSaccssctuccaasaucostanceadadaco reds sadassspasbdevassasousiuetenasabeniucheaseesvinassadavsetveade 250 10 20 9 20 9 1 20 9 2 Chapter 21 21 1 21 2 21 2 1 21 3 21 4 21 5 Chapter 22 Internet Connection Firewall in Windows XP SP1 ssssessesseesssssssssesseereserssssessse 251 Enable Internet Connection Firewall Windows XP SP1 Disable Internet Connection Firewall Windows XP SP1 A PPONG KX sisssccccstsssccessvnssvesssveseecnssevecesacnsssosessenadsncssoesennas Windows XP Important Information about your PC o00 eee ee eeceeeeeeeereeneeeees 253 Some notes for the helium handling Automatic notification for helium refill 20 eeeeeseeenceceseeeceeceecaeeeeeeescaceaeaeeeeeecsecaeseeeeeeeeaeeaeeeates Helium measurement under Windows XP Service Pack 1 o eeeeeeeeesceeeeeetees 257 Script for savin
126. e command cf now configures the software according to the hardware of your spectrometer a A window will appear Password request Pleas nter the NMR administration password Type in the NMR ADMINISTRATION PASSWORD Click OK b A window will appear Spectrometer configuration Express Installation and Configuration of TOPSPIN 29 d e 2 h Most likely you will select an existing configuration and press Edit to confirm this configuration A window will appear Edit configuration The selected configuration is displayed Choose whether to configure it as a spectrometer or datastation Choose the type of your spectrometer e g AVANCE ENTER Check or type in the 1H frequency of the magnet e g 500 13 ENTER Use the debug mode only in case of trouble shooting A window will appear Specify the channel to which external devices are con nected The RS232 485 channel for external devices Table appears Check if the tty numbers of the hardware components are set correctly A window Additional configuration will appear Security check Enable peak power check POWCHK e Choose the options if you want to use this security options Powchk and Pulchk require special probes and cortab If in doubt contact your local Bruker representative please Sample changer configuration Should the Sample Chang er control the Lift yes no e The answer depends on how the air flow is connected normally
127. e problems go ahead with step 3 e No Go ahead with step 3 3 Stop the current TOPSPIN window and start a new one a Enter in the TOPSPIN command line logoff b Open a Command Prompt Click Start All Programs Bruker TOP SPIN Bruker TOPSPIN x y Bruker Utilities Command Prompt and start a second TOPSPIN topspin client Has the first TOPSPIN window been closed and does the second one work fine e Yes The problem is solved you can go ahead with TOPSPIN e No Go ahead with step 4 178 Troubleshooting 4 Stop all TOPSPIN windows and end the program itself a b Try to stop all TOPSPIN windows by enter the command logoff in the TOPSPIN command line Kill TOPSPIN in the following way a Press CTRL SHIFT ESC to start the Task Manager b Click Applications c Click Bruker TOPSPIN 1 x d Click End Task e Go to the Bruker Utilities e Click Start All Programs gt Bruker TOPSPIN Bruker TOP SPIN x y gt Bruker Utilities e A window Bruker Utilities appears e Double click Miscellaneous e Double click the entry shmrm 15 3 2 Troubleshooting while an acquisition is running The difference to the situation that no acquisition is running is that you can try to stop only the graphical user interface without stopping the acquisition Step 1 does not stop the acquisition step 2 will stop also the acquisition 1 Stop the current TOPSPIN window and start a new one a
128. e right mouse button 4 Click Create Shortcut s Here an icon Shortcut to history will appear 5 Right click the icon Shortcut to history 6 Click Properties 7 A window Shortcut to history properties will appear a Click Shortcut b In the field Target insert the program to be used before pathname e g notepad C Bruker TOPSPIN prog curdir guest history c Click OK 20 2 Use the classic logon screen under Windows XP To temporarily use the classic logon screen press CTRL ALT DEL two times on the Welcome logon screen To configure Windows XP to use the classic logon and shutdown screens for every logon session follow these steps 1 Click Start and then click Control Panel 2 Double click User Accounts Windows XP Tips and Tricks 227 3 Click Change the way users log on or off User Accounts teen Aba Pick a task 2 User accounts be B Change an account A User account types 2 Switching users D eate B Change or pick an account to change Sven Related Tasks Manage accounts Learn About a Logon options For added security you can turn off this feature and use the classic logon prompt which requires users to type a user account name Use Fast User Switching With Fast User Switching you can quickly switch to another user account without having to close any programs Then when the other user is finished you can switch back to your own account 20 3 Convenient
129. e screen Installing and configuring Windows XP Professional 131 11 3 Installing the Graphics driver Hewlett Packard PCs from Bruker BioSpin are delivered with the Graphics driver on the CD If you do not have a floppy or a CD and want to install a newer driver you can download a Graphics driver from the Web Go to http h20000 www2 hp com bizsupport TechSupport Product jsp prod Typeld 12454 amp prodCatId 296720 amp locale en_US amp taskId 135 The Graphics drivers are offered as self extracting exe files Just download the file for your system then click its icon and insert a formatted floppy This way you can create a new Graphics driver floppy The Graphics driver CD can be installed as follows 1 2 3 Insert the Graphics driver CD Click Start Control Panel A window Control Panel will appear e Double click the icon Display A window Display Properties will appear e Click Settings 5 If the window Invalid Display Settings appears click OK 6 Click Advanced Adapter Properties gt Driver Update Driver Next enable Display a List Have Disk A window Install From Disk will appear Enter your CDROM e g d or accept the default if it is correct Click OK 8 The Graphics driver which resides on the CDROM will appear Click OK 9 A window Third party Drivers will appear 10 11 12 13 14 e Click Yes to proceed and wai
130. e server The Flexlm license manager must always be installed and run as an Windows XP service on the license server It is delivered on the TOPSPINCDROM and can be installed as described in chapter 6 4 The Flexlm is automatically installed as a 72 The TOPSPIN license 7 2 4 Windows XP Service which is then automatically started On the license server the file license dat must contain a SERVER line a DAE MON line and FEATURE lines An example would be SERVER tulip 0060080e830d 1700 DAEMON bruker_ls c flexlm Bruker bruker_ls exe FEATURE TOPSPIN1 bruker_ls 0 0 6 aug 2018 3 0OBOE4011FFOCD32FBFF1 vendor_info for hostid s O060080e830d ISSUER 00047573d35e FEATURE TOPSPIN_1D bruker_ls 0 0 6 aug 2018 3 9B3EA021818829E2716A vendor_info for hostid s O060080e830d ISSUER 00047573d35e FEATURE TOPSPIN_2D bruker_ls 0 0 6 aug 2018 3 AB3E80014D54FOFB3887 vendor_info for hostid s O060080e830d ISSUER 00047573d35e FEATURE XWINPLOT bruker_ls 0 0 6 aug 2018 3 DB4ES0F1618A2B2383D3 vendor_info for hostid s O060080e830d ISSUER 00047573d35e FEATURE TOPSPIN_ACQU bruker_ls 0 0 6 aug 2018 3 9BDE3051D4CB63255DCC vendor_info for hostid s O060080e830d ISSUER 00047573d35e FEATURE NMRSIM bruker_ s 0 0 6 aug 2018 3 2B4EC041E98523510FCB vendor_info for hostid s O060080e830d ISSUER 00047573d35e where tulip is the hostname and 0060080e830d the hostid of the computer Note that the second part of the FEATUR
131. e that have Microsoft Word can of course use Microsoft Word to edit files in luxury 16 6 Upper Lower case letters The Windows file system NTFS intentionally does not differentiate between upper and lower case letters Therefore working on a PC please observe the following 1 if you want to work with your SGI spectra on a PC avoid to create datasets with the same name differentiated only by being written in upper or lower case let ters 2 do not ignore the upper and lower case letters of TOPSPIN commands If for instance you type rpar PROT TOPSPIN will display the rpar list of all param eter sets beginning with PROT The command rpar Prot will show no parameter list although the MS Explorer displays the parameter set PROTON in the wrong way Proton Chapter 17 Plotting and Printing under Windows XP 17 1 Printing plotting data 17 1 1 Plotting and printing Under Windows XP all common printer drivers are available and printers are installed with the Windows XP add printer tool see chapter 14 1 When a printer is installed under Windows XP it can be used for plotting from TOPSPIN and TOP SPIN PLOT EDITOR The default printer and plotter for TOPSPIN are defined during the configuration of TOPSPIN by expinstall see chapter 8 1 1 17 1 2 Print Plot from the Menu The current data window can be printed as follows 1 From the TOPSPIN menu e Click the print button in the upper toolbar e or Click File Print
132. e viola netx applic com is the hostname domainname of the PC e hplj4ml is the name of the printer on the PC 4 Create the spooling directory which is specified in etc printcap a mkdir p usr spool lpd hplj4ml b chown daemon daemon usr spool 1lpd hpl1j4ml c chmod 770 usr spool lpd hp1j4ml More information on network printing under UNIX can be found in the manual netprint which is available on http www bruker biospin de NMR nmr softw passwd docu index html and as Network Printing in the TOPSPIN online help 14 4 Remote printing from a PC to a UNIX host without Samba Remote printing from a PC running Windows XP on a printer connected to a UNIX host can be realized in two different ways e by installing the Microsoft TCP IP Printing package on the PC e by installing Samba on the UNIX host see chapter 14 5 The first method is easier to install The second method has advantages if you also want to use Samba s capability to share UNIX directories with Windows XP hosts 14 4 1 Configuring the PC from which you want to print 1 Log in as Administrator Insert the CDROM Windows XP Professional Close the window Windows XP CDROM by clicking Exit Click Start gt Control Panel Administrative Tools Services nan Aa WwW N A window Services will appear Do you see an entry Microsoft TCP IP Printing Yes Click Cancel and continue with step 6 164 Installing a Printer
133. eated BEFORE you proceed HKEY_LOCAL_MACHINE SYSTEM CurrentControlSet Services Cdrom Autorun from 0 to 1 Chapter 11 Installing and configuring Windows XP Professional Windows XP exists in two different forms Windows XP Professional and Win dows XP Home Edition The installation as described in this chapter is valid for the English version of Win dows XP Professional on a hp workstation xw4100 In this case you can install Windows XP exactly as described here For other versions of Windows XP or other hardware the installation procedure might be different For example on some PC s the boot sequence is interrupted with the Delete key rather than with the F2 key This description is intended for new installations If Windows XP is already installed and you have problems Before you decide to re install Windows XP try to repair Windows XP Repairing Windows XP means that you selectively re install parts of Windows XP leaving application software and data intact 127 128 Installing and configuring Windows XP Professional 1 y 5 11 1 Scratch install of Windows XP If your computer is running a Click Start gt Shut Down Shut down the computer Yes b When you see the text It is safe to turn off your computer insert the CD ROM Windows XP Professional Restart the computer and Interrupt the boot process by pressing the F8 key Do not press F2 to go into BIOS because the
134. ectrometers Avance AQS and Avance AQX AQR This means Avance AQX AQR spectrometers including DMX DRX DSX DPX can now be upgraded from Xwin nmr to Topspin a Please read the NMR Release letter You can find therein all information about news and bug fixes of the current version b When you have finished reading the Release Letter close the Release Letter by clicking the X button in the upper right corner Installing TOPSPIN 49 7 A window Choose Destination Location will appear Choose Destination Location Please select the destination directory for TOPSPIN r Destination Directory C Bruker TOPSPIN e Select the destination directory for TOPSPIN a Accept the default destination b or browse to another destination Choose Directory Please choose the directory for installation Path f bruker topspin1 3 Directories Bruker ale Cancel Drives f data z Network e Enter an installation path which does not exists so far e g C Bruker topspin1 3 e or browse to another existing installation path e Click OK e Click Next 50 Installing TOPSPIN 8 A window Select the setup type will appear Select the setup type Only customized setup allows you to select program components C Data Processing only lt Back Cancel a Select the setup type Do one of the following Product selection Select the products you want to install Use the SPA
135. ed in the System folder e Boot issues that occur after you see the Windows XP startup Osloader screen PC is not booting from floppy In case it is not possible to boot the PC from a bootable floppy this possibility might be disabled in BIOS The following description shows how to enable the boot from floppy feature on a hp workstation xw4100 PC On other PC s the pro cedure might be slightly different Troubleshooting 189 15 10 2 1 During boot time cancel the boot process and go into BIOS On different PCs there are different ways to do this for example on some PCs the boot sequence is interrupted with the Delete key rather than with the F2 key 2 Go to section Security Boot Devices Security 3 Set Floppy to Enabled Note It is recommended to disable the boot from floppy feature after the boot process is done If it is enable it is possible to get very easily a boot virus into BIOS that can make your PC defective Another small advantage is that if the BIOS feature above is enabled and a nor mal floppy is inside the drive booting the PC will stop and showing the informa tion that a non bootable floppy is inside If it is disabled booting the operating system will work with or without floppy Floppy boots Operating System from hard disk You can create an Windows XP Boot Disk by formatting a floppy from within Windows XP and copying the following files from the root of an Windows XP boot partitio
136. ed with the mount command 13 4 5 FTP Network transfer under Windows XP is generally done via the directory sharing as described in chapter 13 4 1 and 13 4 3 Nevertheless Windows XP supports trans fer via FTP Just enter ftp hostname from a Command Prompt and you can transfer files 13 4 6 Telnet 13 5 13 5 1 Windows XP contains a telnet command for remote login Just enter telnet hostname in a Command Prompt to login to a remote host The telnet command can only be used to login from your PC to a remote host e g a UNIX host but not vice versa With Windows XP it is also possible to do a telnet login to a Windows XP compu ter but this feature is not very convenient Requirements for the Send function in TOPSPIN Alternatively to printing and faxing diagnostics results to Bruker BioSpin or some where else you can send the same information via electronic mail For this to work the spectrometer PC needs access to the Internet i e to an Internet gateway in your local network If the Personal Computer has not yet been set up for e mail transmission proceed as follows Install a program that allows for composing and sending e mail messages If you have Microsoft Internet Explorer 6 0 or newer we recommend to install it Inter net Explorer is bundled with an e mail application called Outlook Express Out look Express is perfect for TOPSPIN s e mail features The descripton how to use the send button in TOPS
137. ee above requires to do the download once again e Ifyou have done a download of newer firmware you have to do cf again e If you do not need any downloads you can follow the instructions in the command prompt to end this tool Configuration of TOPSPIN 103 Keyboard is to date SCB L i to date SCB M i to date SCB R is to date Lock s autodownload SLCB 16 256 1 no firmware for this boardversion contact your serviceoffice CPU is up to date communicationtest 15 seconds Estimated autodownload time h 18 min Press y to start autodownload Any other key aborts y Lock 16 8 0 autodownload with firmware lockah hex Reading file lockah hex check HEX file Intel Erasing FLASH memory Programming record 3050 of 4940 Communication error detected and fixed ERROR 0201 No such file or directory Press RETURN to continue 8 6 A log of the entire system configuration The showconf command provides you with various information about your hard ware and software both of the PC and of the spectrometer Here is how showconf works Go to the folder Bruker Utilities Miscellaneous double click on the showconf icon and wait about 2 minutes until it has finished After that showconf has produced a file called confout txt that contains all you need Con fout txt is located next to the showconf batch after the first execution and you edit it from there fe C Bruker TOPSPIN pro
138. eeeeseeseceneeseeeceeceecaeseeeeseeaeeaeaeeaees On the UNIX host from which you want to print cece ce cee caececaeeceecessesssesesseaeeecseeeaeecsecenaes Remote printing from a PC to a UNIX host without Samba oe 163 Configuring the PC from which you want to Print cccceccesseeceeceeceeseeeeeseeaesceaeeeeeeceecaeceeeeseesaeeaeaeates 163 Configuring the UNIX host to which the printer is physically connected eeceesecseeseeeeeeeteeeeeeeees 164 Remote printing from a PC to a UNIX host with Samba ee eeeeeeeee 165 Configuring the UNIX host to which the printer is physically connected cecceceeeseeseeeeeeeteeseeeeeees 165 Configuring the PC from which you want to Print cccscescesceeceeceecseeeeeeeseeaeeceseeeeeeceecaesaeeeeeeseeeaeeaeaees 165 Installing a printer with a JetDirect print Server 0 0 ee eee cee eeeceeeeeeeeeeeneeenes 167 Parti Tips Tricks and Troubleshooting Chapter 15 Troubleshooting sscsssssccsssscsssssccsscscccssccsssccssssescscssessssssessssssssssessssssee L71 TST General CHECKS shes seyccshvces cated ete te E capetsesteies A seasons 171 LS 1 Windows XP Servicess a a gA EEE EEE EES ESTEE TEN ESEE EREE SSE 171 15 1 2 Th Event Viewer rner guu inn E R E RE dd aier 172 15 2 TOPSPIN does not start oo eee ceseeeeceeeeeeceeeeeeeeaesseecaessaecaecsacsaecaeeseceseeseeeeenes 173 15 3 TOPSPIN troubleshooting s 22 siccicesasttive aeetees esas eit ca E a E E 176 15 3 1 Troubleshootin
139. en Backup Job Information Backup description Set created 9 22 2003 at 4 29 PM If the media already contains backups Append this backup to the media O Replace the data on the media with this backup If the media is overwritten use this label to identify the media Backup bkf created 9 22 2003 at 4 29 PM 4 Click Advanced Advanced Backup Options C Disable volume shadow copy Backup Type Daily Description Backs up only files that were created or modified today 5 Click the arrow at the right of the field Backup Type and choose Daily 6 Click OK Click Start Backup 15 12 Security check of a Windows XP system Microsoft offers a tool for free download that checks your PC for security leaks The result is listed with an evaluation of the different topics For further details check the following Microsoft website http www microsoft com technet treeview default asp url tech net security tools Tools mbsahome asp 194 Troubleshooting 15 13 Restore the Operating System to a Previous State in Windows XP Use the System Restore tool in order to return your computer to a previous work ing state The System Restore takes a snapshot of critical system files and some program files and stores this information as restore points You can use these restore points to return Windows XP to a previous state 15 13 1 Using System Restore to Restore Windows XP Windows XP
140. en Click on Tools gt Windows Update This will show a page where you can choose to start the search for all necessary updates e After the search is finished you have to choose which update of the available list you like to download e Start the download and follow the instructions 19 2 Winzip pack unpack zip tar gz uue files The program Winzip allows you to pack or unpack archive files The most com mon format is zip but Winzip also handles several other Windows and UNIX formats like tar gz created with gzip and uue created with uuencode An Evaluation Version of WinZip is available at www winzip com which can be used for viewing and extracting archives For creating archives you should order an official version Once Winzip is installed it is automatically started when you click a file with the extension zip tar gz uue etc You can also drag and drop the file s icon into the Winzip window Then click Extract to extract one file from the archive or click Checkout to extract all files 19 3 Defragment your disk Windows XP has an tool that allows you to defragment your disk In the course of time your disk will become more and more fragmented Although an NTFS parti tion which is required for TOPSPIN suffers much less from fragmentation than a FAT partition it might be a good idea to defragment it from time to time Start All Programs Accessories System Tools Disk Defragmenter Chapte
141. er Network Connection Settings 1 Click Start Control Panel 2 In the window Control Panel click Windows Security Center Windows XP Tips and Tricks 245 3 Click Windows Firewall 4 A window Windows Firewall appears Click on the Advanced tab Windows Firewall a General Exceptions Advanced Network Connection Settings Windows Firewall is enabled for the connections selected below To add exceptions for an individual connection select it and then click Settings Settings Security Logging You can create a log file for troubleshooting purposes Settings ICMP With Intemet Control Message Protocol ICMP the Settings computers on a network can share error and status information Default Settings To restore all Windows Firewall settings to a default state Restore Defaults click Restore Defaults Advanced Settings Services ICMP Select the services running on your network that Internet users can access Services FTP Server Internet Mail Access Protocol Version 3 IMAP3 C Internet Mail Access Protocol Version 4 IMAP4 Internet Mail Server SMTP Post Office Protocol Version 3 POP3 Remote Desktop Secure Web Server HTTPS Telnet Server Web Server HTTP Cancel 6 Click OK 20 8 2 7 How to disable Firewall Alerts from the Security Center If you have installed another firew
142. er account including the Administrator or Computer Administrator accounts but you can log on to another account with administrative privileges including the Administrator or Computer Administrator accounts follow these steps 1 Log on to Windows by using the administrator account that has a password that you remember Note You cannot log on as usual by using the Administrator or Computer Ad ministrator account to a Windows XP Professional based computer in a work group To log on as the Administrator or Computer Administrator you must start Windows XP in Safe Mode 2 Click Start gt Click Run 3 In the Open box type the following command and then click OK control userpasswords2 Click the user account that you forgot the password for gt Click Reset Pass word Type a new password in both the New password and the confirm new password boxes gt Click OK You should now be able to log on to Windows with the user account and the new password WARNING If you reset the password for a user account in this manner in Win dows XP Professional the following types of information for that user will be no longer available e E mail messages that are encrypted with the user s public key e Internet passwords that are saved on or remembered by the computer e Any files that the user has encrypted 20 6 2 Method 2 Use a Password Reset Disk If you created a password reset disk for Windows XP you are able to res
