Manual for SAXS2
Contents
1. 34 MASKIN CERT E 34 PAU CT AGING TET mm 35 Eilen uc 35 EO GING Big qo EE 35 Quick Experiment Overview eeeeessssssssssessseeene nennen nennen nnne nnne n annis 37 Exporting the AP OI E ER Tips for Exporting the AF Gal E 37 Known Limitations in AP on the Ganecha nennen 37 Many Measurements 0ccceecceecceeeceeeceeeeeeeeeeeceeeseueeeeeseueseeeeeeeteeeseueteeeteeeteeeseeeseeeseeees 38 Examples of many measurements ssssssssssssssseeee nennen nennen nnn nnne nnns 38 Changing CONFIQUIATIONS nennen nennen nennen 38 Changing Sa WOO REPETI 39 Constructing advanced sample descriptions cccceccceeeeceeeeneeesaeeeceeeeseeeseeeeseeeeaes 40 Constructing a macro for multiple actions with gedit 40 Executing a macro from per 40 nb En E TTE T Tr 41 The nature of an experiment ccccccceecceeeceeeceeeceeeseeeseeeseeseesaeeseeeseeeseeeseesseetsaeees 41 FSC TOMI Ol NOS M SPEO ERE Tm 41 YANG Beete RTT T Tm 42 Varying Temperature with the Julabo Circulating Heater Chiller 43 Useful Commands for the Julabo nennen nnns 43 An example macro eancecnacuntda cancun ceranouataiancvutoranetieatnaievotadehe diced cetadehedicadacietadeediceme 43 Varying Temperature with the Linkam Heater stage 44 Useful Commands for the Linkam Heater Gage 44 Reger E2. WV c S SAXSLAB GANESHA Operators Manual Document OM 001 R1 1 January 12 2013 Page 2 of 64 a S SAXSLAB TABLE OF CONTENTS Contents MOGUC psc EE IE 5 SR EE 6 epe ODIE Tue e le m tO m 7 SPIE N re 8 Detector Chamber Motion Beam Stop and Pin diode 10 Ports and Valves isOnckis cec aspi suDErOP cxx RV DeDu AV bc Rubr RV PLUR AUC RUbE EUROS RUE EM RTREADUEUN 10 ma 216 9n NERONE 12 Coolers Source Detector and Pump nnn 13 Sample holders and stages not all may be available for your system 14 Getting Oriented on the Computer Desktop 15 SAMO SCS ON EE 16 The 4 desktops and the 2 ecreeng eene 16 MINIMIZINO deele RP 17 General Organization SUGGSSTONS sess dimiatc vanae peo PE ETE TOR A OE ISE naaa 17 Starting up the Eege el EE 17 Important SAXSLAB Programs and VW mdowe eesnnennesneesnensrrrsrrenrrrerrrerrrrrrreerreene 18 we pesm 18 Sample Viewer Hav am 19 PINIO c 20 I m e 20 Th various Servers EE 21 D i NOIL 9 EEATT T TT EE 22 A measurement is actually a string of measurements 22 A EE ee ed 23 IO eee te E 23 Planning your measurement what are you looking for ccceeeeeeeeeeeeeeeeseeeeeeees 23 Checking the instrument performance n
3. SAXS Related Commands Prepares SPEC for SAXS image measurements Connect and control Pilatus Camserver Releases control of the Pilatus Camserver Releases SPEC from SAXS image measurements Measures for a total of time seconds saving an images each 15 seconds FRAME TIME 215 Filename is consecutive Measures for time seconds and saves the image Filename is consecutive number Measures for time seconds and saves the image in a temporary file called temp tiff Continuously measures images time seconds long and saves the images in a temporary file called temp tiff which are continuously overwritten Measures for time seconds and saves the image in a file called filename tiff Gives the next saved file a brief description Defines a blank position no sample Measure the relative transmission at this location with respect to the blank Vacuum Related Commands evacuate system vent system Capalign motor half range Zintervals User Manual UM 300 R1 1 dated 1301 12 01 Evacuate the SAXS system Vent the SAXS system Misc commands Performs an absorption scan of a capillary in a hole and move to the capillary center as Sin SAXSLAB julabo_start julabo_end julabo counter on julabo counter off julabo get temperature julabo get setpoint julabo set setpoint temp julabo stabilise s p stabilization time maxtime julabo watch maxtime julabo cool timescan counting time sleep time loopscan npoints counting ti
4. gt mv_beam2bstop gt mv ysam ysamblank gt mv zsam zsamblank blankpos def gt mv ysam ysam roughpos gt mv zsam zsam roughpos gt capalign ysam 2 40 1 gt transmission_ measure gt SAMPLE_DESCRIPTION my sample use bsmask gt SAMPLE THICKNESS 2O 1 User Manual UM 300 R1 1 dated 1301 12 01 Page 31 of 64 as S SAXSLAB The Measurement The Measurement command and on screen feedback Given all the preparation from before we now just need to issue the command gt saxsmeasure time Where time is the desired exposure time in seconds Once the measurement has started a number of messages are output to the spec window One should just look at the output screen to make sure that a file is actually recording If it is not recording it is likely that one has forgotten the gt Saxson spec command Monitoring the measurement from SAXSGUI SAXSGUI has recently been upgraded to allow it to monitor the development of the data gathering both in a 2D image and in a 1D plot This functionality can be obtained by accessing the menu gt File gt Open Latest cont In SAXSGUI at T View Aner Ohion faktis Makine Proomng 0 1 2 3 4 E i H e B B User Manual UM 300 R1 1 dated 130112 01 Page 32 of 64 S SAXSLAB Monitoring the measurement remotely by Teamviewer All systems come with Teamviewer installed Teamviewer is a state of the art desktop sharing software with free usage for non com
5. lt hp2 gt 0 021495 lt hp2 gt lt vg2 gt 0 399987 lt vg2 gt vp2 0 036322 vp2 lt hg3 gt 1 lt hg3 gt lt hp3 gt 0 018173 lt hp3 gt lt vg3 gt 1 lt vg3 gt lt vp3 gt 0 071946 lt vp3 gt lt ysam gt 73 64 lt ysam gt lt zsam gt 53 6 lt zsam gt lt thsam gt 0 lt thsam gt lt detx gt 0 lt detx gt lt dety gt 0 520781 lt dety gt lt detz gt 0 253219 lt detz gt lt bstop gt 42 12 lt bstop gt lt pd gt 10 lt pd gt lt source_type gt MM002 lt source_type gt lt source_runningtime gt lt source_kV gt 42 User Manual UM 300 R1 1 dated 130112 01 Page 63 of 64 SAXSLAB kV source kV source ma 0 95 mA source ma xaxis lt xaxisfull gt yaxis error norm fact 1 error norm fact lt xaxisbintype gt lin lt xaxisbintype gt lt log gt log lt log gt reduction type s reduction type reduction state raw filename mask filename flatfield filename empty filename solvent filename darkcurrent filename readoutnoise filename zinger removal 0 zinger removal data added constant 0 data added constant data multiplied constant 1 data multiplied constant Img lt Class gt MonitorMethod ImgType 2D ImgType Site KU LIF Site Group lt Researcher gt lt Operator gt lt Administrator gt Img Meas Description silverbeh Conf 1 lt Description gt lt Meas gt lt ROOT gt latest_0000174_craw silver
6. There may be sample stages that have not been calibrated Goniometer Motions The standard motors and motions in the sample goniometer are e Zsam Vertical motion Z axis A total travel of 80 mm is available e ysam Horizontal motion Y axis A total travel of 80 mm is available e thsam Rotation around the vertical Axis thetat motion 4 180 mdegrees The position of these motors and all the others can be seen by the spec command gt WU The motors can be moved with the commands examples gt mv zsam 10 gt umv ysam 40 mvr zsam 5 gt umvr thsam 1 The place where the beam hits the sample can be scanned by the command ascan zsam 30 45 151 which scans zsam from pos 30 to 45 in 15 intervals counting 1 second per interval gt dscan ysam 3 3 12 1 which scans ysam relatively from relative pos 3 to relative position 3 in 12 intervals counting 1 second per interval However do remember to insert the pin diode and open the x ray shutter so the overall measurement will have the following command flow User Manual UM 300 R1 1 dated 1301 12 01 Page 26 of 64 as S SAXSLAB gt pd_in 0 shut gt dscan ysam 3 3 12 1 gt c_ shut pd out A scan of a hole in a sample in a block could look like this SAX AT Garwsha Vwrrgie Vie fic Afomesassi amvon ax Cut Aligning the sample by using the on axis camera The on axis camera helps to obtain a rough idea of where the sample is The c