143. er or create a configuration for a datastation Active configuration spect Available spectrometer configurations 4 Configuration Spectrometer type Frequency MHz Bruker_default_av500 Avance 500 500 13 Datastation is t 501 0 Select one of the available configurations or create a new one Press Edit to modify or use an existing configuration e g add new hardware or use previous installation Press New to create a configuration from scratch Please enter the NMR administration Configuration of TOPSPIN Most likely you will select an existing configuration and press Edit to confirm this configuration c A window will appear The selected configuration is displayed Choose if would to configure it as a spectrometer or datastation Choose the type of your spectrometer e g AVANCE ENTER Check or type in the 1H frequency of the magnet e g 500 13 ENTER Use the debug mode only in a case of trouble shooting Edit configuration Configuration name Spectrometer Datastation Spectrometer type Avance 1H frequency of magnet MHz 500 13 Debug Use debug module Fi gt d A window will appear Check if the tty numbers of the hardware components are set correctly Specify the channel to which external devices are connected RS 232 485 channels for external devices HPPR Preamplifier 1 k RX22 Receiver BSMS Smart Magnet Control System Lock Signal BPSU VTU Variab
144. erver 19 35 37 38 56 147 172 configuration 40 firewall configuration 40 license 40 NMR ADMINISTRATION PASS WORD 28 44 77 87 NMR Guide amp Encyclopedia 62 NMR SUPERUSER 44 nmrsuperuser file 44 140 permissions 44 user 44 nmr_save 96 105 NMR GUIDE 46 51 62 63 65 troubleshooting 186 NMR SIM 46 51 65 69 125 nmr software support 12 113 223 nmr software support bruker bio spin de 12 113 179 nmrsu 26 44 53 153 NmrUser group 60 117 119 120 153 154 155 Node address 70 Node Locked license 68 176 notepad 201 202 221 225 NT Toolkit CD 37 ntbackup 191 192 222 ntbootdd sys 189 ntdetect com 189 NTFS 133 NTFS filesystem 128 188 202 224 ntldr 189 Nutcracker 172 173 174 176 NuTCRACKER Service 172 NVIDIA Quadro4 380 XGL 13 O Online Help 41 216 only processing PC 76 Outlook Express 148 P Paint 159 paper format 30 83 92 PARAVISION 65 password encryption 146 Patchlevel 55 PDC 151 pdf 11 PDF viewer 19 41 62 performance 13 PERL 46 permissions 202 204 permissions of files 204 physical address 68 70 ping 141 plain passwords 147 Pop up Blocker 249 settings 249 Port Mapper 172 Powerpoint 214 pre scan delay 30 83 Presenter license 66 print 221 printcap file 162 163 164 165 printer driver 157 Processing Only license 66 Properties 204 205 230 pwd 221 pwrdwn 99 Q QuickEdit 230 R rcp 205 Read only attribute 205 Registry 125 126 196 Reg
145. es an overview over all drives directories and files in a two paned window 1 Click Start All Programs Accessories Windows Explorer or right click Start Explore 2 A double paned window Exploring appears e On the left side you see all drives and top level directories e On the right side you see the contents of the drive or directory which is cur rently selected on the left side A drive or directory can be expanded in the left pane by clicking on the button to the left of its icon The button changes to a button When you click the 199 200 File and directory handling icon itself contents of the directory will appear in the right pane A double click on the icon both expands the directory and shows its contents S C Bruker TOPSPIN File Edit view Favorites Tools Help Qx Q p s Search E gt Folders C Bruker TOPSPIN H My Documents E 4 My Computer E Lb 31 Floppy A 5 S Local Disk C Bruker Diskess some H O classes conf data a exp a O cnu D guide a Dje jython perl a plot prog Oar a uninst E compaq Config Msi a O CPQAPPS S pg lt 16 1 2 My Computer Documents and Settin a 7X E Name Qdlasses Oort Odata Dex Gow O guide Gre Giython perl Opo prog Garr uninst S DetsL1 isu E DelsL2 isu S De1sL3 isu E DelsL4 isu S Delst5 isu E
146. ess is also managed by the gserver The gserver is an essential component of the NMR Guide amp Encyclopedia and requires an NMR GUIDE license 1 If you like to work with the vi in Bruker s GNU shell it is necessary to start it with the com mand vim in this version of the GNU package Installing TOPSPIN 63 6 10 2 Java Requirements for NUR GUIDE 4 0 For using NMR GUIDE 4 0 that comes with the TopSpin 1 3 version it is not neces sary to install configure a special Java package NMR GUIDE uses the TopSpin internal Java package that is automatically installed and configured during installa tion of TopSpin 6 10 3 Working with the NMR GUIDE In order to work with the NMR GUIDE the following procedure must be followed e Start up of the NMR GUIDE 1 Start TOPSPIN and enter the command ghelp 2 or enter the command this allows to start a search within NMR GUIDE help 3 or select from the Help pull down menu of TOPSPIN the entry NMR GUIDE Your standard web browser will automatically starts and shows the page A http localhost 6600 guide index html Microsoft Internet Explorer Datei Bearbeiten Ansicht Favoriten Extras a Q u 5 A A A Prsuten she ravoriten ers e2m L sd EEE pe hocabcstssonofgadefren tink ions 3 nonii wae e sien aren Doct MENANG Version 4 0 Encyclopedia about x r Spectra Sites BRUKER alos IN le 1 04 l Fertig 2 Lokales Intranet wa l
147. et your password by using the password reset disk For additional information about how 236 Windows XP Tips and Tricks 20 7 20 8 to use a password reset disk please check the articles in the Microsoft Knowledge Base e In order to create and use a Password Reset Disk for a computer that is not a domain member in Windows XP please read http support microsoft com default aspx scid kb EN US 305478 e In order to create and use a Password Reset Disk for a computer in a domain in Windows XP please read http support microsoft com default aspx scid kb EN US 306214 Error Message When You Use the Add Printer Wizard When you create a printer either a local printer or a remote network printer by using the Add Printer Wizard you may receive the following error message Operation could not be completed The print spooler service is not running This error occurs because the Spooler service has not been started or has stopped working To start the Spooler service follow these steps 1 Click Start Click Control Panel 2 Double click Administrative Tools Click Services 3 Double click the Printer Spooler service Change the startup type to Automatic This sets the Spooler service to start automatically when you restart the computer 4 If you want to start the spooler service immediately click the Start button under the Service Status field Microsoft Security Center If you connect your
148. eters are available Use plot limits e from screen CY The plot limits and maximum intensity are used as they are on the screen processing parameter F1P F2P and CY respectively Plotting and Printing under Windows XP 211 e from Plot Editor Reset Actions The plot limits and maximum intensity are set according to the TOPSPIN PLOT EDITOR Reset Actions right click inside the TOPSPIN PLOT EDI TOR data field and choose Automation to set the Reset Actions e as saved in Plot Editor The plot limits and maximum intensity are set in the specified layout Fill dataset list e from your default portfolio The portfolio contains the current TOPSPIN dataset plus the data from the default Plot Editor portfolio from port folio saved in dataset The portfolio contains the current TOPSPIN dataset plus the data from the portfolio stored in this dataset 17 1 3 Plot data from the Processing guide Printing plotting data can be done from the Processing guide by clicking the Plot Print button If Automatic mode is checked the active data window will be printed as it appears in the screen If Automatic mode is unchecked you will get the dialog box 17 1 4 Plot data with the TOPSPIN PLOT EDITOR Although the print command allows you to use or start the TOPSPIN PLOT EDI TOR you can also start it from the command line enter plot This will open the TOPSPIN PLOT EDITOR from which you can create layouts and plot data The complete TOPSPIN
149. ewall see chapter 8 8 20 8 2 3 To add a program to the exceptions list 1 Click Start Control Panel 2 In the window Control Panel click Windows Security Center 3 Click Windows Firewall 4 A window Windows Firewall appears Windows Firewall General Exceptions Advanced _ Windows Firewall helps protect your computer by preventing unauthorized users from gaining access to your computer through the Internet or a network On recommended This setting blocks all outside sources from connecting to this computer with the exception of those selected on the Exceptions tab Don t allow exceptions Select this when you connect to public networks in less secure locations such as airports You will not be notified when Windows Firewall blocks programs Selections on the Exceptions tab will be ignored 9 Off not recommended Avoid using this setting Turning off Windows Firewall may make this computer more vulnerable to viruses and intruders What else should know about Windows Firewall 5 Click on the Exceptions tab Under Programs and Services select the check 242 Windows XP Tips and Tricks box for the program or service that you want to allow and then click OK Windows Firewall General Exceptions Advanced Windows Firewall is blocking incoming network connections except for the programs and services selected below Adding exceptions allows some prog
150. exceptions Windows Firewall now has three settings 1 On Windows Firewall is turned on by default and normally you should leave it that way When you choose this setting Windows Firewall blocks all unsolic ited requests to connect to your computer except for requests to programs or services selected on the Exceptions tab 2 On with Don t allow exceptions When you select the Don t allow excep tions check box Windows Firewall blocks all unsolicited requests to connect to 240 Windows XP Tips and Tricks 20 8 2 2 your computer including requests to programs or services selected on the Exceptions tab Use this setting when you need maximum protection for your computer e g when you connect to a public network in a hotel or airport There is no need to keep Don t allow exceptions selected all the time because when it is some of your programs might not work correctly and the following services are blocked from accepting unsolicited requests e File and Printer Sharing e Remote Assistance and Remote Desktop e Discovery of network devices e Preconfigured programs and services on the exceptions list e Additional items that you ve added to the exceptions list 3 Off This setting turns Windows Firewall off When you choose this setting your computer is much more vulnerable to harm from unknown intruders or viruses This setting should only be used by advanced users for computer administration purposes or if you
151. f TOPSPIN by the local Administrator 3 Creation and configuration of global groups of NMR users by the Domain Administrator 4 Make sure that all nmr users have an existing HOME directory As an example we use a Domain WMRLAB with two workstations WTSPEC which controls a spectrometer and WTPROC which is used for processing The security database resides on the Domain Controller BOSS Step 2 the installation of TOPSPIN is the same on WTSPECT and WTPROC so it will only be described for WTSPEC BOSS Win Server Domain Controller DC NMRLAB NTPR NTISPEC Si on XP Professional SESE Tess toned TopSpin Topspin PeP Datastation Spectrometer F 13 6 1 Creating an NMR Superuser account Before you install TOPSPIN you have to make sure that there is an account for NMR Superuser If there is none which you like to use create a new one Accord ing to your preference this can either be a local or a Domain account a Creating a local NMR Superuser account If you prefer a local NMR Superuser do the following Windows XP Networking 153 1 Log on at Windows XP Professional Workstation WTSPEC as the local Administrator or any other user who has User Administration rights select ing WTSPEC as Domain 2 Open the User Manager and create an account for the NMR Superuser e g with the name nmrsu see also chapter and 9 1 b Creating a Domain NMR Superuser account
152. from a backup or reinstall your operating system and programs convert exe requires that you have a certain amount of free space on the drive or partition to convert it If convert exe determines that there is not enough free space on the volume it does not convert the volume 133 134 Configuring Windows XP 12 1 1 Check the Disk Partitioning To check the configuration of the disk s of your PC please start up the Disk Administrator utility from the command menus as shown below 1 Click Start Control Panel Administrative Tools Administrative Tools BEE ar Eile Edit Yiew Favorites Tools Help Q sax amp E pa Search gt Folders a gt Xx ig E Name Size Type Date Modified component Services 2KB Shortcut 11 3 2002 1 29 AM Computer Management 2KB Shortcut 9 16 2003 2 52 PM fa Data Sources ODBC 2KB Shortcut 11 3 2002 1 35 AM ii Event viewer 2KB Shortcut 11 3 2002 1 35 AM E Local Security Policy 2KB Shortcut 9 5 2003 9 05 AM H Performance 2KB Shortcut 11 3 2002 1 35 AM Ba Services 2KB Shortcut 11 3 2002 1 35 AM 2 Click on Computer Management Disk Management E Com puter Management TAR J fie Action View Window Help e om e E i System Tools E Event viewer EEE Device Manager amp Storage Removable Storage Disk Defragmenter Disk Management m BR Services and Applications Computer Management Local Shared Folders Local User
153. g bin utilities Miscellaneous Eile Edit view Favorites Tools Help BLO seach gt rolders fa Be gt lt WD E k e m E get_hostid bat Hardware Homepage patchlevel Ping spect exam p Showconf all EE E Telnet spect topspinversi xwinnmr sa confout txt 104 Configuration of TOPSPIN Just double click on the confout icon to call the appropriate editor P confout txt Notepad File Edit Format view Help Output of SHOWCONF I Run at 09 29 2003 windows IP Configuration Host Name Primary Dns Suffix Node Type IP Routing enabled WINS Proxy Enabled DNS suffix Search List Ethernet adapter Local Area Connection Connection specific DNS suffix Description Physical Address Dhep Enabled Autocanf iguration Enabled IP Address Subnet Mask Default Gateway DHCP Server DNS Servers Primary WINS Server Lease Obtained Lease Expires Ethernet adapter Local Area Connection 2 Connection specific DNS suffix Description Physical Address Dhcp Enabled IP Address Subnet Mask Default Gateway The easiest way to copy it on Bruker TOPSPIN prog bin uti lities mMiscellaneous confout txt 4 by augn on KASTOR kastor software bruker de software bruker de bruker de service bruker de Intel R PRO 100 Management Adapter 00 D0 B7 F0 EB 7C 12 86 255 0 222 2 4 1 4 1 4 16 4 80 1
154. g important files oo eee eee esee cee cnee cee ceaeeseceseeecneeeeeseeeeaeeeaes 257 Where DoT Find What fyecessed cutis a oe huevos tree ied aaa 259 Bruker BioSpin addresses sssccssssscsecesscscecssceccsscsccecesseseseesssesssssseeseseecees 261 Chapter 1 Introduction 1 1 About this manual This manual is the TOPSPIN installation Guide for Microsoft Windows XP and describes the installation of the TopSpin 1 3 under Microsoft Windows XP It is available as a hard copy TOPSPIN for Windows XP Installation Guide as pdf file on the TOPSPIN DVD as TOPSPIN Online Help click Help Installation Guide as the up to date version on the Bruker web server http www bruker biospin de NMR nmr softw passwd docu index html Note that this manual does not contain the TOPSPIN Release letter That is a separate document which is not available as a hard copy but delivered as pdf and text files on the TOPSPIN DVD and also on the Bruker web server you can find it at the same URL as the Installation Guide http www bruker biospin de NMR nmr softw passwd docu index html This manual is subdivided into an introduction and three main parts It depends on 11 12 Introduction 1 2 your local demands which of these are necessary for you at the moment The first part shows how to install and configure TOPSPIN and some essential addi tional software packages It is recommended to follow the instructions step by
155. g while no acquisition is running cece ceecsecseeeeteesescesceseeceecnecaeeesseeseeaeaeeaeeeeeeeaeeas 177 15 3 2 Troubleshooting while an acquisition is PUNMING cc ecceceeceecnesseeeeseesesceseeseeeceecaecaeeesseeseaeneeaeeneecaeeas 178 15 4 Send debug information to Bruker BioSpin 0 eee eee ceeeseceeeeceeeeseeeeeees 179 15 5 Communication problems between PC and CCU oo eee csseeteceseeseeerees 180 15 5 0 Hardware related problems c cccccgesssivecenceeasavevcnshecesteviveteqeeaunebivedagestoubesvecnesaadbadedeessaeans ceggneasaduasedagnzes 180 153 2 Software related problems ioen rinena a i a a a a a E A i i 181 15 5 3 View the output of th CCU Console sicidsssssies siadsstics apieddestssavsaivessssessobadsdsSsssessdbcassastapteidesdssasssidessssaieebte 181 15 5 4 Configuration of HyperTerminal sss c5i css dec iis ae A E N EEEE dhetesaiedti ATi 181 15 5 Usage of Hyp r Terminal sisas sedesessabivessiiecassdssasiasesbbesabonsesbsncedsusbessabiseasdiavanbie ETATER iT 182 15 6 Troubleshooting for NMR GUIDE sssesssseeesseessrrererreresrssesrssrerrsrerrsrenrerrereerese 186 15 7 Br ker Servic toolg sinees reroror innen Taea oree iaae E SEEE EES eE pE EET ies 187 15 8 Windows XP Service Pack sesessssessssserssssreersreersreersrreresrsrerrssreresrertsrenerrnrrerssee 187 15 9 Disk full or fragmented sic icles ceive nein ee aE E ada as eae wee 187 15 10 Creating an Windows XP Boot Disk 188 15 10 1 PC is not b
156. gbird Master Setup e Click Back gt Click Exit 7 Remove the CDROM The certificate Proof of license is delivered with each TOPSPIN NT Toolkit CD It proves that you have an official copy of the Hummingbird NFS Server Please keep this certificate 4 4 Configuring the NFS Server for spectrometer control Before you can configure the NFS Server described in chapter 6 6 you must first install packages on the TOPSPIN DVD particularly the DISKLESS package see chapter 6 4 4 5 Firewall configuration for the NFS Server If you have enabled the firewall under Windows XP SP2 you have to configure the firewall for the NFS Server This can be done automatically during the TOPSPIN installation or later while executing the setfirewall ccmd lt topspin home gt prog bin Utilities Miscellaneous setfirewal cmd see chapter 8 8 Note If you have installed the NFS Server after the TOPSPIN installation you have to configure the firewall again Chapter 5 Installing a PDF viewer 5 1 When do I need a PDF viewer A PDF viewer is required for displaying the TOPSPIN Online Help and for parts of the NMR GUIDE A PDF viewer is not installed automatically as a part of TOPSPIN Bruker BioSpin recommends to use the Adobe Acrobat Reader The Acrobat Reader is available from Adobe as a download http www adobe com 4 Chapter 6 Installing TOPSPIN 6 1 Preparing for the TOPSPIN installation Before you install TOPSPIN
157. ge see below reboot the computer and then re install the package Never delete directories to remove a program Always use the Add Remove Programs tool Re install a program in the following way remove the program reboot install the program reboot 1 Click Start Settings Control Panel 2 Double click the icon Add Remove Programs 3 A window Add Remove Programs will appear If you want to re install the entire TOPSPIN see chapter 6 4 please remove the packages e Bruker TOPSPIN Bruker AURELIA AMIX Installation procedure 125 a b c d e f e Bruker ICON NMR Bruker SBASE e Bruker DISKLESS Bruker FLEX m e Bruker NMR SIM Bruker NMR GLP e Bruker TOPSPIN patches Bruker NMR GUIDE Note that not all of these packages are necessarily installed Select the package that you want to remove Click the button Change Remove A window Check Setup Information will appear Check if the path is correct then click OK A window Remove Programs From Your Computer will appear e A growing bar shows the progress of the de installation e When the de installation is finished click OK Repeat step b to e to remove further packages or click OK to close the window Add Remove Programs 4 Close the window Control Panel 5 Reboot the computer During the installation of the TOPSPIN several entries are made in the Windows XP Registry If an TOPSPIN package e g
158. h NTFS 7 8 GByte Nevertheless if you decide to make changes in the partitioning now is a good time to do it because you did not invest too much time in configuration and installation yet e g the TOPSPIN is not installed and configured so far All other partitions are usually empty at delivery of the PC and you can re partition them or assign differ ent drive letters An other file system format is FAT32 that has the advanced of none maximum partition size and that could be read by windows 9x NT and 2000 12 1 2 Converting partitions from FAT to NTFS You see that in our case both C and D already have the NTFS file system If on your system partition D or any other partition on which you want to store NMR data is FAT you can change that from the Disk Administrator Just click All Tasks Format from the Action menu select the NTFS file system and Start formatting Be aware that this will erase the entire partition The C drive cannot be converted from the disk administrator It can however be scheduled for conversion during the next boot up In this way the entire contents of C like Windows XP will remain intact Important This is again a critical oper ation concerning power loss If the conversion runs and the power goes away it will render the disk unusable and Windows XP must be re installed So it might be a good idea your PC to connect to an Uninterrupted Power Supply before you move on To convert a drive fro
159. h many Work stations and varying users this would be an elaborate task Therefore we recom mend to create so called global user groups Global groups are created by the Domain Administrator on the Domain Controller Each global group contains users who are allowed to do certain tasks e g start TOPSPIN on a specific spec trometer or datastation These global groups are then added to the local group 154 Windows XP Networking NmrUser on the various Workstations in the network In our example the Domain Administrator creates the global groups SpecUsers and ProcUsers which are then added to the local group NmrUser on WTSPEC and WTPROC respectively After that for example the global user spec_usera can control the spectrometer from Workstation WTSPEC By managing these global groups on the Domain Control ler the Domain Administrator can control which users can use the spectrometer and which can use the datastation In practice one global group will be added to the local group NmrUser on several Workstations and NmrUser on one Worksta tion can contain several global groups BOSS Win XP Server Global groups SpecUser ProcUuser Members of SpecUser spec_usera spec_userb NMRLAB NTSPECT NTPROC Win XP Professional Win XP Professional Groups Groups Administrators Administrators NMRUser NMRUser NMRSuperUser NMRSuperUser Members of NMRUser Members of NMRUser Localnmrusera Localnmrusera NMRLAB
160. handling of TOPSPIN under Windows XP 20 3 1 Reading data from the Explorer into TOPSPIN TOPSPIN can read data from the Explorer via the Clipboard Perform the following steps a In the Explorer e Find the dataset you want to display in TOPSPIN 228 Windows XP Tips and Tricks e Right click the data name folder e A popup window will appear click Copy b In TOPSPIN e click File Paste You can also click a data expno or procno folder and read the corresponding data set into TOPSPIN 20 3 2 Copy a text item into the TOPSPIN command line Any text item which can be copied to the Clipboard can be pasted to the TOPSPIN command line Of course this is only useful if this text item is an existing TOPSPIN command You can for example copy an TOPSPIN command from the manual to the command line 1 Click Help gt Complete Processing Manual 2 A PDF viewer if installed will start up showing the TOPSPIN processing man ual a Click Tools Select text b Mark an TOPSPIN command in the manual e g search c Enter Ctrl C 3 Move the cursor on the TOPSPIN command line 4 Click the middle mouse button This feature is especially useful for long command names or commands with many arguments The text can come form various sources e g online documents the Command Prompt text editors You can however not copy file or program names directly from the Explorer to the TOPSPIN command line 20 4 Various useful configuration
161. hat you share folders only on the network within your user pro file that remote users on other computers need to access Never ever share the root of your system drive In this case your computer is more vulnerable to malicious remote users To turn Simple File Sharing on or off 1 Double click My Computer on the desktop 2 Click on Tools select Folder Options 3 Click the View tab then click to clear the Use Simple File Sharing recom mended check box to disable Simple File Sharing 4 Click OK 144 Windows XP Networking Levels of Access There are five levels of access 1 Level 2 My Documents Default an Aa WwW N Level 1 My Documents Private Level 3 Files in shared documents available to local users Level 4 Shared Files on the Network Readable by Everyone Level 5 Shared Files on the Network Readable and Writable by Everyone In Levels 1 2 and 3 folders are available only to a user who is logging on locally Levels 4 and 5 folders are available to users who log on locally and remote users from the network You can have the following permissions Access Everyone Owner System Administrators Everyone Level NTFS File Share Level 1 no Full Full no no Control Control Level 2 no Full Full Full no Control Control Control Level 3 Read Full Full Full no Control Control Control Level 4 Read Full Full Full Read Control Control Control Level 5 Change Full Full Full Full Control Co
162. her as group with GID 1 e Map the group diskless_group_sys as group with GID 3 c Click the General tab NFS Maestro Server Configuration General Name Mapping Exported File Systems l Exported Printers l Mapping Source Map Permissions Existing Mapping g IV Users C NTFS Style I Overwrite V Groups UNIX Style I Clear First I Add Machi I Check ACL UNIX Password File ee bes Directory Services r Current Type PCNFSD DNS File Open Timeout 30 4 second s I POSIX Semantics I Notify Directory Changes Disable Lock Daemon UNIX Group File Directory Open Timeout 60 a second s Process Priority 50 Allow Change Owner zal r Server Status Carce e Click Server Status 60 Installing TOPSPIN d A window NFS Maestro Server Status will appear ET NFS Maestro Server Status NFS Requests Lock Mount PCNFSD Exports Locked Files NFS Version 2 Requests NFS Version 3 Requests NFS Version 4 Requests Procedure Failed Procedure Total Failed Procedure Total Failed Null 0 o Null GetAtt Setattr Root Lookup Access Close Commit Create Delegpurge Delegretum Get ttr Getfh Link Lock Lockt Locku Lockup Lockupp Nverify Open Openattr OpenConfirm ReadLink Read WriteCache White Create Remove Rename Link Symlink Mkdir Rmdir ReadDir Statfs DpenDown Miscellaneous Putfh Putpubfh Total Putrootfh Cache Hits 0 Read Dose
163. hostan sinrin n eiii ieii iiia 70 Installing a Demo licenses ies sci siiscntssccosastscaes cieaadiciesnssceateisedss ansasidvsedscnsahoseatasceagieestsdeceesssacdte deeaabicusesatees 71 Installing a full license on a license server oo eeeesesesseeseceseeeceeceecseeesesessesceseeseeeceecaeeeeeeseeeeaeaeaeeeteees 71 Installing a full license on a license Client 00 0 eceeeeseesecescesceeceecseeeeseeseeaesceseesceecnecaeceeeeeeeeaeeaeeaeaeeeeeees 72 Modifying the license flessen tenes se EEA A eta eee aed ie 73 Further information Configuration Of TOPSPIN sscssscccsssscsssssccssesccssceccesssesssscsessesssssssssssessssssses D Configuring TOPSPIN jc e E eats Bis Haniel ea ea 75 If your PC controls a spectrometer cccccesseseesesesseeeeeeseeceseeseeeceecaecaeseeseaesaeseeseeeceecaecaeseeeeeeeaeeaeaeeeeeees 77 If you want to configure a processing PC like your spectrometer PC ccecsssseeeseeseeeceeceteeeeeeneaeees 87 If you want to use a default configuration on a datastation ccceccesceeceesseseeeeeeeseceseeeeeeceecaeseeeeeneaeees 93 If you do not know the configuration of your spectrometer cceccecceeceecseeseeeeseesenceseeseeeceecaeeaeeeeeeaeees 93 If you added a new hardware component to your spectrometer eee cesses ceeeeeee cae teeaeeseteeaeaee 95 Take over the configuration of XWIN NMR or TOPSPIN into TOPSPIN 1 3 0 0 0 0 95 8 2 1 8 2 2 8 3 8 4 8 5 8 6 8 7 8 8 Chapter 9 9 1 9 1 1
164. ibed above for floating licenses How do I know if my license is Floating or Node Locked You can recognize this from the syntax of the license FEATURES in the 1i cense dat file on PC c flexlm bruker licenses license dat on Linux usr local flexlm Bruker licenses license dat If the entry gt HOSTID appears after the encrypted password the license is Node locked and can only be used on the local PC FEATURE TOPSPIN1 bruker_ls 0 0 6 aug 2018 3 9B1EA0113CD53A883974 HOSTID 006008d244fe vendor_info Node locked license for three parallel sessions of TOPSPIN that can be started on the local PC FEATURE TOPSPIN1 bruker_ls 0 0 6 aug 2018 3 9B1EA0113CD53A883974 vendor_info Floating license for three parallel sessions of TOPSPIN that can be start ed on every PC in the local network If I have a Floating license and I have a dual boot PC e g Windows XP and Linux can I use the license on both operating systems Yes the license is based on the physical address of the Ethernet card and not on the operating system Copy the license file License dat to The TOPSPIN license 69 11 12 13 14 15 16 17 18 19 Windows c flexlm Bruker licenses license dat Linux usr local flexlm Bruker licenses license dat How can I determine the hostid of my PC See chapter 7 2 1 How do I install a license full or demo on my PC See chapter 7 2 Does a Demo license require SERV
165. ile Edit View Q sax Q E pe Search gt gt Folders E Favorites Tools Help ay C Bruker TOPSPIN prog bin utilities Test Tools BEE Eile Edit View Favorites Tools Help Q sax amp Bs Search E gt Folders a aaa A cb cmd bsms cmd grad cmd hpcu cmd hppr cmd a UniTool cmd UniTool de rx22 cmd Aare me amp rrstest cmd rstest cmd test ccu cmd testhppr cmd testrx22 cmd 100 Configuration of TOPSPIN 8 4 8 5 amp C Bruker TOPSPIN prog docu english xwinproc pdf File Edit View Favorites Tools Help E Search E Folders EJ Pldocoverview pdF Blinstall_quide_NT pdF Blprocad pdf Tltutor2d pdf B05 _and_Diffusion pdf Blinstall_topspin pd Elprocall pd Bltutorad pdf Bledacb pdf Blintro par Blproctvz pdf Baunix xwindows pdf Bledte pat Blicnmr_30 pdf Elprocix pdf Belwinacqu pdf Eelraq pdF Bllicense pdt procref pdf Twinproc pdf Tjfile pdf Tlicforms pdf T pul pdf T xwin unix pdf Eelfileform pf B netprint pdf BE pulse pdf Blalp pdt Pelnmrct pdf Pelrellet3 0 pdF avance_usrmnl3 pdf Bloradshim pdf T nmrobs pdf Trellet pdf beginner pdf Thel pdf Ploutputt d pdf Bisbmas pdf bsmsmanual pdf T inst_guide2000 pdf T outputzd pdf T shaptool pdf comment pdf Tinst_guide_linux7 3 pdf Flops pat Blsolids pdF c diff _man pdf Blinstall_quide pa Blprocid pdf Btitle par a display pdf T install guide linux pdf Blp
166. ile will not be replaced by executing nmr_save once again So if you like to use this AU program several times you have to move the nmr_backup tar file from the directory lt TOPSPINHOME gt nmr_backup on a backup medium floppy CD and then start the script once again or you have to select the Overwriting existing backup file option The options for nmr_save are Location of backup file absolute path where backup tar file nmr_backup tar will be created save option or can be found restore option Overwriting existing backup file overwrite existing nmr_backup tar file 1 This is the environment variable for the license file in a default installation this is C flexlm Bruker licenses license dat Configuration of TOPSPIN 109 Installation to be saved or restore destination a absolute path to TOPSPIN X WIN NMR installa tion that should be saved b absolute path where backup tar file will be extracted e Overwriting existing backup file overwrite existing nmr_backup tar file e Spectrometer name spect name of the spectrometer configuration e Display default information display the directories and files which will be saved e Do not display any messages do not display any messages e Display additional information display all files which will be saved To take over this information into TOPSPIN please start nmr_save Enter the restore destination e g lt TOPSP INHOME
167. ill not be destroyed during the installation A window appears Check Installation for Spectrometer Click Next In the appearing window Check the required system Click Next In the appearing dialog box Select the spectrometer configuration name gt Click Next In the appearing dialog box Check the items you want to install or accept the default selection Click Next In the appearing dialog box Select the default printer and plotter and the desired paper format Click Next In the appearing window Enter the desired spectrometer frequency acquisi tion mode and pre scan delay or accept the default values Click Next In the appearing information box Check the configuration selection and if it is correct Click Finish While Expinstall will be executed you can configure the next configuration programs Continue with edsolv Check the list of lock solvents click Save if it is correct Click Close Continue with edhead Select the current probe click Define as current probe Click Exit Continue with edprosol Check the parameters for your observed nuclei and if necessary change and or recalculate them Click Save to store to disk gt Click Exit Express Installation and Configuration of TOPSPIN 31 2 3 3 e Continue with edlock Check the lock table values field lock phase change them and click Save if necessary otherwise click Abort e Continue with edscon Check the
168. ime Sh Display Easy Access Buttons Folder Options EfFonts E Game Controllers WP internet Options akeyboard Mouse Network Connections NVIDIA nView Desktop Manager Phone and Modem Options Power Options b Printers and Faxes Regional and Language Options Syscanners and Cameras Sounds and Audio Devices W speech WBsystem eh Taskbar and Start Menu Buser Accounts lt Comments Adjust your computer settings For vision hearing and mobility Installs and troubleshoots hardware Install or remove programs and Windows components Configure administrative settings for your computer Broadcom Advanced Control Suite v 6 03 Set the date time and time zone for your computer Change the appearance of your desktop such as the background screen sa Reprogram Easy Access Buttons Customize the display of files and folders change file associations and make ne Add change and manage fonts on your computer Add remove and configure game controller hardware such as joysticks and ga Configure your Internet display and connection settings Customize your keyboard settings such as the cursor blink rate and the charach Customize your mouse settings such as the button configuration double click si Connects to other computers networks and the Internet NVIDIA nView UI control panel properties Configure your telephone dialing rules and modem settings Configure energy saving settings for your computer
169. in chapter 13 4 3 Installing NFS Server IMPORTANT e before installing NFS you must configure TCP IP see chapter 13 1 e If your installation fails with following error message CreatThisService Createservice Error 997 Your network adapter has no link to the network Establish a link to the net work or install the NWlink IPX SPX NetBIOS Compatible Transport Protocol a Click Start gt Control Panel Network Connections Right click Local Area Connection xxx b Click Properties gt Install gt Protocol Add c The Select Network Protocol menu will appear after some sec onds gt Click NWlink gt OK d After some seconds the Properties menu will reappear Click Close If another version is installed remove it according to chapter 10 2 reboot the com puter and install a newer version If you have the Hummingbird NFS Maestro CD be aware of the following An Evaluation CD will only work for a limited amount of time Please check if your delivery contains another NFS Maestro CD If it does this is probably the full ver sion If it does not you probably ordered an Evaluation CD Please use the full ver sion if you have one Now insert the NFS Maestro CD 4 3 1 Installing NFS 7 1 from the Bruker BioSpin TOPSPIN NT Toolkit CD 1 Log in as a Local Administrator Installing NFS Server 39 2 Insert the CDROM TopsPin NT Toolkit 3 Double click the icon My Computer 4 A win
170. indows XP Clipboard If you put one or more TOPSPIN PLOT EDITOR objects to the clipboard then these are stored in windows metafile format Therefore any windows application which is able to read metafile data from the clipboard can import TOPSPIN PLoT EDITOR objects 214 Plotting and Printing under Windows XP 3 Another way of exporting graphics is the menu option File Export which allows you to save the complete layout in Windows Enhanced Metafile format EMF Most current graphical oriented windows applications can import this format This provides a convenient way of importing TOPSPIN PLOT EDITOR graphics into programs like Word or Powerpoint 4 With the TOPSPIN PLOT EDITOR you can directly send your current plot as Email Just click File Send and TOPSPIN PLOT EDITOR will pop up your default mail client and add the current plot as an EMF attachment Chapter 18 Windows XP commands 18 1 Important Windows XP functions and their shortcuts The following Windows XP functions will be used regularly in this manual They can all be started in different ways by mouse click or by entering a command on the keyboard The following section describes some ways to start important func tions 1 Open the Management Console e My Computer gt right click Manage 2 Working as other User e Right click on many icons choose Run as e Right click in Explorer on many applications gt choose Run as e Type in a command promp
171. ing the same version of Windows XP as the computer that you want to access with the boot floppy 3 Copy the boot ini file from a computer that is running Windows XP Or create a boot ini file and then modify it to match the computer that you are trying to access The following example works for a single partition IDE drive with Windows XP installed in the Windows folder but the exact value in the operating systems section depends on the configuration of the Windows XP computer that you are trying to access boot loader timeout 30 Default multi 0 disk 0 rdisk 0 partition 1 windows operating systems multi 0 disk 0 rdisk 0 partition 1 windows Windows XP If your computer boots from a SCSI hard drive you may need to replace the multi O entry with scsi 0 If you are using scsi x in the boot ini file copy the correct device driver for the SCSI controller in use on the computer to the root of the Setup disk and then rename it ntbootdd sys Change the disk O number to represent the SCSI ID of the hard drive you want to Troubleshooting 191 boot to If you are using multi x in the boot ini file you do not need to do this 4 Start your computer by using the floppy disk and then log on to Windows XP 15 11 Backup of Windows XP and TOPSPIN 15 11 1 The standard backup programs under Windows XP is called ntbackup which can be started by clicking Start All Programs Accessories
172. installation 18 2 Online Help Windows XP online help provides you with two kinds of help Windows XP commands 217 18 2 1 18 2 2 18 2 3 18 2 4 e help on specific topics e help on what you see on your screen Getting Help on specific topics Click Start Help for a list of help topics e Click Index to get help on a predefined list of keywords e Enter the first letter s of a keyword e Click Find to get help on all keywords contained in a data base From the window which displays the help text you can go back to the main Help window by clicking Help Topics The question mark in the upper right corner Several windows e g most windows which are opened from the Control Panel have a question mark in the upper right corner If you click it the cursor will change to an arrow with a question mark Now you can click a button or field you want information about The information will disappear when you click the desk top background Tips on Windows XP This window appears every time you log in unless you unselect Show this screen at startup If you want this window back click Start Run enter welcome click OK Click in the right window to read some tips Windows XP tips and tricks on the Web Innumerous tips and tricks on Windows XP can be found on various Web pages Windows XP commands 18 3 Keyboard shortcuts 18 3 1 General Shortcuts Function or mouse equivalent Keyboard shortcut 1 Start C
173. is receiving TCP IP packets e route maintains and displays routing tables e tracert displays the route packets take to a destination host e net start displays all running services e net use display current network connection e nbtstat a displays all registered NetBIOS names 142 Windows XP Networking 13 4 Accessing remote files and directories 13 4 1 Sharing directories from a Windows XP host Network operations under Windows XP primarily takes place via the Windows XP sharing mechanism For example you can share the data directory c data on nthost_a by taking the following steps 1 Log in as Administrator on nthost_a 2 Open drive C in the Explorer 3 Right click on data 4 A popup window will appear Click Sharing and Security 5 A window Data Properties will appear a Click Share this folder e Accept the default shared name data or enter any other name l e Optionally you can enter a comment b Optionally you can set a user limit and or shared permissions note that the default permissions are Full Control for Everyone c Click OK The directory c data can now be accessed from any Windows XP host in the network e g from nthost_b in the following way 1 Log in on nthost_b as normal user 2 Click the icon My Network Places on the desktop 3 A list of hosts in the network will appear e Double click the icon of nthost_a 4 A window Enter Network Password will appear a In the field Con
174. istry Control Set 197 Release Letter 11 24 48 remote directory 143 remote files 142 remote host 148 159 remote login 148 remote PC 165 remote printing 160 161 163 165 ren 221 resize 229 rm 221 rmdir 221 route 141 Run as 215 RX22 tool 187 S Samba 146 147 163 165 samba53 146 samba6x 146 saving important files AU program nmr_save 105 script xwinnmr save 257 Schedule 172 scratch 123 scratch installation 12 SCSI 191 SCSI BIOS 189 search 199 228 Search program 202 216 225 Security 204 Security Center 236 237 security database 151 security icons 238 security identifiers 151 security updates 246 select default printer 83 92 spectrometer configuration name 30 82 92 the default printer 30 Send 148 SERVER line 69 141 176 Service Pack 35 130 174 187 service pack 246 Service Tools 99 101 187 Services 162 163 171 173 174 176 setfirewall cmd 111 241 Setup program 157 setupNFS 39 SGI 68 147 165 Share Name 159 shared permissions 142 sharing 123 shmrm 178 179 shortcut 215 230 234 shortcut icon 225 226 Software requirements 19 sort 221 spectrometer PC 27 76 spyware 249 250 subnet mask 138 139 SWAT 146 147 165 System Restore 195 System Tools 191 192 220 T tape 191 222 tar 222 224 Task Manager 178 179 216 218 Taskbar 20 216 218 228 Taskbar Properties 229 TCP IP 38 138 139 162 Printing 163 167 Protocol 67 Services 162 Teaching license 66 telne
175. l show you the patchlevel on your system Now check if the Patchlevel on the Bruker BioSpin web server is higher than on your system Download from WWW server A U N Log in on a computer which is connected to the internet Open your web browser Go to http www bruker biospin de Click on NMR gt tech support Software Downloads Linux PC and select the package you want to download Download from ftp server Type ftp ftp bruker de Name ftp Password enter your own full Email address ftp gt cd pub nmr topspin patches topspin lt vers gt LINUX ftp gt bin ftp gt 1s if patches are available you will see a file topspin lt vers gt patchX tar gz where X is the patchlevel ftp gt get topspin lt vers gt patchX tar gz 56 Installing TOPSPIN o ftp gt get topspin lt vers gt patchxX readme ftp gt bye Install the patches according to the file topspin lt vers gt patchX readme You can also get TopSprn patches from the American FTP server ftp bruker com pub nmr mirror bruker de topspin Check our WWW pages for known bugs http www bruker biospin de NMR nmrsoftw passwd bugs index html 6 6 Configuring NFS Server If your PC is controlling a spectrometer you must configure NFS after the installa tion of the DISKLESS package part of TOPSPIN This configuration requires that Hummingbird NFS Server is installed see chapter 4 3 Once this is instal
176. le Temperature Unit Gradient Temperature Unit BCU 20 MAS Pneumatic Control Unit EE E e BACS Bruker Automatic Changer F Barcode Printer lt Cryo Controller HPCU High Power Control Unit 4 Phase Modulator ee Preemphasis Gradient Unit Lockswitch Lockswitch no Configuration of TOPSPIN 79 e A window for additional configuration will appear Additional configuration Security configuration Enable peak power check POWCHkK O Sample changer configuration Should the sample changer control the litt E Delay between SX and next command s 15 BACS options Fast SampleRail mode o a Sag Te e Choose the option if you need this security options Enable peak power check POWCHK yes no e Ifyou have a sample changer please select Should the Sample Changer control the Lift yes no The answer depends on how the air flow is connected normally you will answer yes Delay between SX and next command sec Type in the length of the delay e g 10 gt ENTER e The nuclei table appear Edit nuclei table delete or modify values Note You can also edit this table with the command ednuc i Receptivity rel 18C Frequency rel 1H 1H Hydrogen 5680 0 1 2 600 134 2H Deuterium 0 00821 1 76 773 3H Tritium 1 0E 9 1 2 533 458533 3He Helium 0 00326 1 2 380 996218 eu Lithium 358 1 73 599561 70 Lithium 15400 3 2 194 369508 9Be Beryllium 788 3 2 70 277332 10
177. le the setting as default mail program Do not reboot the computer now Open the Options interface again switch to the 150 Windows XP Networking Send page and select the topics as shown below K Options Signatures Security Connection Maintenance General Read Receipts Send Compose Sending ta Save copy of sent messages in the Sent Items folder Send messages immediately C Automatically put people reply to in my Address Book Automatically complete e mail addresses when composing Include message in reply Reply to messages using the format in which they were sent temati ings select International Settings ail Sending Format ftip OHTML HTML Settings Plain Text Settings News Sending Format 4 OHTML _HIML Settings Plain Text Settings Plain Text OK J Cancel Apply Switch to the Security page and disable Warn me when other applications try to send mail as me then reboot the computer LT 2x General Read Receipts Send Compose Signatures Spelling Security Connection Maintenance Virus Protection 4 Select the Internet Explorer security zone to use Intemet zone Less secure but more functional disable Restricted sites zone More secure IT Warm me when other applications try to send mail as me v Donot allow attachments to be saved or opened that could potentially be a virus Secur
178. led you can mount any Windows directory from any UNIX host in your network see chap ter 13 4 4 Basically this chapter finishes the installation started in chapter 4 3 For this configuration it is very important to turn the Simple File Sharing off 1 Double click My Computer on the desktop 2 Click on Tools select Folder Options 3 Click the View tab and then click to select the Use Simple File Sharing recommended check box to enable Simple File Sharing click to clear this check box to disable this feature 1 Click Start All Programs Accessories Windows Explorer 2 Select the directory lt TOPSPINHOME gt Diskless and click with right mouse button 3 Select in the upcoming window the entry Properties 4 Choose the folder Security 5 You should see Full Control permissions for Everyone Correct this if neces sary in the following way e Click Add e A window Select Users Computers or Groups will pop up e choose the entry Everyone in the list Names Installing TOPSPIN 57 e Click Add e Click OK e Enable in the Permissions column Allow Full Control e Click OK e In most cases especially if your PC controls a spectrometer some error mes sages could appear A question if you really want do change the permissions in all the subdirectories of Diskless may also occur You can click OK in all these windows 6 6 1 Configuring NFS Server 7 1 If you have NFS Server 7 1 proceed as follows 1