7. With the file is saved it is possible to call this macro function by the following spec command qdo directory filename User Manual UM 300 R1 1 dated 1301 12 01 Page 41 of 64 as S SAXSLAB An Experiment The nature of an experiment The above examples have all been examples of simple measurements i e 1 Measure a sample for a certain amount of time in one configuration 2 Measure a sample in a number of different configurations 3 Measure many samples in one or more configurations But often there is a need to do more complicated measurements where typical characteristics of the sample are altered For example performing measurements at different temperatures In these more complicated scenarios we speak of experiments Due to their complexity the experiments yield themselves well to inserting the command sequences into macros Free form or loops in SPEC An experiment can of course be written into a macro as a series of individual measurements the freeform commands shown are not actual spec command Prepare experiment Set temperature to 10 degrees Describe Sample Measure Set temperature to 12 degrees Describe Sample Measure But one can also use the loop structures available in spec Prepare experiment For icnt 1 icnt lt 5 icnt Mytemp icnt 1 2 10 set temperature to Mytemp Describe Sample Measure This loop will measure 5 times starting at 10 degrees and finishing at 18 In such
8. configuration 1 is a factor of 4 5 higher than in the MAXS configuration and again a factor 4 5 higher than in the SAXS configuration and once again a factor 4 5 more than in the extreme SAXS regime Flux is one of the most expensive things in an x ray instrument so think about the resolutions and the q range you need and run your measurement accordingly In general it is also our impression that users who are looking for Peak Positions and Particle sizes spend much too much time measuring to get the low intensity portions of the curve to look nice Think about what you are looking for measure it to the accuracy that you need and move on User Manual UM 300 R1 1 dated 1301 12 01 Page 24 of 64 as Sin SAXSLAB Checking the instrument performance In order to use the system you need to make sure The instrument control computer is on The detector control computer is on The Motor Drive and controller is on The SAXSLAB software environment is running The pump and the pump cooler are on The x rays are on and at full power The pressurized air is on The camera is on That the remote disk containing the data is accessible C cd ed TM If any of these are not satisfactory you can contact the instrument responsible or try to fix it yourself as outlined in Appendix 3 If the system is not running at all you should contact the instrument responsible or try to start it yourself as outlined in Appendix 4 Prepari
9. cosmic background reduction from SAXSGUI User Manual UM 300 R1 1 dated 1301 12 01 Page 23 of 64 as Sin SAXSLAB A Measurement Initial Preparation In the following we will assume that you the user will be running the system on your own but that the instrument responsible has made sure the instrument is prepared for you i e that the instrument is turned on aligned calibrated and basically ready to go However before commencing you will need to think a little about the experiment prepare the sample check the instrument and mount the sample in the system Planning your measurement what are you looking for Before getting access to the instrument you should think about your measurement 1 What q range are you interested in 2 How strongly does your sample scatter 3 What are you looking for a Peak Positions and peak width b Particle sizes c Data that can be accurately modeled over a large q range The answers to the above questions will determine how you run your experiment and for how long you will run it Appendix 2 has a table of the available standard configurations for this system It shows aperture sizes detector distances q range and intensities In planning your measurement understanding this table is crucial The first thing to realize is that in the routine running of the instrument you have a unique chance to trade off resolution for intensity The intensity available in the WAXS configuration