179. ll start Unless you already have a license you will get this screen for further details see chapter 7 2 TOPSPIN 1 3 joj x PR Path to exp C Bruker TOPSPIN exp a PR Path to conf C Bruker TOPSPIN conf pz PR waiting for FLEXI1m license No TOPSPIN licence file installed Please install FLEXI1m from the TOPSPIN release CD and insert the password in the file c flexlm Bruker licenses license dat according to the TOPSPIN Installation Guide The FLEX1m host ID of this machine is 661618615001 If your workstation controls the spectrometer you may run the program without password This requires the acquisition server to be ready checking connection to spectrometer lt l may last a minute gt no spectrometer service license available it ENTER to continue m E v 6 9 Compiling AU programs TOPSPIN only needs a compiler for the compilation of AU programs If you do not use AU programs you do not need a compiler TOPSPIN is delivered with the free GNU gcc compiler It is installed automatically during installation of TOPSPIN 62 Installing TOPSPIN 6 10 6 10 1 The usage of the NMR GUIDE NMR GUIDE 4 0 that comes with TOPSPIN 1 3 uses an own web server and the TOP SPIN internal java package Therefore it is not necessary anymore to have these packages installed configured separately Requirements for NMR Guide 4 0 The using of NMR GUIDE 4 0 requires the installation
180. lly download dangerous software called spyware or adware onto your computer When you install SP2 Pop up Blocker is turned on in Internet Explorer and set to the medium setting which means it will block most automatic pop ups The default settings for the pop up blocker allow you to see pop ups that are opened when you click a link or button on a Web site Pop up Blocker will also play a sound and show the Information Bar when a pop up is blocked You can adjust these settings so that Pop up Blocker works the way you want it to How to change Pop up Blocker settings 1 Open the Microsoft Internet Explorer 250 Windows XP Tips and Tricks 20 8 5 2 20 8 5 3 2 On the Tools menu select Pop up Blocker click Pop up Blocker Settings Pop up Blocker Settings Exceptions Pop ups are currently blocked You can allow pop ups from specific Web sites by adding the site to the list below Address of Web site to allow Allowed sites Notifications and Filter Level V Play a sound when a pop up is blocked V Show Information Bar when a pop up is blocked Eilter Level Medium Block mast automatic pop ups v Pop up Blocker FAQ If you want to see pop up windows from a specific Web site type the address or URL of the site in the Address of Web site to allow box and then click Add If you would like to temporarily allow a site to display pop ups click the Informa tion Bar when it
181. lt TOP SPINHOME gt heliumwarn cmd Now the defined PC s will get an error message if the actual helium level is the same or below the entry in in the file lt TOPSPINHOME gt heliumlimit The notifications were sends only once but it will be activated again if the helium level is against higher than the limit Note that this script is only an example if you would like to add more PC s in the notification list you had to add the respective addresses if you like to have less addresses you have to delete the respective entries Appendix 257 21 3 Helium measurement under Windows XP Service Pack 1 On Windows XP SP1 the nightly Heliumlog does not work The reason is a bug in Microsoft Windows XP Service Pack 1 which lets the task scheduler execute only those jobs which run under the account of the user who is currently logged on See the article in the Microsoft knowledge base http support microsoft com default aspx scid kb en us 812400 If there is always the same user logged on all the time then workaround 1 can beapplied Otherwise workaround 2 should be done 1 Workaround 1 The helium log runs under the local system account Change this to the user whois always logged on a Click on Start Settings Control Panel Task Scheduler b Click twotimes on the task AT1 2 which runs at 3 00 AM c Specify the user name besides Run as and set the password accordingly the user must ha
182. m FAT to NTFS without loss of data start a Command Prompt from the command menus Then type the following command on the com mand line and press return convert lt drive gt fs ntfs The system will ask you to schedule the actual conversion for the next boot up and 136 Configuring Windows XP 12 1 3 you will reply with y as shown below Command Prompt Convert cannot gain ex so it cannot convert it now Would you like to schedule it to be converted the next time the rts Y ND y will take place automatically the next time the on rt you do NOT need to re boot now and wait the 2 3 minutes for it to complete Just move on with the operations explained in the next chapter The conversion to NTFS will automatically be done during the next re boot Cutting down the re boot time 1 Click Start Control Panel double click on System A window System Properties will appear 2 Click Advanced Startup and Recovery Startup and Recovery System startup Default operating system Microsoft Windows XP Professional Fastdetect Z Time to display list of operating systems 30 seconds Time to display recovery options when needed 30 seconds To edit the startup options file manually click Edit System Failure Z Write an event to the system log Z Send an administrative alert 7 Automatically restart Write debugging inform
183. ms Accessories gt System Tools gt Backup a window backup will appear 2 Click Backup all available drives will appear 3 Choose the directory you want to backup Click the check box left of the direc tory to select the entire path for backup a tick will appear in the check box Choose the Backup media or file Click Start Backup A window Backup Job Information will open Click Start Backup Naw ses 15 11 3 Frequent backup of specific directories If you commonly use Ntbackup to back up a single folder you might want to cre ate a simple batch file Suppose you would like to make a daily backup of a direc tory 1 Choose the path of the file as describe above 2 Click Start Backup 2 Backup Utility Untitled DAR Job Edit View Tools Help Welcome Backup Restore and Manage Media Schedule Jobs z Click to select the check box for any drive folder or file that you want to back up 2 0 Desktop Name Comment E Y My Computer aO 3 Floppy A a A Local Disk C w 0 2 DYD Drive D b Bruker NMR_Sui o System State a A My Documents e 0 My Network Places 3 My Computer 4 My Documents 3 My Network Places Ei Backup destination Backup options j Fa Normal backup Summary log Some file types excluded grat Beckun Backup media or file name amp Backup bkf Browse Troubleshooting 193 3 A window Backup Job Information will op
184. n Spectrometer Parameters BLKTR us DE1 us DERX ps DEADC ps DEPA ps 2 00 3 00 4 00 2 00 Preset time for amplifier blanking Time between pulse and frequency switching Time between pulse and receiver blanking Time between pulse and ADC blanking Time between pulse and preamplifier blanking undo ok _ cance Check the spectrometer constants change it and click Save if necessary other wise click Cancel After cf expinstall have finished insert a sample and make sure that you can lock on the lock solvent Type ii and read with rpar a standard proton parameter file type getprosol and rga and collect a normal IH NMR spec trum Configuration of TOPSPIN 87 8 1 2 If you want to configure a processing PC like your spectrometer PC If the PC does not control a spectrometer but is used in connection with a particu lar spectrometer e g for setting up experiments processing and or plotting you should configure it as that spectrometer see FAQ 210 on www bruker biospin de for example the spectrometer is a AV300 configured with the name av300 Do the following a Copy the configuration directory lt TOPSPINHOME gt conf instr av300 from the spectrometer AV300 to the workstation b On the workstation paste this av300 directory to lt TOPSPIN HOME gt conf instr most likely this is the path c Bruker TopSpin conf instr You can use
185. n To do this run tel net connect to spect login as root type etc init 5 You can activate the Win dows Start menu with Ctrl Esc If the PC is not yet connected to a spectrometer or if the CCU is not booted l you can immediately gt Click OK If your PC is currently connected to a spectrometer and the CCU is booted a Press the keys CTRL ESC to open the Start menu b Click Start All Programs Accessories gt Command Prompt c Enter rsh spect 1 root etc init 5 this will shut down the CCU d Enter exit e Close the window Information by clicking OK Note The CCU is now either down or switched off and should be turned on again at the end of this procedure 1 Note that during a first time installation of the TOPSPIN the CCU can not be booted Express Installation and Configuration of TOPSPIN 9 A window Question will appear if Windows XP Service Pack 2 is installed and enabled on your system If you click Yes on the installation configure the firewall for you 10 A window Select Components will appear You can either import no spec trometer configuration or browse for a spectrometer configuration or select one of the configurations you get offered within this window e Click Next 11 A window Set NMR Super User will appear a Do one of the following e Accept the default NMR Superuser Administrator or e Enter a special user for this purpose e g named nmrsu or e Enter any
186. n e g C to the floppy Special note the boot partition is the first par tition which is read by bios This is normally but not necessary the partition c If you installed Windows XP on a different partition e g d the following files are anyhow on c ntldr ntdetect com boot ini If you are using SCSI disks with the SCSI BIOS disabled then also copy the file ntbootdd sys a Create a Boot Floppy Disk with the command prompt Copy these files with command prompt is easier to describe than with the Win dows explorer because these are critical system files that are normally not shown in the explorer window 190 Troubleshooting Click Start All Programs Accessories Command Prompt Type c Type dir ah you should see the necessary files Type xcopy h boot ini a Type xcopy h ntldr a Type xcopy h ntdetect com a I An eB wD If necessary see above type xcopy h ntbootdd sys a Now you can boot your PC from the Boot floppy Be aware that this will only work if Windows XP is still on the hard disk If Windows XP is not available or corrupt it must be repaired again from CDROM or from floppy b Create a Boot Floppy Disk with the Windows Explorer 1 Format a floppy disk by using the Windows XP format utility 2 Copy the ntldr and the ntdetect com files from the I386 folder on the Windows XP Setup CD ROM Windows XP Setup floppy disk or from a computer that is runn
187. n B ReadDir Oooo o0oo0o000000000000000 oooooooo0oo0o0oo00000000000 2000000000000000 00000000000 lt Config Retesh f e Click Reload Exports e Click OK 5 In the window NF S Maestro Server Configuration Click OK 6 If a message about the owner and permissions of spect appears e Click Yes e A window Permissions will appear e Select User Administrator and enable Read Write and Execute per missions for this user e Select Group diskless_group_root and enable Read Write and Execute permissions for this group e Be sure that also other has Read Write and Execute permissions e Click Recursive Click OK 7 Close the window Control Panel by clicking the X button 6 7 Adding a user to the group NmrUser Every user who wants to run TOPSPIN must be member of the group NmrUser Adding users to this group is described in chapter 9 1 3 Installing TOPSPIN 61 6 8 Check if the TOPSPIN installation is correct Double click the TOPSPIN icon TOPSPIN If you have an valid license you will get this screen a TOPSPIN 1 3 iof x aiting for CPR server E PR Path to prog C Bruker TOPSPIN prog PR Path to exp C Bruker TOPSPIN exp PR Path to conf C Bruker TOPSPIN conf Your FLEX1m license is valid until 21 feb 2614 erver is up Starting JUM PR waiting for FLEX1m license s and Topspin wi
188. nctional state Logon problems Last Known Good Changes in the Registry must be made with extreme care any mistakes can make the system unusable Occasionally software installations make erroneous Registry entries If your PC does not boot any more you can try to go back to the so called Troubleshooting 197 15 17 15 17 1 Last Known Good the last Registry Control Set with which the system success fully booted Please proceed as follows 1 Reboot and Interrupt the boot process hitting F8 when you see For troubleshooting and advanced startup of Windows XP press F8 2 Use the arrow down up keys to select the entry Last Known Good then press ENTER and follow the instructions Warning when you reboot the computer after you installed new software wait until all disk activity has finished before you log on As soon as you log on the current control set becomes the Last Known Good and the Original Control Set before software installation is gone Boot disks for Windows XP if the CDROM is not bootable If your computer does support booting from a CD ROM or if network based installation is available please use those installations methods instead The Windows XP startup disk allows computers without a bootable CD ROM to perform a new installation of the operating system Setup boot disks for Windows XP are available only by download from Microsoft If you want to download the setup disks the download contains only o
189. nd updates for my computer and install them e g Every day at 3 00 AM Automatic Download updates for me but let me choose when to install them recommended by Bruker BioSpin for PCs which controls spectrome ter Automatic Updates Automatic Updates Windows can regularly check for important updates and install them For you Turning on Automatic Updates may automatically update Windows Update software first before any other updates How does Automatic Updates work Automatic recommended Automatically download recommended updates for my computer and install them Bownload updates For me but let me choose when to i O Notify me but don t automatically download or install them O Iurn off Automatic Updates Your computer will be more vulnerable unless you install updates regularly Install updates from the Windows Update Web site wh 248 Windows XP Tips and Tricks e The Updates are downloaded behind the scenes whenever you are connected to the Internet The downloading process does not interfere with other downloads or interrupt you while you work If you disconnect from the Internet before updates are fully downloaded the download process will continue the next time you connect to the Internet e Automatic Notify me but do not automatically download or install them e Turn off Automatic Updates Your computer will be more vulnerable unless you install updates regularl
190. ne large program file When you execute the downloaded file it extracts the files There are six Windows XP Setup boot floppy disks which contain the files and drivers that are required to access the CD ROM drive and begin the setup process Note You will need to use the Windows XP CD ROM Downloading the Setup Disk Program File To download the setup boot disks please go to the Microsoft Web sites and down load e Windows XP Professional Original Version http www microsoft com downloads release asp ReleaseID 3329 1 e Windows XP Professional Service Pack 1 SP1 Note Windows XP CD ROMs that include SP1 have the text Includes Service Pack 1 on the CD ROM http www microsoft com downloads release asp releaseid 428 19 198 Troubleshooting 15 17 2 Creating the Setup Disks Note The program creates the setup boot disks for Microsoft Windows XP To cre ate these disks you need to provide six blank formatted high density disks 1 Open the Windows Explorer and change to directory with the downloaded program file Double click the program file e g WinXP_EN_PRO_BF EXE for Windows XP Professional Original Version 3 A info window with the License Agreement appears Click Yes to confirm 4 A command prompt appears This program creates the Setup boot disks for Microsoft Windows XP To create these disks you need to provide 6 blank formatted high density disks Please specify the flop
191. necessary Select the correct time zone for your location e g 130 Installing and configuring Windows XP Professional GMT GMT GMT 01 00 for Germany 05 00 for the US east coast 08 00 for the US west coast e click NEXT h Networking Settings wait e Enable Typical Settings gt NEXT i Workgroup or Computer Domain e To get this information contact your system administrator if you are not sure at the moment please choose No this computer is not on a network and enter the workgroup name NEXT please wait j The text Performing Final Tasks appears e please wait k The text Completing the Windows XP Setup Wizard appears e click FINISH the system will reboot D Eject the CD ROM 12 A window Network Identification will appear NEXT a Users of this computer who can log on to this computer e Enable Users must enter a user name click NEXT FINISH You can log in as Administrator using the password which you have entered during the installation 11 2 Installing Windows XP Service Pack PCs from Bruker Biospin are delivered with the latest Service Pack available at the time of delivery Under Windows XP it is not necessary to reinstall the service pack after e g configuring the network The Service Pack can be downloaded from www microsoft com or www microsoft de For installation just follow the given instructions on th
192. nect As enter the name of any user on nthost_a b In the field Password enter the password for this user A list of shared partitions directories will appear 1 This is the name under which the directory can be accessed from other hosts Windows XP Networking 143 The network password is only requested for the first connection Now you can e Access the remote directory as if it were local e Copy the remote directory or any sub directory or file in it by dragging the corresponding icon into any target directory window assuming you have the write permission in the target directory Note that the latter is only useful if the remote directory is not permanently shared 13 4 2 Enabling and disabling Simple File Sharing o gt A PC under Windows XP Professional that is joined to a workgroup has the Sim ple File Sharing enabled by default The Simple File Sharing is located in the folder s properties When you set the Simple File Sharing the share and the file per missions are configured A Windows XP Professional PC that is joined to a domain use only the classic file sharing and security interface If you disable Simple File Sharing the Shared Documents feature is not turned off You have more control over the permissions to individual users if you disable the Simple File Sharing However you must have advanced knowledge of NTFS and share permissions to keep your folders and files secure It is recommended t
193. news and bug fixes of the current version b Close the Release Letter by clicking the X button in the upper right corner e Select the destination directory for TOPSPIN a Accept the default destination b or browse to another destination e Enter an installation path which does not exists so far e g C Bruker topspin1 3 e or browse to another existing installation path 1 Please note that there is also a file called install on the DVD This file is the installation script for Linux under Windows you have to click on the file install cmd Express Installation and Configuration of TOPSPIN 25 e Click OK e Click Next 7 A window Select the setup type will appear a Select the setup type Do one of the following e Select Data Processing Acquisition and Automation if you want to use TOPSPIN for spectrometer control This will install Diskless automati cally e Select Data Processing if you want to use TOPSPIN for data processing e Customized setup allows components selection if you want to install selected programs only A window Product selection will appear Select the packages which you want to install note that DISKLESS is only required if your PC controls a spectrometer or you want to configure it like this b Click Next 8 If Data Processing Acquisition and Automation were selected in step 8 a win dow Information will appear If the spectrometer CCU is booted please shut it dow
194. ng the computer s drives Double click a drive e g C A window showing the contents of the top level directory on C will appear Double click any icon Depending on the file type one of the following will hap pen A directory Folder will be opened and its contents will be shown File and directory handling 201 16 1 3 e An executable program will be started e A text file will be opened using an editor by default notepad e For an unknown file type a window Open with will appear showing a list of available programs If you click a directory icon two things might happen e the directory contents appears in a new window e the directory contents replaces the contents of the current window You can configure this feature according to your preference a Double click the icon My Computer on the desktop b Click Tools Options c A window Options will appear e Click General and select one of the two options of Browse Folders The disadvantages of a separate window for each directory is that your screen is soon filled up with windows However a quick way of closing an entire hierarchy of windows is the key combination ALT SHIFT F4 If you want the explorer layout as a two paned window select View Explorer Bar and enable Folders You are not able to store this configuration this might be the biggest difference between the Explorer and My Computer Explorer and My Computer can hide file e
195. notifies you that a pop up has been blocked click Temporar ily Allow Pop ups How to block pop ups when you click a link or button on a Web site 1 Open Internet Explorer 2 On the Tools menu select Pop up Blocker click Pop up Blocker Settings 3 Select the High setting in the box near the bottom of the dialog box Note If you want to see pop ups that are blocked when you have this setting turned on hold down the CTRL key while the window opens To turn on Pop up Blocker 1 On the Tools menu select Pop up Blocker 2 Click Turn on Pop up Blocker If you get similar pop up windows no matter what sites you visit or even if you are not on the Web at all you could have spyware adware or other software on your computer that s launching pop ups To stop these pop ups you will have to iden Windows XP Tips and Tricks 251 20 9 20 9 1 tify the software then remove it or change its settings to stop it from launching pop ups Pop up Blocker will not block pop up windows that you open deliberately by clicking a link For example if you were on a travel reservation site and you clicked a link to open a pop up window containing your confirmation details this pop up window would not be blocked because you opened it intentionally The Pop up Blocker will not block some pop ups with certain types of animated con tent or pop ups from Web sites that are in two Web content zones Local intranet or Trusted sites Internet
196. ntrol Control Control 1 Level 1 My Documents Private Only the owner of the file or folder has the permission to read and write to the file or folder All subfolders that are contained within a folder that is marked as private remain private unless you change the parent folder permissions The op tion to make a folder private is only available to a user account in its own My Documents folder Windows XP Networking 145 To Configure a folder and all of the files in it to Level 1 a Right click the folder click Sharing and Security b Click to select the Make this Folder Private check box gt click OK 2 Level 2 Default My Documents Default Only the owner of the file folder and a local administrator have the permission to read and write to the file folder This is the default setting for all of the folders and files in each user s My Documents folder To configure a folder and all of the files in it to Level 2 a Right click the folder click Sharing and Security b Ensure that both the Make this Folder Private and the Share this folder on the network check boxes are cleared click OK 3 Level 3 Files in Shared Documents Available to Local Users Files are shared with users who log on to the computer locally Local adminis trators and Power Users can read write and delete the files in the Shared Doc uments folder Restricted Users can only read the files in this folder In order to allow Remote Users to
197. o no Read Permissions yes yes yes yes yes yes Change Permissions yes no no no no no Take Ownership yes no no no no no Synchronize yes yes yes yes yes yes folder permission file permissions 204 File and directory handling 16 2 2 Changing file permissions 16 2 3 The permissions of a single file can be changed as follows 1 Find the file in the Explorer see chapter 16 1 1 Right click the file icon 2 3 Click Properties 4 A window Properties will appear e Click Security Highlight the user group for whom that you want to change the permissions Click Allow or Deny to set the permissions If you want to add a new user group click on Add O N A wm A window Select Users Computers or Groups will appear a Select the one you are looking for Add gt OK 9 Select the permissions you want to give to the new name If you want to select special permissions do step 1 5 then click Advanced 1 A window Access Control Settings for lt filename gt will appear e Click Permissions gt View Edit 2 A window Permission Entry for lt filename gt will appear e Click Allow or Deny of the permissions you want OK gt OK OK Changing directory permissions The permissions of a directory can be changed in the same way as file permissions In the window Permissions Entry for lt directoryname gt you can select in the Field Apply onto the effects of changing the permis
198. of TOPSPIN 1 3 Also be sure that the following components are installed 1 Web browser Microsoft Internet Explorer 2 PDF viewer NMR GUIDE offers among other things a lot of PDF documents To display these documents it is necessary to install the acrobat reader For an installation description see chapter 5 1 3 NMR GUIDE license contact license bruker de for a three month demo license or order a official license from your local Bruker representative Note that the NMR GUIDE license is already part of a full or demo TopSprn 1 3 license The Microsoft Internet Explorer is an official part of the operating system Micro soft Windows XP The WWW browser gets documents from the locally installed WWW server The client server communication is established over a network socket connection but the communication partners only use the localhost TCP IP host identifier These pages are shown in the right hand side window of the browser The WWW browser also gets dynamically created pages from the localhost These workstation specific pages are coming from a gserver This is a platform independ ent Java web server written by Bruker BioSpin and acts as a daemon running on the locally installed JAVA virtual machine The gserver is included in the NMR Guide amp Encyclopedia package The table of contents is generated dynamically and displayed in the left hand side window of the browser TOPSPIN commands can be invoked from the WWW browser This proc
199. ol edit prosol parameters DER Eile Hel Edit prosol parameters for Solvent s All Probe s name 5 mm TBI 1H BB 31P Z GRD Z1234 0001 33 Nucleus 1H _ lie lie lie Here you can enter two comment lines Please select the logical channel Ors Ora O Global Standard parameters for 1H on channel F1 routed to amplifier A2 Standard parameters for 1H on channel F2 routed to amplifier A2 no cota no cortab Description pulse usec power level Description pulse usec power level 90 deg transmitter P90 ag 2 90 deg decoupler P90 89 2 cpd PCPOP 80 17 07 cal cpa PCPOP 80 17 07 cae mixtime s pulse usec power level biley second cpd PLOPD2 19 tocsy spin lock PTOC 0 06 25 6 97 calc mixtime s pulse usec power level roesy spin lock PROE 02 100 19 01 cai tocsy spin lock PTOC 0 06 o 120 calc fisld Hel power level roesy spin lock PROE 02 o 120 cac cw irradiation PLOW 50 52 99 calc field H2 power level cw irradiation PLEW 50 52 99 calc NOE diff irradiation PLNOE 120 calc homo decoupling PLHD 120 calc band homo decoupling PLHC 120 calc O Standard soft pulses Save l Copy to probe l Copy to solvent l Print screen Exit Check the parameters for your favorite nuclei change them and calculate them if necessary gt Click Save to store to disk Click Exit 86 Configuration of TOPSPIN e Continue with edlock Edlo
200. on Search Options will show you some more parameters like Date or Size which you can added in your search options The Windows Command Prompt A Windows XP Command Prompt shell can be opened in three ways e Click Start All Programs Accessories Command Prompt e Click Start Run enter cmd click OK e Press CTRL ESC gt r enter cmd click OK A window will appear where you can enter Windows commands like cd dir type copy ren move notepad print ipconfig cacls telnet ftpetc The default Prompt is C gt when the computer was booted from this drive File and directory permissions Windows XP supports file level security on NTFS but not on FAT filesystems Note that TOPSPIN can only be installed on NTFS and as such it supports file level File and directory handling 203 security 16 2 1 Permissions and Types of Access Folders and files can have the following permissions Full Read amp List Folder Permission Control Modify Execute Contents Read Write Traverse Folder ing s es es no no Execute File y y y y hist Folders es es es es es no Read Data y y y y y Read Attributes yes yes yes yes yes no Poet es es es es es no Attributes y y y y y Create Files s es on no no es Write Data y y y Append Data yes yes no no no yes Write Attributes yes yes no no no yes Waits Eehdcd es es no no no es Attributes y y y Delete Subfolders da Ho no no no no and Files y Delete yes yes no no n
201. on the UNIX host e 1p is the port where the printer is physically connected 4 Create the spooling directory which is specified in etc printcap e g a mkdir p usr spool lpd laserjet b chown daemon daemon usr spool lpd laserjet c chmod 770 usr spool lpd laserjet 5 Edit the file etc hosts 1pd and enter two lines like viola viola netx applic com where viola is the hostname and netx applic com the domainname of the remote PC 14 5 Remote printing from a PC to a UNIX host with Samba This chapter describes how you can install a printer on a Windows XP computer when the printer is physically connected to a UNIX host e g an SGI The method described here involves the installation of Samba which also allows you to access directories on the UNIX host from the Windows XP host Alternatively you can install the printer without using Samba as described in chapter 14 4 14 5 1 Configuring the UNIX host to which the printer is physically connected 1 Get the Samba package from the Internet and install it as described in chapter 13 4 3 2 In the SWAT see chapter 13 4 3 choose the printer according to your prefer ence All Printer that are defined in the printcap occurs in the pop up menu 3 Reboot the UNIX workstation 14 5 2 Configuring the PC from which you want to print 1 Click Start Printers and Faxes 2 A window Printers will appear e Double click the icon Add Printer 166 Installing a Printer
202. ooting from floppy eeeeeteeeees 188 15 10 2 Floppy boots Operating System from hard disk 189 15 11 Backup of Windows XP and TOPSPIN 00 0 eceeceeceesseseecseeseecaeceseesecsseeseeeseeseeeeees 191 15 11 1 Complete Backup of the PC cisetesssessvatvanes oa svevandinuaesesithania on sun E E AN A 191 15 112 Backup Of specific diteCtOrles s s sesscecesessssescesecustavesccdenaeveseescetuevssasanieesesvecseseceueveecavececteipstedeeteessesseacgsees 192 15 11 3 Frequent backup of specific directories eee ee ceeecescaeeeseeecaecesaeessesessesseesesseseeecaeesenecaeaeaes 192 15 12 Security check of a Windows XP system o0 eee ceeseeseeseececescesecsseeecneceseeeenes 193 15 13 Restore the Operating System to a Previous State in Windows XP uw 194 15 13 1 Using System Restore to Restore Windows XP ceece cece cee ceeeeeeeteeseseeseeseeneeas 194 15 132 TroubleshOOtin grii iei iiare iii 195 15 14 Turn on and turn off System Restore in Windows XP 195 15 14 1 Turn on System Restore 0 cee ceceeeeeeeneeeteeeeeseeaeeeeseeeeeeaeeneeee a195 15 14 2 T m off System Restore nenir E A EE AE E E a ttod aiteee 196 15 15 Start the system restore tool from a command prompt in Windows XP 196 15 16 Logon problems Last Known Good 0 0 ce ceeeececeseesceeseeeceseeeeeeaeeeeesaeeaesseeaees 196 15 17 Boot disks for Windows XP if the CDROM is not bootable 197 15 17 1 Downloading the Setup Disk Prog
203. operating system e NMR SIM Program for numerical simulation of NMR experiments e NMR GUIDE web browser based teaching and training program e NMR Data spectroscopic example data e AURELIA AMIX Viewer Viewer of 2D 3D 4D NMR data requires separate license e NMR GLP Program for Good Laboratory Practice tests re quires separate license b Click Next 9 If the Data Processing Acquisition and Automation was selected in step 8 a window Information will appear Information If the spectrometer CCU is booted please shut it down To do this run telnet connect to spect login as root type fetc init 5 You can activate the Windows Start menu with Ctrl Esc If the PC is not yet connected to a spectrometer or if the CCU is not booted you can promptly e Click OK If your PC is currently connected to a spectrometer and the CCU is booted a Press the keys CTRL ESC to open the Start menu b Click Start All Programs Accessories Command Prompt c Enter rsh spect 1 root etc init 5 this will shut down the CCU 1 Note that during a first time installation of the TOPSPIN the CCU can not be booted 52 Installing TOPSPIN d Enter exit e Close the window Information by clicking OK Note The CCU is now either down or switched off and should be turned on again at the end of this procedure 10 A window Question will appear if Windows XP Service Pack 2 is installed and enabled on
204. other user Under Windows the username must be the name of an existing user For fur ther details check chapter 6 2 b Click Next 12 A window Password Input will appear 4 for more details about this feature see chapter 6 2 a Do one of the following e Type in the NMR ADMINISTRATION PASSWORD e Re enter the NUR ADMINISTRATION PASSWORD b Click Next The installation of TOPSPIN will start now 13 A window Setup is complete will appear e You will be asked if you want to restart the computer a Click Yes I want to restart my computer now 1 The firewall must be configured to enable spectrometer access 2 If you click on No an Administrator can do it any time later running lt fopspin home gt prog bin Utilities Miscellaneous setfirewal cmd see chapter 8 8 3 The installation process will offer all configurations which are available in the TOPSPIN XWIN NMR installation that are defined in the registry 4 Certain commands like cf and expinsta11 ask for the NUR ADMINISTRATION PASS WORD Express Installation and Configuration of TOPSPIN 27 b Click Finish to reboot the computer 14 After the PC has booted up press the reset button on the CCU or turn it on with the key if it was switched off Don t forget to execute cf and expinstall if necessary see chapter 2 3 The following information is for the Customized setup e It is strongly recommended to accept the default path for the flexLM ins
205. oubleshooting 15 5 5 the window Location Information Type in your ZIP code and click OK 3 A window Phone And Modem Options will appear gt OK Then establish a new connection 4 A window Connection Description will appear a In the Field Icon click any icon you decide for b In the field Name enter CCU c Click OK 5 A window Connect to will appear a Click in the field Connect using select COM2 b Click OK 6 A window COM2 Properties will appear a Click in the field Bits per second and select 9600 b Click in the field Flow Control and select Xon Xoff the other settings remain unchanged Data bits 8 Parity None Stop bits 1 c Click OK the output of the CCU will appear in the window CCU Hyper Terminal 7 Click File Save 8 Click File Exit 9 Answer the question Are your sure you want to disconnect now with Yes Usage of Hyper Terminal 1 Click Start All Programs Accessories Hyperterminal CCU ht 2 A window CCU Hyper terminal will appear in which you see the output of the CCU If the CCU is booted you will see a login prompt and you can log in as root If the CCU is not booted you can push the reset button on the CCU and view the boot process The boot process is shown below The messages Fast ethernet only occur for CCU 9 and indicate whether you have a 10 MBit s or 100 MBit s ethernet connection Note that a UNIX pathname for the DISK
206. py drive to copy the images to 5 Enter the letter for the floppy disk drive typically A 6 After you typed in the floppy disk drive letter you see the following message Insert one of these disks into drive letter This disk will become the Windows XP Setup Boot Disk Press any key when you are ready The file starts extracting and copying the files Continue inserting the blank disks as you are prompted to do so until all six disks are created If the process is interrupted you must run the downloaded program file again to create all six disks Label each disk appropriately with the number that is specified by the pro gram 15 17 3 Using the Setup Disks You have created all six disks 1 Insert the first disk in the floppy disk drive restart the computer Note The PC must be configured to boot from the floppy disk drive 2 The setup process starts 3 Insert the other floppy disks as you are prompted to do so Note You will need to use the Windows XP CD ROM to finish Setup 16 1 16 1 1 Chapter 16 File and directory handling Viewing and opening files directories Windows XP offers three different ways of finding files or directories folders If you want to find a specific file and you have no idea where it resides you can use the Search program If you want to get an overview over the directory tree s you can use Windows Explorer or My Computer Windows Explorer The Explorer provid
207. r 20 Windows XP Tips and Tricks 20 1 Creating shortcut icons on the desktop 20 1 1 Creating shortcut icons to programs For frequently used programs it is convenient to create a shortcut icon on the desktop For example a shortcut to the editor Notepad can be created as follows 1 Right click the Start button 2 Click Open 3 A window Start Menu will appear a Click All Programs Click Accessories b Press and hold the right mouse button on the Notepad icon c Drag the Notepad icon on the desktop then release the right mouse button d Click Create Shortcut s Here Alternatively you can click Start Search to find the executable file Note pad exe and perform step c to d see also chapter 20 1 2 225 226 Windows XP Tips and Tricks 20 1 2 Creating shortcut icons to documents files For frequently used files it is convenient to create a shortcut icon on the desktop If Windows XP recognizes the extension of the file the corresponding program to read the file will be started e g Word for a doc file For a text file without exten sion you can specify the program to be used e g notepad in the shortcut proper ties As an example we will use the TOPSPIN history file 1 Find the directory lt var gt prog curdir lt user gt in the Explorer e g C Bruker TOPSPIN prog curdir guest 2 Press and hold the right mouse button on the icon history 3 Drag the history icon on the desktop then release th
208. r computer is protected by another firewall Windows Firewall settings If you are running Windows XP SP2 the Windows Firewall is turned on by default This means that most programs will not be allowed to accept unsolicited commu nications from the Internet unless you choose to list those programs as exceptions There are two programs that by default are already added to the exceptions list Files and Settings Transfer Wizard and File and Printer Sharing Because firewalls restrict communication between your computer and the Internet you might need to adjust settings for some other programs that prefer an open con nection You can make an exception for these programs so that they can communi cate through the Windows Firewall Each time you allow an exception for a program to communicate through Win dows Firewall your computer is made more vulnerable If you have lots of excep tions and open ports your computer can become more vulnerable To help decrease your security risk e Only allow an exception when you really need it e Never allow an exception for a program that you don t recognize e Remove an exception when you no longer need it Windows XP Tips and Tricks 241 Sometimes you might want someone to be able to connect to your computer despite the risk such as when you expect to receive a file sent through an instant messaging program You can use the Bruker BioSpin set firewall cmd script to configure the Windows fir
209. r operating system dependent are listed below Components that are not listed here do not need an upgrade for TOP SPIN 1 3 Please note that AQS and AQX AQR components cannot be interchanged If your Avance spectrometer does not meet the above specifications please get in touch with your local Bruker representative for your upgrade options 1 3 4 Avance systems with AQS rack e CCU Windows independent of the TOPSPIN Version CCU required minimum EC level cue Hs 03 requires no specific EC level l E 00 recommended 01 1 Note that CCU 11 also exists for AQX AQR spectrometers LINUX independent of the TOPSPIN Version CCU required minimum EC level CCU 10 06 part H9503 EC level 00 to 19 CCU 10 part H9503 EC level gt 19 ccu 11 part H9503V1 00 recommended 01 1 Note that CCU 11 also exists for AQX AQR spectrometers Introduction 15 e FCU3 FCU 3 required minimum EC level part H5822 04 64k memory part H9598 02 256k memory e RCU RCU required minimum EC level RCU 1 2 part Z003678 requires no specific EC level RCU 1 3 part Z022488 requires no specific EC level Note RCUs with EC level 06 of the AQX AQR rack can also be used in an AQS rack Multiple Receiver RCU required minimum EC level RCU 1 2 part Z052488 requires no specific EC le
210. r window fm DMX400WB quadcourse OL x File Edit View Help chabasite 27al Ga203 71Ga kappa 27al KBr i E NaPN 23Na RbNO3 MQ silimanite 27 test yag 27al A A A A A make_pass_n Qpass QpassO_n Qpass1_n qpass2 dm p i al a al a al Qpass2_n Qpass3_n Qpass4_n steopt titPASS p A xfshear 21 object s 48 2KB If you cannot get access to a share that you see and you are confident that the password is correct please see chapters 20 5 3 and 20 5 4 To copy files you can drag and drop them from a content display and deal with files and directories as if they where local e g you can drag and drop acqu files into a Wordpad icon on you desktop Technically the job of making a connection is completed here 20 5 2 Mapping network shares into local drives For some applications including TOPSPIN you will need however to map the net work share to a virtual disk drive That is You create a look alike of a local drive like say U that points to the share you assign to it Doing this is very simple Windows XP Tips and Tricks 233 Step 1 click with the right mouse button on the share you want to map to a disk drive C Dmx400wb olx Fie Edit View Help Map Network Drive Assigns a dris Create Shortcut Select Map Network Drive as shown Properties Step 2 Select an appropriate drive letter here U and decide whether or not to
211. rUser in a domain PC 0 Adding a global group to the local group NmrUser in a domain PC Partl Windows XP Installation and Configuration Chapter 10 10 1 10 1 1 10 1 2 10 2 10 3 Chapter 11 11 1 11 2 11 3 Chapter 12 12 1 12 1 1 12 12 121 3 Chapter 13 Installation procedure e seoesseoessesesocsescessseeesoessoossscceceseesoosssoosesecceseeesossssossssese 123 Do s and Don ts under Windows XP cccsscccsssseecesceceesseecsesececeeeecesececnaeeeneeaees 123 Do not re install Windows XP Use Windows sharing rather than FTP cscsssssssssssseeccecescecceeesseeseceseesesaeasenceacaesseensscesceaeeneenenceaees 123 Removing EXISTING SOFTWATE phear nirea orn rr AERE E ana ENA iE An aa o Tiit 124 Autorun of installation programs s esesssessersssseeeesreetstesrerreertsseeteseessresesresreneses 125 Installing and configuring Windows XP Professional sscccsssscssssceeese 127 Scratch install of Windows XP o e eceecccssececssseceesececeeececeececesaeceseaaeseseeeeessteeenenes 128 Installing Windows XP Service Pack eee ceesecsecssececeseeeceeceeceeeeeeseeeeneeeaes 130 Installing the Graphics driver Configuring Windows XP Conversion of disk format from FAT to NTFS Check the Disk Partitioning cccecceceeeeseeeeceseeeeeeeseeaeeeseeeeecaeens Converting partitions from FAT to NTFS Cutting down the re boot time Windows XP Networking sscssccscss
212. ram you must restart Windows or your computer C No will restart my computer later Save your work and remove any floppies from their drives Be patient and do not click twice while shutdown operations take place since this window does not disappear immediately You will be asked if you want to restart the computer a Click Yes I want to restart my computer now b Click Finish to reboot the computer 15 After the PC has booted up press the reset button on the CCU or turn it on with the key if it was switched off Don t forget to execute cf and expinstall The following information is for the Customized setup e It is strongly recommended to accept the default path for the flexLM installa tion C flexlm If you choose a user defined path it may cause some problems with other applications using the FlexLM eo ae 1 Certain commands like cf and expinsta11 ask for the NMR ADMINISTRATION PASS WORD Installing TOPSPIN 55 6 5 Installing TOPSPIN patches Bruker BioSpin recommends installing the latest TOPSPIN patches available ToPSPIN patches are parts of TopSprn which contain bug fixes They are available on the Bruker WWW and FTP server We recommend to install new patches when ever the patchlevel on your system is older than the one on the WWW FTP server Perform the following steps 1 2 Click on the icon Bruker Utilities on the desktop Click Miscellaneous Patchlevel This wil
213. ram File s ssssssssssssssssrsrresrssssrsrrrsrersres 197 15 17 2 Creating the Setup Disks sf 15 173 Using the Setup Disks ss 2sssiscsedesasas a ERRE A Batted bates A INE E eet 198 Chapter 16 16 1 16 1 1 16 1 2 16 1 3 16 1 4 16 1 5 16 2 16 2 1 16 2 2 16 2 3 16 2 4 16 3 16 4 16 4 1 16 5 16 6 Chapter 17 17 1 17 1 1 17 1 2 17 1 3 17 1 4 17 1 5 17 1 6 17 1 7 17 1 8 17 1 9 Chapter 18 18 1 18 2 18 2 1 18 2 2 18 2 3 18 2 4 18 3 18 3 1 18 3 2 18 4 18 5 18 5 1 18 5 2 18 6 Chapter 19 19 1 19 1 1 File and directory handling csccseeeee E snaesbasenabestassseccates isese 9D Viewing and opening files directOries 00 eee eee cee cneceeeseceeceeeeneeeseseaeeaeeeaes 199 Windows Explorer 199 My Computer 200 Explorer and My Computer can hide file extensions 201 TELK MEPPEN Gulag Ses vectondisdec vevepescstsdesveseasass i 202 The Windows Command Prompt 202 File and directory permissions sanen 202 Permissions and Types of ACCOSs oisccssevaseescecactssbevescdcedevissnecesachassaracccduessossontesassheasiesedtespsatecclosmaveredttees 203 Changin file permissions az nig eea iea e n ten Seuctevsdece soeetesedaes ten tbensy odevesedesvv sag a ia aei 204 Changing directory permissions ccccceeseseeseesesecseeeeseesesaesceseeeceecaecaecessesaesaeaeeaeeeseecaecaecaeeeeeeaeaeaeeaees 204 Read Only attri bute oesie 2550s salle ssa u sons busses Tosca luci
214. rams to work better but might increase your security risk Programs and Services Name M Bruker_TOPSPIN_xwish3_in_C Bruker ts13b13 Bruker_TOPSPIN_swish3_in_C Bruker XwWIN NMR cpr cprserver dataserver File and Printer Sharing GoClient Hummingbird NFS Server Hummingbird portmapper M java A Imard eve Add Program Add Port Edit Delete Display a notification when Windows Firewall blocks a program v What are the risks of allowing exceptions Cancel 20 8 2 4 Add a program or service to the exception list 1 Click Start gt Control Panel 2 In the window Control Panel click Windows Security Center 3 Click Windows Firewall A window appears click on the Exceptions tab Windows Firewall General Exceptions Advanced Windows Firewall is blocking incoming network connections except for the programs and services selected below Adding exceptions allows some programs to work better but might increase your security risk Programs and Services Name M Bruker_TOPSPIN_xwish3_in_C Bruker ts13b13 Bruker_TOPSPIN_xwish3_in_C Bruker lt wIN NMR cpr cprserver dataserver File and Printer Sharing GoClient Hummingbird NFS Server Hummingbird portmapper java LM Imard eve Add Program AddPot Edt