10. running and reporting These may be useful in case of trouble but would otherwise not be needed e Desktop 2 and 3 could be used for data analysis and web access Starting up the SAXSLAB programs On the desktop you will find an icon called Start SAXSLAB Right click this and choose open This action will first splash up a SAXSLAB banner and then open up a whole array of programs and windows needed to run the SAXS system While this is happening the user should let the computer be When the banner disappears the user a SAXSLAB can take control of EA eene Zosen the computer again User Manual UM 300 R1 1 dated 130112 01 Page 18 of 64 as S SAXSLAB Important SAXSLAB Programs and Windows All the important programs required for running the instrument are invoked when you open the Start SAXSLAB Icon on the desktop If some of these are missing you can simply open Start SAXSLAB again opec and c plot uH Push gi AL 3 us Lmgteegi OE at 46508 ue mx RO e Sg opec shown here in the white terminal may also be a purple terminal is the main program for controlling the instrument Control is exercised through writing commands on the line at the prompt This command line approach is extremely flexible and powerful Higher level commands for the SAXS system are available and are typically defined in macros residing in files in the directory usr local lib spec d An incomplete list of useful commands c
11. 003 2 013602e 006 2 871761e 001 1 004504e 003 1 009028e 006 2 879097e 001 1 004542e 003 1 009105e 006 2 886432e 001 1 240952e 003 1 539963e 006 2 893767e 001 0 000000e 000 NaN 2 901103e 001 0 000000e 000 NaN 2 908438e 001 0 000000e 000 NaN 2 915773e 001 0 000000e 000 NaN 2 923109e 001 0 000000e 000 NaN 2 930444e 001 1 055054e 002 1 113139e 004 2 937780e 001 NaN NaN 2 945115e 001 NaN NaN HHEADERS latest 0000183 craw silverbeh Conf 3 User Manual UM 300 R1 1 dated 1301 12 01 Page 61 of 64 as Sin SAXSLAB lt xml version 1 0 encoding utf 8 gt lt ROOT gt lt det_pixel_size gt 0 000172 0 000172 lt det_pixel_size gt lt det_thickness gt 0 00032 lt det_thickness gt det exposure time 1800 det exposure time det exposure period 1812 det exposure period det tau 3 838e 007 det tau det count cutoff21077896 det count cutoff det threshold setting 4024 det threshold setting det n excluded pixels 19 det n excluded pixels det excluded pixels badpix mask tif det excluded pixels det flat field FF p300k0138 E8048 T4024 vrf mOp15 tif det flat field det trim directory p300k0138 E8048 T4024 vrf mOp315 bin det trim directory lt detectortype gt PILATUS 300K detectortype start timestamp end timestamp save timestamp realtime lt livetime gt 1800 lt livetime gt pixelsize 0 172 0 172 pixelsize beamcenter nominal 201
12. 12 01 Page 39 of 64 a SS SAXSLAB Changing Samples Another example is moving to a different location evacuate_system Evacuate the system do_sleep 250 Waits for the evacuation conf ugo 2 Go to configuration 2 saxson Make sure spec knows we want to communicat mv beam2bstop Adjust the detector mv ysam ysamblank Move to the Y position of the blank sample position mv zsam zsamblank Move to the Y position of the blank sample position blankpos def Define this position as the blank mv ysam ysam_roughpos1 Move to the sample Y position nominal mv zsam zsam_roughpos1 Move to the sample Zposition nominal catalign ysam 2 40 1 Align the capillary transmission measure Measure the sample transmission and Izero SAMPLE DESCRIPTION 7 my sample 1 in conf 2 use bsmask Use a beamstop mask for processing SAMPLE_THICKNESS 0 1 Use a sample thicknes in cm for processing saxsmeasure time ZMeasure for an amount of time Now for new sample ysam ysam_roughpos2 Move to the sample Y position nominal mv zsam zsam roughpos2 Move to the sample Zposition nominal catalign ysam 2 40 1 Align the capillary transmission measure Measure the sample transmission and Izero SAMPLE_DESCRIPTION my sample 2 in conf 2 use bsmask Use a beamstop mask for processing SAMPLE THICKNESSz20 1 Use a sample thicknes in cm for processing saxsmeasure time ZMeasure for an amount of time User Manual UM 300 R1 1 dated 1301 12 01 Page 40