215. re you can easily make your PC unable to boot Wait until the boot device menu appears select removable device with the ARROW KEY DOWN ENTER The Windows Setup screen appears a You see at the bottom of the window Setup is loading files b You see at the bottom of the window Setup is starting Windows XP A Windows XP Professional Setup Welcome to Setup screen will appear with the Option of Continuing Setup Repair a previous installation or Quitting a Press ENTER to Continue Setup A text about the Windows XP Licensing Agreement EULA screen will appear e Press the PGDN key repeatedly until the end press F8 to accept You see at the bottom of the window Searching for previous versions of Mi crosoft Windows If you have already other Windows XP installations on your PC a list of them will appear Press ESC in order to make a new installation instead of repairing an older one If you have a couple of partitions on your hard disk a list of currently available partitions will appear a Press the ARROW UP or DOWN key to highlight the partition on which Windows XP must be installed b Press ENTER e Select Format the partition using the NTFS file system press ENTER Installing and configuring Windows XP Professional 129 You are asked if you really want to format this partition or want to choose a different partition After this point formatting will be started ALL DATA ON T
216. recto ries and as a second step copy the two directories conf and exp into them After these two directories are available on PC A you can start the TOPSPIN installation How to use the Bruker Utilities Folder After a successful installation of the TOPSPIN you will find a new folder on every user s desktop named Bruker Utilities Double click on the folder to see its con tents Ge C Bruker TOPSPIN proe bin utilities File Edit View Favorites Tools Help ar amp p gt Search gt Folders EJ Miscellaneous ServiceTools TestTools Command Documentatio prompt n or 1 Click Start All Programs Bruker TOPSPIN gt Bruker TOPSPIN x y Bruker Utilities 2 A window Bruker Utilities appears In this Utilities folder you will find commands and applications that you might need when running and configuring a spectrometer You can see the command prompt right there just double click on it to get to the prompt The other tools are stored in three categories as shown above You can double click on each of the folders to have them opened up to show their treasures 98 Configuration of TOPSPIN amp C Bruker TOPSPIN prog bin utilities Miscellaneous i File Edt View Favorites Tools Help 7 Q ax Q amp lt Search gt Folders js EJ x i Ez a bsmsdisp cmd a amp SD BB Explorer get_hostid bat Hardware Homepage exam ere e a patchlevel
217. ritten certain registry keys that are set during the NMR GUIDE installation Troubleshooting 187 4 Now try the NMR GUIDE again 15 7 Bruker Service tools Several tools for checking the spectrometer hardware are delivered with TOPSPIN This includes tools for BSMS HPPR ACB GRAD HPCU RX22 You can start a service tool as follows for a full description see chapter 8 5 1 Double click the icon Bruker Utilities on the desktop 2 A window will appear with the icons Service tools Test Tools etc a Double click Service Tools to get a list of service tools b Double click Test tools to get a list of test tools 3 A windows with the available tools will appear e Double click any icon to start the corresponding tool 15 8 Windows XP Service Pack All PC s delivered by Bruker BioSpin have the latest Service Pack installed It can also be downloaded from the Microsoft Web pages www microsoft com or www microsoft de For installation just follow the given instruction on the screen Under Windows XP it is not necessary to reinstall the service pack after e g con figuring the network During the installation you might get the message that files were detected which are not the original Windows XP files and which are also part of the Service Pack Sometimes these files are even newer than the ones in the Service Pack This typi cally happens when you installed recent driver software You are asked if these files sho
218. rocad pdf Eltutor 1d pdf Configuring the BSMS Keyboard For a full description how to configure the BSMS Keyboard see your e hard copy of BSMS User Manual or e the respective entry on the BASH CD ROM Order Number Z36541 A configuring step that should be done periodically is the spin rate calibration For this you have to go into the Menu mode of your BSMS keyboard Press simultane ously 2nd and Y then rotate the control knob as long as you see 1 Sample in the display press 2nd to go into this directory The display will show 1 1 Spin calib press 2nd to start this process and wait for 3 minutes In this Menu mode you can also define the helium warning level If the liquid helium reaches the critical point the BSMS Keyboard starts beeping A special password the so called security code is required to be able to change the set ting For an additional possibility to get a warning about a low helium level see chapter 21 2 If in doubt about the setting contact your service representative Firmware update of the spectrometer hardware This chapter describes how to update the firmware of spectrometer components This is only necessary if the cf command has crashed and popped up a message window which informs that you have to do a firmware update of a certain compo nent Configuration of TOPSPIN 101 It is strongly recommended to do the firmware update only in this case because the hardware component coul
219. rt run enter c flexlm bruker help index htm gt Click OK 15 3 TOPSPIN troubleshooting TOPSPIN should not get into any trouble in general Nevertheless if your current TOPSPIN session has a problem you can find in this chapter some instructions how to get rid of this situation In order to stop TOPSPIN in case of any problems the first thing to know is that Troubleshooting 177 15 3 1 TOPSPIN is working with a client server structure The server is the program itself and the client is the graphical interface It is possible to exit each of them sepa rately It is also possible to start more than one client graphical interface This feature is used for the remote control but can also be very useful for troubleshoot ing see below e The client graphical user interface of TOPSPIN can be stopped without touching a running acquisition e Stopping the program itself will also stop a running acquisition Troubleshooting while no acquisition is running The most convenient way to get rid of a problem inside TOPSPIN is to stop the complete program For this you can do the following steps These steps are increasingly drastic 1 Press the Esc key This will not kill TOPSPIN and might enable input again 2 Enter exit in the TOPSPIN command line or press the X in the upper right cor ner of the program window Is the TOPSPIN window closed e Yes Start TOPSPIN once again in case there will be still som
220. rvice status is Started click Stop gt wait and then click Start again If the Service status is Stopped click Start 7 2 Ordering and installing the TOPSPIN license You can order a license from Bruker BioSpin Germany Demo licenses are free of charge for other licenses you must specify e the hostid of your PC see chapter 7 2 1 e the program for which you want to get a license e g TOPSPIN e the type of license full demo processing only presentation or teaching e the number of licenses and your order number not necessary for demo license Licenses can be ordered from the German Bruker BioSpin web server https www bruker biospin de NMR nmrsoftw licenses index html 7 2 1How do I determine the correct hostid The hostid is a 12 digit hexadecimal number It is the physical address also called Mac address or Node address of the Ethernet card After installing TOPSPIN including the Flexlm license manager you can determine the hostid in two ways e Start TOPSPIN a command prompt will pop up which will list the hostid if a correct licence is not yet installed e Click the Bruker Utilities icon on the desktop then click Miscellaneous gt get_hostid e Open a Command Prompt and type in c flexlm bruker lmutil lmhostid Under Windows XP it is possible to get more than one hostid Just select one of them to order the license Some hostid values may indicate problems a If hostid occurs You may run
221. s This paragraph describes several settings that we found useful They have no influ ence on the TOPSPIN performance and you are free to choose your own settings 20 4 1 Configuring the Taskbar 1 Right click the Taskbar Windows XP Tips and Tricks 229 20 4 2 20 4 3 20 4 4 2 Click Properties 3 A window Taskbar Properties will appear e De select the item Always on top click OK This will create more space on the desktop Hide known file extensions See chapter 16 1 3 1 Open the Explorer 2 Click the menu Tools Folder Options 3 In the Folder Options window a Select VIEW b Unselect Hide file extensions for known file types if it is selected c Click OK Show hidden files and folders 1 Open the Explorer 2 Click the menu View Options 3 In the Folder Options window a Select VIEW b Select Show hidden files and Folders c Click OK Configuring the GNU shell The GNU shell is delivered on the CD TOPSPIN for Windows XP and is automati cally installed together with the installation of TOPSPIN It provides a set of UNIX commands By default the resize and cut amp paste functions are not active Making the GNU window resizable by default 1 Click Start All Programs Bruker TOPSPIN gt GNU Shell 2 A GNU shell window will appear 1 The taskbar is usually but not necessarily at the bottom of the screen 230 Windows XP Tips and Tricks a
222. s and Groups A Performance Logs and Alerts 5 Free Space Free Fault Tolerance Overhead Partition Basic NTFS Healthy System 76 33GB 72 50 GB 94 No 0 Bdisk 0 Basic Local Disk C 76 33 GB 76 33 GB NTFS ole Healthy System Scp romo DVD D No Media a E Primary partition If this is the first time you start Disk Administrator you probably see two informa tion screens which you can confirm by clicking OK respectively Yes Disk Administrator Lx Disk Administrator has determined that this is the first time Disk Administrator has been run or that one or more disks have been added to your computer since Disk Administrator was last run System configuration will now be updated Confirm A No ae found on Disk 0 Writing a signature is a safe operation and will not affect your ability to access this disk from other operating systems such as s If you choose not to write a signature the disk will be marked OFF LINE and be inaccessable to the Windows NT Disk Administrator program Do you want to write a signature on Disk 0 so that Disk Administrator can access the drive EAA Configuring Windows XP 135 Finally the disk administrator will show you how many disk drives your system has and how they are partitioned Please realize that repartitioning the C partition involves re installing Win dows XP Also the maximum partition size with FAT is 4 GByte wit
223. s for Root User e Select Restrict Access to Hosts enter spect in the field below and click Add gt the name spect will appear in the list Restricted Access to Hosts e Click Insert spect appears in Lists of Exported File Systems b Click the Name Mapping tab NFS Maestro Server Configuration General Name Mapping Exported File Systems Exported Printers User Name lt gt UID Mappings User Name Administrator diskless_user_sys UID aa User Name for Non Mapped Access Group Name lt gt GID Mappings Group Name diskless_group_other diskless_group_root diskless_group_sys 3 Administrators x GID X Group Name for Non Mapped Access Load Names from MAPOLLON Reload Names Export Import Aut Cancel Apply Help Installing TOPSPIN 59 e Click the arrow to the right of the field Load NT Names from and select the local hostname e g AMYHOST e Click Reload Names e Adding a User mapping e In the field User Name select the user Administrator e In the field below that is called UID type in 0 e Click Insert e In the field User Name select diskless_user_sys e Inthe field below that is called UID type in e Click Insert e Adding a Group mapping e Select the Group Name using the arrow button in the field below it type in the GID and click Insert e Map the group diskless_group_root as group with GID 0 e Map the group diskless_group_ot
224. sdvasaadtasieidisesdssceveneaceasacicons 237 20 8 2 What do the new s curity ICONS MEAN 0 0 ccs cates scestgusencesvedugeieas Sas cusduseun sua ceuseusescascadeqecseess cecgeubesteaceseas 238 20 823 BIE Walls cusses tanalls E E A E A E AAE AA AEAEE AA A A AR 238 20 8 4 T open Windows Firewalls miserie riniti eaa i aei E EAR E 239 20 8 5 Windows Firewall settings 20 8 6 To add a program to the exceptions list ccceccessescesceeceeeeeeeseesesceseeeceeceecaecaeeeeseeaesaeaeeaeeeceecaeeaeeeseeeaes 241 20 8 7 Add a program or service to the exception list s s sssssssssersssssssistetestssststtrtstsssstsrtntsroresesrtrenterssesrt 242 20 8 8 Opena Port ithe exception tabes ite rpari A a Ea ANETES ETEESI AEE EE 243 20 8 9 Advanced Options enesis asa EE E E E AT E Ta 244 20 8 10 How to disable Firewall Alerts from the Security Center 0 0 0 ccccccecseeceeceeeseeeeeeeseesesceeeeeceecaeeaeeeeeeaes 245 20 8 11 How to specify a firewall that Windows does not find e cece cceeseseeteesesceseeeceecaeeaeeeeseeaeeaeseeseeeceeeaeens 246 20 8 12 Automatic Updates pss ts ves dtces issdeocesucntes casted asesssDeaecaceusoseste ded gauesseeseed genabaveg edd ansbsoSedseda ends ob oed onesie veaecdegaees 246 20 8 13 How to change your Automatic Updates settings ccccesesssessencesceeceeceecseeeeeeeeeseeaeaeeseeeceecaeeaeeeseeaes 246 20 8 LA vAMUVITUS a erson eia eta OSEA EEE EEEE EEO E TE E 248 20 8 15 How to disable Antivirus Alertsform th
225. se the installation path of Diskless or the NFS server is different from the default installation path the script will inform you that the respective firewall con figuration entries are not set You have to execute the script manually and add the correct paths In either case you should consider reexecution of the configuration script after one of the following actions happened e Complete reset of firewall settings which is possible e g from Control Panel e TopSpin installation to new location e Changes in Service Pack status e g reinstallation For further questions and contributions please feel free to contact software support at nmr software support bruker biospin de Chapter 9 User Management 9 1 User Management in a standalone PC After the installation of Windows XP there is one user with administrator rights namely the user Administrator If the password for this user gets lost there is no way of resetting it other than re installing Windows XP Therefore we strongly recommend you install at least one more user with administrator rights e g with the name root actually this name is also much easier to type on the keyboard You can install a new user or administrator as follows 9 1 1 Adding a new user in a standalone PC method 1 The following chapter describes how to add a new user with Administrators rights 1 Log in as Administrator 2 Click Start gt Control Panel User Accounts 3 A
226. seeceecaesaeeesseeaeeaeaeeaeeeeeesaeeas 224 19 2 Winzip pack unpack zip tar gz uue files oe ee ee eee cee eeeeceeeeecaeeaeeaeeaees 224 19 3 Detrapment your disk x5 sea cei ia Bae een eae es 224 Chapter 20 Windows XP Tips and Tricks ssccesserscssscssssessresesscsssessseesesessssesessessseseees 22D 20 1 Creating shortcut icons on the desktop 0 0 eee ceseeceseeeeceeeeeeeeeeeeeecaeesaecseenaees 225 20 1 1 Creating shortcut icons to program eee ceeeee cece see ceesceeeecaeeeseeecaeteaeecseseeaesseesessesseecaeeasenecaeeneaes 225 20 1 2 Creating shortcut icons to documents files 2 0 ceeceeseeessesceececsecseeeeseeaeeceaeeeceeceecaecaeeeeseeaesaeaeeaeeeeeesaeeas 226 20 2 Use the classic logon screen under Windows XP ou eeceeeeeereeeeeeneeseetseennees 20 3 Convenient handling of TOPSPIN under Windows XP 20 3 1 Reading data from the Explorer into TOPSPIN 0 c ccceseceeccesessesceeeeeeecaeeesaeeceesecseaasesesseseeecaseesenecaeasaes 20 3 2 Copy a text item into the TOPSPIN command line cee ceeeeeee cee tecaeeceeseeseaseesenseseeecaeeseneeaeets 20 4 Various useful configurations oo eee cseeseceeceseeeeceseeeeceeeeeeeeaeseeecaeesaecaeenaees 20 4 1 Configuring the Taskbattsssstec csissiscesansseessclucstiaidsecdlacssscuscesteustgusedeucastiwes AS 20 4 2 Hide known file extensions sien uaia e a a sides E A EREE 20 4 3 Show hidden files and folders sssssssssssssssssesssssssssssessssasssssssessssesse
227. sion Windows XP Tips and Tricks 239 20 8 2 1 Bruker BioSpin recommends to protect your computer against viruses or security threats we recommend to keep the Windows Firewall or another firewall on To open Windows Firewall 1 Click Start Control Panel 2 In the window Control Panel click Windows Security Center 3 Click Windows Firewall 4 A window Windows Firewall appears Windows Firewall General Exceptions Advanced ewall is helping to protect your PC Windows Firewall helps protect your computer by preventing unauthorized users from gaining access to your computer through the Internet or a network Q On recommended This setting blocks all outside sources from connecting to this computer with the exception of those selected on the Exceptions tab low exceptions Select this when you connect to public networks in less secure locations such as airports You will not be notified when Windows Firewall blocks programs Selections on the Exceptions tab will be ignored x Off not recommended Avoid using this setting Tuming off Windows Firewall may make this computer more vulnerable to viruses and intruders What else should know about Windows Firewall Because a firewall restricts communication between your computer and the Inter net you might need to adjust settings for some programs that prefer an open con nection These adjustments are called
228. sions Click the small arrow right of the field Apply onto and select the entry of your choice You can select any combination between folder and or subfolder and or files OK OK gt OK 1 If Windows XP is installed the security section might be not displayed If you like to see it you have to define it in the options of Windows Explorer Click on Tools Folder Options click on View and disable the entry Use simple file sharing Recommended File and directory handling 205 16 2 4 Read only attribute The problem of setting the Read only attributes only in the entire directory and not in the subdirectory is solved under Windows XP 1 Find the file or directory in the Explorer 2 Right click its icon 3 4 A window Properties will appear Click Properties a Click the attribute Read only to switch it on or off A window Confirm Attribute Changes will appear where you are able to decide if your changes are set only for the entire directory or also for the subdi rectories and folders 16 3 Known Problems in TOPSPIN for Windows XP AU programs which were copied from another computer are sometimes not dis played properly by Notepad This happens if they were transferred with FTP in binary mode You can either transfer the file again using ftp in ascii mode or with rep or you can correct the local AU program as follows 1 2 Start All Programs Bruker TOPSPIN g
229. so saved t gt uxnmr par t gt uxnmr info t gt specpar t gt 2Hlock t gt nuclei t gt best nmr CurrPushSolvent 108 Configuration of TOPSPIN lt T lt 7 lt T lt 7 lt T lt 7 lt T lt 7 lt 7 lt 7 lt T lt 7 lt 7 lt T TOPSPI TOPSPI TOPSPIN TOPSPI TOPSPIN TOPSPI TOPSPI TOPSPI TOPSPI TOPSPIN TOPSPI TOPSPIN TOPSPI TOPSPI TOPSPI O Oo AO Or Oo OO Or O OO Oe OO gt IO O E gt con E gt con E gt con E gt con E gt con E gt con E gt con E gt con E gt con E gt con E gt prog E gt prog lt LM_License_File gt f ins f ins f ins f ins f ins f ins f ins f ins f ins f ins E gt exp stan nmr 1l E gt exp stan nmr 1 ogfil tr lt spec tr lt spec tr lt spec tr lt spec tr lt spec tr lt spec tr lt spec tr lt spec tr lt spec tr probe is is E gt conf instr lt spec es he t gt bes t gt bes t gt bes t gt bes t gt bes t gt bes t gt bes head ium ogfil es he ium 1 t nmr sol t nmr sol t nmr sol ts solvents ts probeheads og og err t nmr racks src lvents lvents lvents t gt rs232_device best t gt hardware_list t nmr hardware par t nmr hardware src t nmr scanner src add add use t gt rs232_device bestscan For safety reasons the tar f
230. spectrometer constants change them and click Save if necessary otherwise click Cancel After cf expinstal1l have finished insert a sample and make sure that you can lock on the lock solvent Type ii and read with rpar a standard Bruker BioSpin parameter file e g rpar PROTON all type getprosol rga and wobb and collect a normal H NMR spectrum If you want to configure a processing PC like your spectrometer PC If the PC does not control a spectrometer but is used in connection with a particu lar spectrometer e g for setting up experiments processing and or plotting you should configure it as that spectrometer see FAQ 210 on www bruker biospin de see chapter 8 1 2 Part I TOPSPIN Installation and Configuration 3 1 Chapter 3 General Installing Information Installation order A complete new installation on a PC connected to a spectrometer involves the fol lowing steps SANA na Fk UNM j Installing Windows XP see chapter 11 1 Installing Windows XP Service Pack see chapter 11 2 Installing the Graphics driver see chapter 11 3 Installing NFS Server see chapter 4 3 l Installing TOPSPIN see chapter 6 4 Configuring NFS Server see chapter 6 6 Installing TOPSPIN license see chapter 7 2 Configuring of TOPSPIN for spectrometer control see chapter 8 1 1 Configuring the network see chapter 13 Installing a printer see chapter 14 Note for Windows XP
231. sssssessesssssessessssssesessessssessensseses 20 4 4 Configuring the GNU shelli kinnon e aeneae ea A EE A EA ons A AA a 20 5 Connecting UNIX and Windows XP with Samba ssesssseesesseeessreerrsreresessererserens 20 5 1 Accessing the network share provided by Samba s sesssssissssssssssisrtirstsssstsrtrentsrsrrsirrrnrrseserrrsrersrrsee 20 5 2 Mapping network shares into local drives ececccesessesseeceeceecseceeeeeseesesceaceeceeceecaecaeeeseesaeeaeaeeaeeeceeeaeeas 232 20 5 3 Configuring Windows XP to handle UNIX style password requests 00 0 0 cesses sesesseeceeeseescaeeeeaee 234 20 5 4 Enable Plain Text Pass word sss sssccs cgessieses eseavienlscu iai eia caseedvnvcts cv sesasbteatavet ones svvdessetitenedbovs cobeteses 234 20 5 5 There is one shortcut you can try with newer samba VersiONs ccscesessesceeceeceeeeeeeeeeeseeaesceaeeeceeneens 234 20 6 How to log on to Windows XP if you forget your password 00 eee eee 235 20 6 1 Method 1 Log On as an Administrator and Reset the Password 0 ccccsssesesesseeceseeeeceeeseneeaeees 235 20 6 2 Method 2 Use a Password Reset Disk 0 0 0 ccceessssesesseecescecseseesecseesesscsessseecseceesaesessessesaesesseeeseeeneegs 235 20 7 Error Message When You Use the Add Printer Wizard ooo eee eee eeees 236 20 8 Microsoft Security Center wrrr a e e e iE o E AE A E ii 236 20 8 1 How to open Security Comte ccicsscsecisecesesscesstecssasavesvedecades svesnbcsaaaaacuatscceaaecs
232. stallation that are defined in the registry Installing TOPSPIN 53 12 A window Set NMR Super User will appear Set NMR Super User Please set the NMR Super User This can be a local account or a domain account if the computer is member of a domain Valid syntax User or PETZI User or Domain User PETZI nmrsu a Do one of the following e Accept the default NMR Superuser Administrator or e Enter a special user for this purpose e g named nmrsu or e Enter any other user Under Windows the username must be the name of an existing user If you choose an NMR Superuser other than Administrator and this user does not exist yet e Press the keys CTRL ESC to open the Start menu e Install a user as described in chapter 9 b Click Next 13 A window Password Input will appear for more details see chapter 6 2 Password Input Please choose an NMR Administration Password requested for commands like cf expinstall etc Password a L oo Password Help Back Cancel 54 Installing TOPSPIN a Do one of the following e Type in the NMR ADMINISTRATION PASSWORD Re enter in the NMR ADMINISTRATION PASSWORD b Click Next The installation of TOPSPIN will start now e destination directory c Click Next 14 A window Setup is complete will appear Setup Complete Setup has finished copying files to your computer Before you can use the prog