13. DEFAULT REDUCTION RECIPE START xaxis xaxi riull yaxis error norm facts d xaxisbintype lin LOO LOO eduction type s ed ction state raw filename mask filename rtlatrrield frlen me empty filename solvent filename darkcurrent filename readoutnoise filename zinger removals H data added constant U data multiplied constant 1 DEFAULT REDUCTION RECIPE END SLDS START Iimqg Classs Img MonitorMethod Img ImgType 2D Img orte RU BIE 1mg Group Img Researcher Img Operator Img Administrator imd DescrJjpuUbon Meas Description PSPEO a Conf 3 MeasTime 1800 000000 SLDS END SAXSLAB METADATA END H H H SE cH cHe cH cH cHe cH cHe cH cH e cH che cH cH e cHe cH che cH cHe cH cH e cHe H che E od User Manual UM 300 R1 1 dated 1301 12 01 Temp 110 000000 Page 47 of 64 SAXSLAB Appendix 2 Standard Configurations Conf Mne Description DETX Sample Ideal Aperture qmin qmax lo Det beam size Mphs La wo LN Lal e ree Rte a cu e ue ciel 10 07 04 4 E Extreme 1400 1540 amm 0 2 0 1 0 003 0 21 0 3 SAXS SAXS 0 3 User Manual UM 300 R1 1 dated 1301 12 01 Page 48 of 64 Page 49 of 64 as S SAXSLAB Appendix 3 Checking that the instrument is ready Before you can measure with the instrument the following have to be fullfilled The instrument control computer is on The detector control computer is on The Motor Drive
14. Sets setpoint to s p and logs temperature until the temperature is reached Unless maxtime is exceeded Returns current temperature of Linkam stage Get current temperature of Linkam stage Get current ramp rate for Linkam stage Get current setpoint for Linkam stage Sets the temperature ramp rate to rate degrees per minute Sets the temperature to temp degrees Sets the pumpspeed to nn Logs the temperature for maxtime Cools the Linkam stage as fast as possible Page 60 of 64 as S SAXSLAB Appendix 6 SAXSLABS GRAD format Generalized Radial Format Example of a single file The file starts out with a 3 lines describing the data in the file Then a line indicating that the data is starting but first some lines with denominations The data is comma separated mol and deltal format After the data the complete header is given in XML format oee an example here 1 Number of Datasets 3 Number of Columns per Dataset 400 Maximum Number of Rows for Any Dataset DATASETS q units Angstrom l units A U latest 0000183 craw silverbeh Conf 3 q dl 1 830175e 003 4 187610e 002 3 738704e 004 2 563712e 003 3 768850e 002 2 367372e 004 3 297249e 003 3 195810e 002 1 896544e 004 4 030787e 003 6 404026e 001 1 235938e 001 4 764324e 003 1 916254e 002 6 681762e 001 5 497861e 003 1 342785e 002 3 474193e 001 6 231398e 003 7 794415e 001 1 452430e 001 6 964935e 003 4 848007e 001 7 050067e 000 2 864426e 001 1 687502e
15. and controller is on The SAXSLAB software environment is running The pump and the optional pump cooler are on The x rays are on and at full power The pressurized air is on The camera is on That the remote disk containing the data is accessible So Noe er ar Checking if the instrument control computer is on The green light on the upper right hand corner is on If itis Orange press it for a couple of seconds to start the computer If it is green but you have no signal on the monitors move the mouse a bit to see if the monitors liven up If not then try the standard things mouse batteries loose cables etc If nothing helps it may be necessary to turn off the Instrument Control Computer by holding the on button in for 8 seconds and then restarting Checking if the detector control computer is on There is here a button on the left side of the detector control computer which is green if It is on If not press it Checking if the Motor Drive and controller is on The Motor Drive and Controller is on if the green light on the front panel toggle button is on There should also be a clearly audible hum from the fan If it is not on turn it on Checking if SAXSLAB software environment is running Press Start Saxslab to start opening the all the software If you later notice that something has not started this indicates a serious fault and you should contact your instrument responsible Checking if the pump and cooler is