233. t 64 Installing TOPSPIN 6 10 4 Configuration of Internet Explorer for the NMR GUIDE A U N Click Start All Programs Internet Explorer A window Microsoft Internet Explorer will appear Click on Tools gt Internet Options gt Advanced Ensure that the following Settings are enabled e Java console enabled requires restart e Java logging enabled e JIT compiler for virtual machine enabled requires restart Restart your computer Chapter 7 The TOPSPIN license 7 1 Questions and answers about the TOPSPIN license 1 Which programs need a license TOPSPIN TOPSPIN PLOT EDITOR NMR SIM and NMR GUIDE need a license However if you order a license for TOPSPIN you automatically get a license for all four programs If you do not have a license for TOPSPIN it will start up in an emergency mode if your PC is connected to a spectrometer However NMR SIM and NMR GUIDE will not run without a valid license ICON NMR is always used in connection with TOPSPIN and does not need an in dividual license AURELIA AMIX MAXENT GLP and PARAVISION do need a license which must be ordered for each program separately 2 Which license types are available and what programs may be run with each There are six different license types details of each are given in the following table For more information please refer to the Bruker license order form in the help menu of TOPSPIN or on the web server http www
234. t A window Installing Driver will appear click OK In the window Upgrade Device Driver Wizard click Finish Close the windows you have just opened Remove the CD A window Systems Settings Change will appear click Yes to reboot The procedure for other PC s or other Graphics drivers might be a little different 12 1 Chapter 12 Configuring Windows XP Conversion of disk format from FAT to NTFS Windows XP supports three file systems for disks FAT16 FAT32 and NTFS Bruker BioSpin TOPSPIN and the datasets of the NMR experiments requires the file format NTFS So if you use a FAT partition of your harddisk s you have to con vert this partition to NTFS that is the file system of Windows XP before you can install the TOPSPIN Only under NTFS it is possible to have the file permissions ownership and access management settings that make Windows XP secure You can use the convert command convert exe to convert an existing FAT volume to NTFS Because this conversion retains all of your files use convert exe when you want to keep existing files on your volumes intact The conversion to NTFS is a one way process After you convert a drive or parti tion to NTFS you cannot convert it back to FAT To restore the volume to the pre vious file system you must format it as FAT again This action erases all existing data including your programs and personal files In this case you must either restore your data
235. t runas user administrator cmd exe this will ask you for the administrator password and then open a Command prompt with administrator permissions 3 Open the Control Panel e Click Start Control Panel 215 216 Windows XP commands e Click My Computer Control Panel e Press Ctrl Esc gt s gt c 4 Open a Command Prompt e Click Start All Programs Accessories Command Prompt e Press Ctrl Esc gt r gt enter cmd gt click Enter 5 Open the Task Manager e Click the RIGHT mouse button on the Taskbar gt click Task manager e Press Ctrl Shift Esc 6 Search for files or directories e Click Start gt Search For Files or Folders e Enter Ctrl Esec s gt s gt click Enter e Press F3 while the focus is on the desktop if the focus is not on the desktop click on the desktop first 7 Start the Windows Explorer e Click Start All Programs Accessories Windows Explorer e Right click Start gt Explorer e Double click icon My Computer on the desktop 8 Configure the network e Click Start gt Control Panel gt Network Connections e Right click My Network Places Properties 9 Close a hierarchy of windows opened from My Computer e Press Alt Shift F4 More shortcuts may be found in chapter 18 3 1 Chapter 21 1 contains a blank list for important names and numbers of the hard and software of your PC It is recommended that you fill in the information there before you start the
236. t Z003209 requires no specific EC level e FCU FCUO 64k memory part H2556 64k memory part H2554 required minimum EC level with EC level gt 20 FCUO for use without cortab 04 FCUO for DSX without use of 05 cortab FCUO for use with cortab 07 with EC level between 00 and 19 FCUO for use with cortab 1 Introduction 19 Tomo FCU required minimum EC level part T5565 64k memory 00 for use without cortab part T5565 64k memory 02 for use with cortab part T6765 256k memory for use with or without cortab EC level between 00 to 19 part T6765 256k memory for use with or without cortab EC level between 20 to 29 00 21 1 3 6 Software requirements e Microsoft Windows XP SP2 or Windows 2000 SP4 for TOPSPIN gt 1 3 e on DVD TOPSPIN 1 3 e TOPSPIN e Flexlm License Manager see Chapter 7 e For spectrometer control e Hummingbird NFS Server Version 7 1 CD TOPSPIN NT Toolkit see Chapter 4 e For NMR GUIDE Internet Explorer gt 6 x CD Microsoft Windows XP e For TOPSPIN Online Help and NMR GUIDE e A PDF viewer e g Adobe Acrobat Reader see Chapter 5 1 TopSpin requires a NTFS filesystem on the partition where the Topspin is installed and a NTFS filesystem on all partitions where Topspin data are stored see chapter 14 1 20 Introduction 1 4 Important Windows config
237. t GNU Shell vi au_program in the editor window enter set textmode wq notepad au_program the AU program should be displayed correctly now 16 4 Compressing files and directories 16 4 1 Setting the Compress attribute For each file and directory under Windows XP you can set so called attributes One of these is the Compress attribute which reduces the size considerably 206 File and directory handling 1 Right click a file or folder in the Explorer 2 A popup menu will appear e Click Properties 3 A window lt name gt Properties will appear a Click Advanced b Enable the attribute Compress Contents to save disk space OK gt OK Compressed data will be uncompressed and recompressed automatically whenever they are accessed by an application Note that this process will take time and your application runs slower when they work on compressed data For transferring files or directories you might want to compress archive them in zip format using the program Winzip rather than using the Compress attribute see chapter 19 2 16 5 Editing text files You might know UNIX doesn t write Carriage Returns CR at the end of text lines That means that some files we create will not display properly in an editor like Notepad hardware exam Notepad lolx File Edit Search Help ft hardware exam list of all hardware detectable by cf M Ei To copy one of these entries into hardware list proce AE
238. t 148 202 Test Tools 99 187 Tips 217 TOPSPIN backup 191 CDROM 11 67 71 173 174 commands 12 46 configuration 35 data 188 Express Installation 23 in a Domain 151 installation 26 35 43 54 61 installation directory 28 93 license 35 70 NT Toolkit CD 37 38 40 Online Help 11 41 owner of the program files 44 patches 55 125 programs 46 re installation 124 Release letter 11 startup 73 troubleshooting 176 un install 124 125 TOPSPIN Plot Editor 46 65 69 213 TOPSPIN1 66 tracert 141 troubleshooting 171 while an acquisition 178 while no acquisition 177 U UNIX host 56 146 147 148 161 162 163 164 165 166 UNIX shell 147 162 164 220 221 222 User Accounts 115 116 User Manager 153 Username 115 Users and Passwords 120 V Very Important Files 105 257 vi 205 VIF 105 W Web browser 62 Windows Automatic Updates 246 security icons 238 Start Menu 20 style 20 Windows Firewall 111 238 Windows Update Web site 246 Windows XP commands 12 Explorer 199 216 firewall 111 239 forget password 235 help 217 Home Edition 127 installation 127 logon 226 ntbackup 191 online help 216 print spooler service 236 Professional 127 Service Pack 35 Service Pack 2 236 system restore 195 tips 217 tools 223 WinXP_PlainPassword 147 Winzip 206 wobb 180 Word 159 214 Workgroup 151 X X32 147 xcopy 221 XWIN NMR Online Help 41 xwinnmr save 257 Z zg 180
239. t a spectrometer configuration If you want to take over the configuration after installation is finished start TOPSPIN e and type in the command nmr_save e or click Options Spectrometer Tools Save Restore configuration A window Password request will appear Please enter the NMR administration password and click OK A window NMR_Save appears Please check the Location of Backup file default lt TOPSPINHOME gt nmr_backup Enter the location of the installa tion to be saved e g C Bruker XWIN NMR Click on Save This will create a tar file of all necessary information from the XWIN NMR installa tion The tar file is called nmr_backup tar and will be stored in the directory lt TOPSPINHOME gt nmr_backup To take over this information into TOPSPIN please enter the restore destination e g lt TOP SP INHOME gt and click on Restore After this process is finished execute cf Configuration of TOPSPIN 97 8 2 2 8 3 Take over the configuration on another PC Before you start installation of TOPSPIN on PC A you have to copy the two directo ries lt XWINNMRHOME gt conf and lt XWINNMRHOME gt exp from the XWIN NMR installation on the PC B into the directory where TOPSPIN will be installed The default installation directory of TOPSPIN is for Windows C Bruker Topspin In case you will use the default installation path you have to create these di
240. t bruker biospin de For a complete debugging it is useful to attach the history file of the TOPSPIN ses sion For this attach the following two files lt TOPSP INHOME gt prog curdir lt USER_NAME gt history lt USER_HOME gt topspin lt PC_NAME gt prop protocol txt 180 Troubleshooting 15 5 Communication problems between PC and CCU If the acquisition zg gs wobb and or the configuration cf fails you might have a communication problem between the PC and the spectrometer CCU 15 5 1 Hardware related problems 1 Check if the Ethernet cable between the PC and the CCU is properly connected Remove and re connect the Ethernet cable 2 Does the connection light come on if you connect CCU and ethernet board in the PC a If the light is off The connection light is one of the three LEDs that most Ethernet cards have One of them usually in yellow lights up the same moment that both ends of the re spective cable are connected to life devices like a hub or wall socket or a com puter Check the cable or the Ethernet card with some cards you need to reboot the PC with CCU and Ethernet board being connected to make the initial con nection If the PC is started without any cable connected to the board some configurations will disable the card unless configuration takes place makes sense for unused cards however forces us to re boot more often than we might want to In some cases
241. t with the graphical interface Function Command Graphical Interface Prompt Files list files dir Explorer Click Drive or Folder delete a file del Right click an icon in Explorer gt Delete erase rename a file ren Right click an icon in Explorer gt Rename find text in files find Start Search For Files and Folders gt Containing text 220 Windows XP commands Function Command Graphical Interface Prompt find a file Start Search For Files and Folders gt Search for Files or Folders Directories make a dir mkdir File New Folder md remove a dir rmdir Right click icon in Explorer Delete change dir cd lt dir gt Explorer Utilities time and date date Start Settings Control Panel gt time Date Time backup ntbackup Start Programs Accessories Sys tem Tools Backup 18 5 Windows XP Command Prompt versus UNIX shell 18 5 1 Bruker BioSpin supports the TOPSPIN for both Linux and Windows XP Here are some of the differences between these two operating systems which are of interest Directory specification In a UNIX shell pathnames are specified using the slash character whereas under Windows XP the backslash character is used Example UNIX shell cd Bruker TopsPIN Windows XP Command Prompt cd Bruker TopsPIN Under UNIX command options are usually specified with a minus character whereas in an Windows XP Command Prompt the slash
242. talla tion C flexlm If you choose a user defined path it may cause some e problems with other applications using the FlexLM 2 3 Configuring TOPSPIN The idea of this chapter is to give you some guidelines to configure TOPSPIN for using it on a workstation for data processing or for operating a spectrometer We do not discuss the commands in detail here For a full description refer to the TOP SPIN manuals Start TOPSPIN e Click the icon TOPSPIN on the desktop or e Click Start All Programs Bruker TOPSPIN gt TOPSPIN lt vers gt After the first startup of TOPSPIN a window LICENSE will appear a Please read the license agreement for Bruker TOPSPIN b If you agree please click I Accept After the first startup of TOPSPIN a window Configuration check will appear You have the possibility to configure the software depending upon the hardware of your spectrometer If you do this you are probably in one of five situations 1 You want to configure a processing only PC with a default configuration on a datastation gt go to chapter 2 3 1 see also chapter 8 1 3 2 You have just installed the software in a new directory and the old spectrometer configuration of the software is still known to the new version gt go to chapter 8 1 1 3 You want to configure a processing only PC like your spectrometer PC so you have the spectrometer configuration on another computer go to chapter 8 1 2 28
243. tected by the full version of an up to date antivirus program In addition once you disable alerts even if your program receives an update that makes it fully detected within Security Center you will not receive alerts unless you clear this check box Windows XP Tips and Tricks 249 20 8 4 2 20 8 5 20 8 5 1 How to specify an antivirus program that Windows does not find 1 Click Start gt Control Panel 2 Double click Security Center 3 In the Security Center under Virus Protection click Recommendations The Recommendations button is not available when your Virus Protection setting is marked ON 4 In the Recommendations dialog box select the I have antivirus software that I ll monitor myself check box and then click OK When you use this procedure the Security Center displays your Virus Protection setting as Unknown and does not send you alerts Microsoft Pop up Blocker With the Windows XP SP2 Internet Explorer you are able to prevent most pop up windows from appearing over Internet pages you want to view while you are using the Internet Many advertisers on the Internet use windows that pop up in the middle of your screen to display a message They might also open when you click a link or button on a Web site and they might open either over or under the window you wish to view Some pop ups are helpful Unfortunately some pop up windows can contain inappropriate content or can be a way for you to accidenta
244. tems are tested and supported for TOPSPIN 1 3 Linux Windows Red Hat Enterprise Linux WS 3 Windows 2000 Windows XP Any other operating systems might also work but because TOPSPIN 1 3 was not tested there usage of not supported operating system is at one s own risk 1 3 2 Special PC Hardware requirements To run TOPSPIN 1 3 we recommend the following computer hardware e PC with CPU Clock 1 GHz e Memory 512 MB e Video graphics card memory 64 MB l e Ethernet card to control a spectrometer it is essential to have a second eth ernet card e Mouse with 3 button possibilities e DVD device If your hardware does not meet these requirements TOPSPIN might still run but with a much lower performance Furthermore we recommend setting the display resolution to 1280 1024 or higher The Installation was tested on a hp workstation xw4100 PC with a NVIDIA Quadro4 380 XGL graphics card and two Broadcom NetXtreme Gigabit Ether net cards 1 3 3 Spectrometer requirements TOPSPIN 1 3 is released for datastations and Avance AQS Avance AQX AQR 1 Itis recommend not to use shared memory graphics because in some cases memory problems could be observed 2 TOPSPIN 1 3 is delivered on DVD s with r format Introduction spectrometers For upgrade possibilities of your spectrometer with TOPSPIN 1 3 please get in touch with your local Bruker representative Hardware components that are TOPSPIN version o
245. ternet Connection Firewall or ICF After installation of SP2 the firewall is activated for all network interfaces by default blocking net work traffic to running applications that is initiated from external network loca tions Bruker BioSpin s TopSpin software as many other applications on the market makes use of network connections for communication activities Spec trometer control and TOPSPIN s remote connection feature by design rely on net work contacts from outside the local machine As a result at start of TopSpin Windows will bring up several information windows about blocked programs recommending an administrator to review firewall settings to allow network com munication for designated applications It is Microsoft s idea to have Administrators review for which applications net work access from outside should be allowed Those applications should be made known to the firewall thus can be done manually using the Windows Firewall applet in the Control Panel Bruker BioSpin has developed a configuration script setfirewall cmad that applies all required settings to Windows firewall configuration without user interaction The script applies changes to the firewall related to Bruker software only and does not overwrite or reset entries for non Bruker applications The script is stored in the subdirectory lt topspinhome gt prog bin utilities Miscella neous of your TopSpin installation Note If
246. the new TopSpin version If you a have previous NMR SUITE or TOPSPIN installation on this PC available you can either 23 24 Express Installation and Configuration of TOPSPIN e install the new version in parallel to the previous one or e install the new version in the same directory as the previous one The installation in parallel has the advantage that the previous version remains unchanged After a parallel installation you can start working with the new version and if you want to go back to the previous version for whatever reasons you can just start and reuse it The installation of TOPSPIN 1 3 offers an automatic import of your individual con figuration of a previous version so that there is no advantage to install the new version in the same directory as the old one 1 Log in as a Local Administrator 2 Close ALL WINDOWS on the desktop 3 Insert the DVD TOPSPIN 3 4 Start of the installation e If the automatic start of the DVD is enabled the window described in the next step appears automatically go to step 5 e If this window of the next step does not appear automatically autorun is probably switched off see chapter 10 3 or open the Windows Explorer go to the DVD device and double click install cmd 5 The windows Welcome to the TOPSPIN Setup will appear Click Next 6 A window Release Letter TOPSPIN will appear a Please read the NMR Release letter You can find there all information about
247. the script is executed in a wrong directory nothing will happen Please note that the firewall is configured to allow Remote Connection from local sub 112 Configuration of TOPSPIN net addresses only The script can be used in four different ways 1 During the Installation of TOPSPIN if the firewall is enabled you will be asked to configure the firewall Question WindowsXP Service Pack 2 is installed on your system If the Firewall has not been disabled it must be configured to enable spectrometer access The installation can do this now or an Administrator can do it any time later running F Bruker topspin1 3 prog bin Wtilities Miscellaneous setfirewall cmd Shall the installation configure the Firewall for you naw 2 Click Start All Programs Bruker TOPSPIN Bruker TOPSPIN x y Bruker Utilities Double click the script file setfirewall cmd The script will automatically detect the installation path and register this installation with the firewall I e if your installation were in F Bruker ts 3beta it would reg ister that and only that The script will automatically detect the installation path and register this instal lation with the firewall I e if your installation were in F Bruker ts 3beta it would register that and only that 3 Open the Windows Explorer and go to lt topspinhome gt prog bin utilities Mis cellaneous Double click the script file setfirewall cmd
248. then click Next Configuration summary uxnmr info CONFIGURATION INFORMATION System Fri Dec 17 15 34 53 2004 TopSpin Acquisition Version ts_1_3pl 0 APOLLON Windows 5 1 nmmrsu Avance spectrometer 1H frequency 500 13 MHz Hardware info detected by hardware itself board board MEMORY 0x7f000 127 k Words PAL Version 0x100 FCU 3 version 2 MEMORY Ox7 000 127 k Words PAL Version 0x100 FCU 3 version a MEMORY Ox7 000 127 k Words PAL Version 0x104 new version EC level 07 or more 4 MEMORY Ox7 000 127 k Words PAL Version 0x104 new version EC level 07 or more x lt Previous _Net gt cancel print If during cf an error message occurs that invites you to do a firmware update see chapter 8 5 Configuration of TOPSPIN 81 After finishing cf window Additional configuration programs will appear showing a list of configuration steps Additional configuration programs Config Installation of standard experiments Epinstal Solvent table setup Edsoly Probe table setup Edhead Solvent dependent parameter setup Edprosol Lock parameter setup Edlock Spectrometer parameters setup Edscon lt Previous Finish gt Cancel Accept the default selection and click on the buttons You will be asked for the NMR ADMINISTRATION PASSWORD a couple of times e Continue with expinstall a Type in the NMR ADMI
249. ting system As a result all newly created configuration files will be owned by the user that was logged in at the time the configuration command was executed Any other user can modify the configuration during his login session just by knowing the correct NMR ADMINISTRATION PASSWORD This is possible because all configuration files are read and writeable for everybody but TOPSPIN will not write them without the correct NMR ADMINISTRATION PASSWORD TOPSPIN also offers a so called Security Mode With this feature all configuration files are only read and writeable for the NMR SUPERUSER How to change the NUR ADMINSTRATION PASSWORD The installnmr script can be used to change the NMR ADMINISTRATION PASS WORD and the NMR SUPERUSER If it is called with the option secure it changes the permissions in a way that only the NMR SUPERUSER can execute the configuration commands and the resulting files are readable and writable only for him all other users have read only permissions To change the NMR ADMINISTRATION PASSWORD you have to 1 Login as NMR Superuser or Administrator 2 Double click on the icon Bruker Utilities on the desktop A window Bruker Utilities will appear 3 Double click on the command prompt Note It is not possible to use a normal windows command prompt because in this special command prompt of Bruker Utilities there are several parameters and path entries defined 4 Type in perl bin perl
250. tion information In this situation there are two possibilities 94 Configuration of TOPSPIN a your spectrometer has a standard configuration b your spectrometer has a non standard configuration Case a If your spectrometer has a standard configuration then you can easily do cf and if you give the correct information for the Type of Spectrometer you will get the correct list of your hardware in the RS232 table You only have to type in the cor rect tty s of the interfaces Case b If your D X spectrometer has a non standard configuration then the hardware configuration is read during the cf from the file hardware_list file in the directory lt TOPSPINHOME gt conf instr lt spectrometer name gt TOPSPIN 1 3 offers the default file hardware exam which contains a list of all available hardware components which are important for the cf command This file was generated in XWIN NMR with the command cf makelist now it is available in lt TOPSPINHOME gt conf instr e Open this file with a text editor e g Notepad and delete all lines except those that describe the hardware components of your spectrometer You can get this information in the following way Check the list in the file gt hardware exam with the components of your spectrometer and or with the Bruker BioSpin delivery note s Please care fully check the PN C D E and ECL numbers of the components e Save and exit from
251. tomatic Updates Windows Security Center allows you to easily manage security settings for Auto matic Updates When you turn on Automatic Updates Windows routinely checks the Windows Update Web site for high priority updates that can help protect your computer against attacks High priority updates include security updates critical updates and service packs How to change your Automatic Updates settings By default any new updates are installed each day at 3 a m 1 Click Start Control Panel Windows XP Tips and Tricks 247 2 Double click Security Center 3 Under Manage your security settings for click Automatic Updates 4 A window Automatic Update will appear Automatic Updates Automatic Updates Windows can regularly check for important updates and install them for you Turning on Automatic Updates may automatically update Windows Update software first before any other updates How does Automatic Updates work Automatically download recommended updates for my computer and install them Every day x at 3 00 AM O Download updates for me but let me choose when to install them O Notify me but don t automatically download or install them O Iurn off Automatic Updates Your computer will be more vulnerable unless you install updates regularly Install updates from the Windows Update Web site The options for Automatic updates are Automatic Automatic download recomme
252. trator pass word during the process and proceed as follows 1 Go to the icon My Computer on the desktop right mouse click Manage or Open the Microsoft Explorer Go to My Computer right mouse click Manage A window Computer Management will appear e Click Local Users and Groups 3 Click Groups 4 Highlight the group NmrUser or 2 e right mouse click Properties A window NmrUser Properties will appear e Click Add A window Select Users will appear e Click Advanced Click Find Now e highlight every name you want to be a member of NmrUsers e Click OK gt OK Close the window NmrUser Properties by clicking OK Go to the icon My Computer on the desktop right mouse click Manage or Open the Microsoft Explorer Go to My Computer right mouse click Manage A window Computer Management will appear 118 User Management e Click Local Users and Groups 3 Click User 4 Highlight the user root e right mouse click Properties A window root Properties will appear Open the folder Member of e Click Add A window Select Groups will appear e Click Advanced Click Find Now e highlight group you want to be a member of e Click OK OK Close the window NmrUser Properties by clicking OK 9 2 User Management in a Domain PC 9 2 1 Adding a second user with Administrator rights in a domain PC The group
253. twork ONLY THESE VALUES ARE VALID Do not choose different settings for the IP address or Subnet mask e Leave the Field Default Gateway empty Click OK 140 Windows XP Networking If your PC controls a spectrometer we recommend to do the following 1 Click Start Control Panel gt Network Connections 2 A window Network Connections will appear a Select the Adaptor to which the spectrometer CCU is connected This is nor mally but not necessarily Adaptor 2 b Right mouse click Properties c Disable the entry Client for Microsoft Network TCP IP by clicking on the sign to the left of the entry 13 2 Changing the hostname of the computer and its effects If you want to change the hostname of your PC you can do this in the following way IMPORTANT You also have to change the text file lt TOPSPINHOME gt conf nmrsuperuser This file contains the computer name and the Windows XP user which is the TOP SPIN SUPERUSER You can edit and change this file with a normal text editor like notepad if you are logged in as the Windows XP user which is the NURSUPE RUSER 1 Log in as Administrator 2 Click Start Control Panel Network Connections 3 A window Network Connections will appear a Click Advanced Network Identification b A window System Properties will appear c Click Network Identification Properties d In the field Computer Name enter the new hostname Note
254. ually valid For newer printers the drivers might not be on the CD or better drivers might be available Please use drivers delivered with the printer or from the Web whenever possible You can install a printer from the Windows XP CD as follows 1 Log in as Administrator 2 Click Start Printers and Faxes 3 A window Printers will appear Double click the icon Add Printer 4 A window Add Printer Wizard will appear gt Click NEXT a b c d e 2 Click Local Printer enable Plug and Play search mode if you want that the system looks for a new printer Click Next A window New Printer Detection will appear e if the system finds a right printer Click Next e if the system does not find a printer define it manually during the next steps Click Next Select the port to which the printer is connected gt Click Next In the field Manufacturers select the manufacturer of the printer e g HP In the field Printers select the type of the printer If your printer does not appear in the list select a related printer type or click Cancel and get the driver from the Web Click Next In the field Printer Name enter the name under which you want to use the printer or accept the default name Installing a Printer 159 h If other printers are already installed you will be asked if the new printer must be the default printer e If you want to use this printer as default printer
255. uide 11 installnmr 45 Internet Connection Firewall 111 238 Internet Connection Firewall Win XP SP1 disable 252 enable 251 Internet Connection Firewall Windows XP SP1 251 Internet Explorer 62 64 Internet Explorer Pop up Blocker 249 IP address 137 138 139 ipconfig 43 44 141 202 ipconfig all 98 J Java 63 JetDirect print server 167 K kermit 181 Keyboard shortcut 218 219 L Last Known Good 197 license 65 License Agreement 75 license agreement 27 128 license type Additional license 66 Demo license 66 Developer license 66 Full license 66 Presenter license 66 Processing Only license 66 Teaching license 66 license dat 67 68 69 71 72 141 173 174 176 201 254 255 licensing program 67 Imegr 67 Imhostid 70 Imutil 67 70 local Administrator 46 151 152 153 local printer 157 160 logon screen 226 Ip 221 LPD server 164 Is 221 M Mac address 70 man 222 Management Console 215 manual Acquisition Reference 259 AU Reference 259 ICON NMR 259 NMR SIM 259 Processing Reference 259 TOPSPIN Plot Editor 259 TOPSPIN Users Guide 259 MAPI client 151 MAXENT 65 Microsoft Internet Explorer 4 0 148 Microsoft Pop up Blocker 249 Microsoft Security Center 236 mkdir 220 221 mount 56 147 148 186 mv 221 My Computer 199 200 216 N nameserver 137 139 nbtstat 141 net start 141 net use 141 netbios 67 netstat 141 network 12 35 69 137 141 216 231 Network transfer 148 NFS S
256. uld be overwritten Bruker BioSpin recommends to answer this question with No unless you are sure you want to update this file from the Service Pack 15 9 Disk full or fragmented If you have disk space problems have a look at the Windows XP Online help Click Start Help Index 188 Troubleshooting 15 10 15 10 1 enter increasing disk space choose one subentry and click Display If you want to defragment your disk see chapter 19 3 Note that NTFS partitions which are required for TOPSPIN suffer much less from fragmentation than FAT partition Furthermore you might have to remove TOPSPIN data e g 1 Delete imaginary data using the deli command They are no longer needed for spectra which have been phase corrected 2 Delete processed data using the delp command They can always be retrieved by reprocessing the data 3 Delete raw data with the del command Please make sure you have a backup of the data Creating an Windows XP Boot Disk You can use a Windows XP bootable disk to start the operating system on a com puter running Windows XP Use the procedures in this article to work around the following boot issues e Damaged boot sector e Damaged master boot record MBR e Virus infections e Missing or damaged ntldr or ntdetect conm files e Incorrect ntbootdd sys driver You cannot use the Windows XP boot disk to help resolve the following issues e Incorrect or damaged device drivers that are install
257. urations This Installation Guide for TOPSPIN refers to the following configurations for Win dows XP Several functions e g Control Panel Start menu Windows Explorer can be configured in a Classic view mode or Category view mode Windows XP style These modes are not only different in style They can be different in the way commands are entered 1 4 1 Configure the Start Menu For this manual the Start Menu is configured in the Windows XP style e Click the RIGHT mouse button on the Taskbar click Properties e Click Start Menu gt click Start Menu gt click OK Taskbar and Start Menu Properties Taskbar Start Menu a re 3 O 4 y 3 amp onam Select this menu style for easy access to the Internet e mail and your favorite programs O Classic Start menu Select this option to use the menu style from earlier versions of Windows 1 4 2 Configure the Control Panel and the Windows Explorer For this manual the Control Panel and the Windows Explorer are configured in the Classic View style Introduction 21 e Click on the left side on Switch to Classic View Control Panel Ele Edit View Favorites vx Address control Panel g Control Panel witch to Category View See Also Windows Update Q Help and Support Tools Help Psn E Foder E Th Add or Remove Programs QB Administrative Tools T Broadcom Control Suite gt Date and T
258. usgusosaagcccanen 13 SpecialhP Hardware requirements sii icccssts ccusswnssrisasedieecsnsee se asear r Era eTEN ETE SP Ee NEEE IKIEL a ESVE 13 Spectrometer requirements 14 Avance systems with AQS rack 14 Avance systems with AQX AQR rack 16 Software requirements 19 Important Windows configurations 2 0 0 0 cece eeeeeecseeeseceeesecaeceaececeseeesenseeaeenes 20 Configure the Start Mem is cceestssveccciaiiasivcacceuensi i A EEEE OEE EEEE TE AES 20 Configure the Control Panel and the Windows Explorer cccscessescesceecseeeeeeeeesesceseeeceecaecaeceeeeseeaeees 20 Express Installation and Configuration of TOPSPIN sessssssesoesooesosseosoossossesssese 23 About this Chapter secsx cs seesiesthecae cs atinates el A T NE Installing TOPSPIN Configuring TOPSPIN If you want to use a default configuration on a datastation cccecesceeceeseeeeseeeeseceseeeeeeceecaeeeeeesneaeaes 28 If your PE controls a spectrometer sonieh eena ai a ES AA EEAO stedvedsungvesdceceteds 28 If you want to configure a processing PC like your spectrometer PC cceeceseseeeteeseeeceeceeeeeeeeneaeee 31 PartI TOPSPIN Installation and Configuration General Installing Information kihai Dian EERTE 235 3 1 Chapter 4 4 1 4 2 4 3 4 3 1 4 4 4 5 Chapter 5 5 1 Chapter 6 6 1 6 2 6 2 1 6 2 2 6 3 6 4 6 5 6 6 6 6 1 6 7 6 8 6 9 6 10 6 10 1 6 10 2 6 10 3 6 10 4 Chapter
259. ve a password d Click OK ATTENTION Remove this modified task before installing a new TOPSPIN version 2 Workaround 2 Disable the HID Service Human Interface Device Access and restart the compu ter Note Remove this modified task before installing a new TOPSPIN version 21 4 Script for saving important files TOPSPIN offers a script xwinnmr save for saving very important files that are not delivered by BRUKER This script can save and extract user specific data from the TOPSPINHOME directory and puts them into a tar file Files that start with an are ignored The script can be started as follows 258 Appendix e Click on the Bruker Utilities icon on the desktop Bruker Utilities gt Miscellaneous gt xwinnmr save cmd e For more information open the command prompt of the Bruker Utilities Bruker Utilities Command prompt and enter prog bin utilities miscellaneous xwinnmr save help Files and directories will be saved into the special tar file xwin_backup tar which is by default in the directory TOPSPINHOME xwin_backup The xwinnmr save script saves the same files and directories as the nmr_save AU program see chapter 8 7 The options for xwinnmr save starting from a command prompt are xwinnmr save options help path lt string gt restore lt string gt replace silent source lt string gt spect lt string gt additional information absolute path
260. vel RCU 2 4 part Z062488 requires no specific EC level RCU 3 4 part Z072488 requires no specific EC level RCU 4 4 part Z082488 requires no specific EC level RCU 1 5 part Z003206 requires no specific EC level RCU 2 5 part Z003207 requires no specific EC level RCU 3 5 part Z003208 requires no specific EC level RCU 4 5 part Z003209 requires no specific EC level 16 Introduction TCU 3 TCU required minimum EC level part H5813 09 with EC level between 00 and 19 l part H5813 28 with EC level between 20 and 29 part H5813V1 requires no specific EC level part H5813F2 requires no specific EC level part H5813F3 requires no specific EC level 1 3 5 Avance systems with AQX AQR rack e CCU Windows CCU required minimum EC level CCU 04 04 part H2552 CCU 05 05 part H2570 EC level 00 to 19 CCU 06 24 part H2570 EC level 20 to 29 CCU 08 43 part H2570 EC level 40 to 49 CCU 09 vies part H2570 requires no specific EC level ccu 11 l 2 part H2570V1 requires no specific EC level 1 Note that CCU 10 does not exist for AQX AQR spectrometers Further note that CCU 11 also exists for AQS spectrometers Introduction LINUX CCU required minimum EC level CCU 04 05 part H2552 CCU 05 06 part H2570 EC level 00 to 19 CCU 06 26 part H2570 EC level
261. when importing spectra from the clipboard or metafile do not display the contained information correctly Particularly when you resize the imported graphics sections of the text the spectrum or the axis sometimes have disappeared Usually this is only a display problem When you print the respective page the representation is correct 17 1 8 Store Export a Data Window as Graphics File The clipboard and metafile formats are resizable vector formats In addition to this TOPSPIN allows you to save the contents of a data window in a graphics file of selectable type e g png tif wmf etc To do that 1 Click Edit Export 2 Navigate to the storage folder 3 Enter the destination filename and extension 4 Click Export The resolution of such a screen dump equals the resolution of your screen When you import a graphics file into an other program you may loose information when resizing the graphics 17 1 9 TOPSPIN PLOT EDITOR 1 TOPSPIN PLOT EDITOR uses the printer driver system of Windows XP for any printer output This means that any printer for which a windows driver is cor rectly installed can be selected as print device Note that the printer name in a layout file written by the Windows XP version is probably not known by the UNIX version of TOPSPIN PLOT EDITOR because of the different printer han dling Apart from that layout files can be freely interchanged between the two platforms 2 TOPSPIN PLOT EDITOR uses the W
262. wrong For a default installation it must contain the lines Troubleshooting 185 spect root ASP_ST2 C Bruker Diskless clients spect root swap ASP_ST2 C Bruker Diskless clients spect swap dump ASP_ST2 C Bruker Diskless clients spect dum For a custom installation the path of Diskless can be different d If booting hangs at 3 in a loop and you get the messages a b like this domainname software bruker de mount root ASP_ST2 C Bruker Diskless clients spect root failed rpc status 15 PANIC vfs_mountroot cannot mount root syncing disks done then you might have one of the following problems e The Service Hummingbird NFS Server is not running Click Start gt Control Panel Administrative Tools Services Hum NFS Server Start e The path C Bruker Diskless clients spect is not ex ported see chapter 6 6 like this domainname software bruker de mount root ASP_ST2 c Bruker Diskless clients spect root failed rpc status 2 PANIC vfs_mountroot cannot mount root syncing disks done then you might have the problem that the drive letter of the diskless instal lation is written in lower case maybe caused by a custom installation To solve the problem you can either e De install Diskless and use for the new installation typical or make sure that the drive letter is upper case or e Open the file c Bruker Diskless WinApp bootparams and change
263. xt configura tion program e Continue with edsolv EA solvents table Solvent Description CH3CN D20 CH30H D20 D20 DEE acetic acid d4 acetone d6 benzene d6 hexafluorobenzene trifluorotoluene fluorobenzene methylenechloride d2 acetonitrile d3 chloroform d HPLC Solvent Acetonitril D20 HPLC Solvent Methanol D20 deuteriumoxide diethylether d10 dioxane d6 dimethylether d6 dimethylformamide d7 dimethylsulfoxide d6 ethanol d6 90 H20 and 10 D20 methanol d4 o dichlorobenzene d4 p dibromobenzene d4 p difluorobenzene pyridine d5 trifluoroacetic acid d tetrahydrofurane d8 toluene d8 Eem J Aageait Delete Restore J save _ Close Configuration of TOPSPIN 85 Check the list of lock solvents and click Save if it is correct Click Close e Continue with edhead edhead New Probe Copy Probe Rename Probe Delete Probe Current probe 5 mm TBI 1H BB 31P Z GRD 21234 0001 33 10 mm 1H 10 mm Multinuclear inverse 10 mm 2H 10 mm 13C 10 mm 15N 10 mm 31P 10 mm QHP 1H 15N 13C 31P 10 mm Multinuclear 10 mm Multinuclear low freq 15 mm 13 15 mm 15H 15 mm 31P 15 mm Multinuclear 20 mm 13C 20 mm 15N 20 mm 31P 20 mm Multinuclear 4 mm LCSEI 1H 13C Z GRD 4 mm FISEI 1H 13C Z GRD 5 mm TBI 1H BB 31P Z GRD Z1234 0001 Define as current probe Edit Probe Parameters Select the current probe click the button Define as current probe Click Exit e Continue with edpros
264. xtensions Windows XP Explorer and My Computer allow you to hide known file extensions like txt fm doc etc One of the problems when you hide them is that the editor Notepad appends the extensions t xt to files which do not have a known extension For example license dat is changed to license dat txt and thereby becomes unusable Therefore we recommend to configure My Computer such that it shows file extensions 1 Double click My Computer 2 Click Tools Folder Options View 3 Unselect Hide file extensions for known file types 4 Click OK This setting also applies to Explorer 202 File and directory handling 16 1 4 Search 16 1 5 16 2 The Windows XP Find program allows you to search files and directories accord ing to various criteria Suppose you are looking for the file named cosy a Click Start Search For Files or Folders or press F3 when the cursor is on the desktop background b Click the small arrow right of the field Look in select the drive on which you expect to find the file If you select My Computer all drives will be searched c In the field Named enter cosy d Click Find now All files which contain the string cosy in their name will appear in the result e g cosy cosygs pecosy You can directly open the file by clicking on it Further more you can also search for text files which contain a certain string if you define it in the field Containing Text Clicking
265. y Install updates from the Windows Update Web site You can also visit the Windows Update Web site on a regular basis to get updates for your computer The Web site provides the same high priority updates as Auto matic Updates but also offers optional updates that can help improve your compu ter s performance or add functionality to some of your programs Bruker BioSpin recommends to choose the option Download updates for me but let me choose when to install them because the option Automatic download rec ommend updates for my computer and install them could cause that the PC restarts automatically after the installation of an update 20 8 4 Antivirus 20 8 4 1 How to disable Antivirus Alertsform the Security Center If you are running Windows XP SP2 Windows Security Center should tell you about the status of your antivirus software and display an alert if it stops working Some antivirus programs are designed to report specific information about the pro gram to the Security Center However not all antivirus programs are designed to report to the Windows Secu rity Center In fact there are some antivirus solutions that the Security Center will not detect at all If you use an antivirus program that Windows does not recognize and you keep it up to date and properly configured you may want to disable the antivirus Security Center alerts Note You should only disable these alerts if you are sure that your computer is pro
266. y if a default gateway exists If your PC is not physically connected to the laboratory network you can use any IP address subnet mask and domainname for the external network configuration A frequently used IP address for such a standalone computer is 192 168 0 1 This address is not assigned to any network computer by world wide agreement However for the spectrometer internal network you must use the values as speci fied below Perform the following steps according to the necessities of your setup Create a New Network Connection SPAN A na Fk WwW NY Log in as Administrator Click Start Control Panel gt Network Connections A window Network Connections will appear Click on Create a new connection on the left side of the window A window Network Connection Wizard will appear gt NEXT Enable Connect to the Internet NEXT A window Now Getting Ready will appear Enable Connect using a broadband connection that is always on NEXT A window Completing the New Connection Wizard will appear Click FIN ISH Configuring the TCP IP of an existing Network Connection I An BR wWwWHN Log in as Administrator Click Start gt Control Panel Network Connections A window Network Connections will appear Highlight the connection you want to configure File Properties Highlight the TCP IP entry and click Properties The window Internet Protocol TCP IP
267. your system If one or more of these services are not running e Reboot the computer and check again If rebooting does not solve the problem then proceed as follows If the NUTCRACKER Service bfs and or bootparam are not running e Re install TOPSPIN and DISKLESS see chapter 6 4 If the Hummingbird NFS Server and or Port Mapper are not running e Remove the NFS Server directory normally C Program Files NfsSrvr nt e Re install the NFS Server see chapter 4 3 6 Carefully check the NFS Server configuration see chapter 6 6 15 1 2 The Event Viewer If you have any problems on your Windows XP host it is always a good idea to look at possible Events which caused them Click Start gt Control Panel Administrative Tools Event Viewer A window Event Viewer will appear e Click Application Log to see Application Events e Click System Log to see System Events e Click Security Log to see Security Events 3 Double click on an Event to get more information on it 4 Note that Events do not necessarily indicate problems If fact there are three type of events Information Warning and Error To prevent the Event Log from getting full we recommend to do the following 5 Click on one of the three Log s e g System Log Action Properties Troubleshooting 173 6 A window System Log Properties will appear 7 Set the When maximum log size is reached to one of the following e
268. your system If you click Yes on the installation configure the firewall for you Question WindowsXP Service Pack 2 is installed on your system If the firewall has not been disabled it must be configured to enable spectrometer access The installation can do this now or an Administrator can do it any time later running F Bruker topspin1 3 prog bin Utilities Miscellaneous setfirewall cmd Shall the installation configure the Firewall For you now 11 A window Select Components will appear You can either import no spec trometer configuration or browse for a spectrometer configuration or select one of the configurations you get offered within this window Select Components Select a spectrometer configuration to import There is none in the current installation path want to select another spectrometer configuration to import spect datastation in F Bruker topspin1 2 spect in F Bruker topspin1 2 Copy of spect in F Bruker topspin1 2 walter spect in f bruker xwin nmr station in f brukersxwin nmr specttest in f bruker xwin nmr Show more spectrometer configurations to import lt Back Cancel The configurations that are shown in this picture are just an example On your PC this list could look different e Click Next 1 The firewall must be configured to enable spectrometer access 2 The installation process will offer all configurations which are available in the TOPSPIN XWIN NMR in

TopSpin 1.3 - Installation Guide for Windows XP

Contents

Download Pdf Manuals

Related Search

Related Contents