16. choose the averaging parameters and reductions interactivey Basic Analysis Data Reduction and Averaging Specify a region by entering Let Fight Bottom and Top values Or ag your porter in the mage C Users arstenDesttiopeada mac MMorechifibersistwiibest 0000113 craw Sn Fra average niensfy vs momentum vans fer X was Pre Leg ioganthesc Number of Ports 199 Out average ritensdy vm acimuth Reductions and Corrections Redaction Type amp Spacta by Spectim VPoue ty Pore Mess 9 Bewrwisp Man Fethet Correctee Esgiy Hutter Gute cian Dart Cunrere Gupta acsen Iagtoal Uran Societ actis Sampe aam W Abeokte rte5sity Factor Zeg rechnen Seger mge w From the averaged plot one may inspect the data and perform simple analysis such as peak fitting and Guinier fitting Exporting the data From the averaged plot the data may be exported in various formats The GRAD format is the most comprehensive See Appendix 6 for a complete description of this format User Manual UM 300 R1 1 dated 130112 01 Page 35 of 64 Page 36 of 64 Kai TE Sin SAXSLAB H H H k H 4 L User Manual UM 300 R1 1 dated 1301 12 01 Page 37 of 64 a S SAXSLAB Automated Processing AP based on the metadata header SAXSGUI has been expanded to automate a lot of the tedious tasks associated with data reductions using the information in the metadata header
17. gt saxsconf wavelength 1 5408 saxsconf wavelength lt saxsconf_dwavelength gt 0 01 lt saxsconf_dwavelength gt saxsconf Izero 1 saxsconf lzero saxsconf det offx 0 saxsconf det offx saxsconf det offy2O saxsconf det offy saxsconf det rotx 0 saxsconf det rotx saxsconf det roty O saxsconf det roty saxsconf det pixsizez 0 172 saxsconf det pixsizez saxsconf det pixsizey20 172 saxsconf det pixsizey saxsconf det resx 0 saxsconf det resy 0 saxsconf abs int fact sample transfact 0 sample transfact sample thickness sample xpos sample ypos sample angle1 sample angle2 sample angle3 sample temp sample pressure sample strain sample stress sample shear rate sample concentation lt hg1 gt 0 399987 lt hg1 gt lt hp1 gt 0 189897 lt hp1 gt lt vg1 gt 0 399987 lt vg1 gt lt vp1 gt 0 002477 vp1 lt hg2 gt 0 299975 lt hg2 gt lt hp2 gt 0 030353 lt hp2 gt lt vg2 gt 0 299975 lt vg2 gt lt vp2 gt 0 039402 lt vp2 gt lt hg3 gt 0 7 lt hg3 gt lt hp3 gt 0 014128 lt hp3 gt lt vg3 gt 0 7 lt vg3 gt lt vp3 gt 0 077058 lt vp3 gt lt ysam gt 73 64 lt ysam gt lt zsam gt 53 6 lt zsam gt lt thsam gt 0 lt thsam gt lt detx gt 350 lt detx gt lt dety gt 0 533125 lt dety gt lt detz gt 0 440369 lt detz gt lt bstop gt 42 12 lt bstop gt lt pd gt 10 lt pd gt lt source_type gt MM002 lt source_type gt source runni
18. i i l toetzart Q 9e fo zm O saxslab12 8 e There are a number of looks that one may choose The one we use is gnome classic without features The 4 desktops and the 2 screens Most instruments will have 2 side by side screens where one screen will normally be used for interacting with the programs and the others for monitoring In this example we have the control program spec in the leftmost window and the sample viewer in the rightmost screen 776 55 034 776 551 034 In addition to these screens there are actually 4 individual desktops which can be accessed waww teamviewer com by clicking on the icon in the lower right corner of the left screen Desktops Such 4 screens are useful when one has many windows open User Manual UM 300 R1 1 dated 130112 01 Page 17 of 64 as S SAXSLAB Minimizing windows Windows can be closed minimized or maximized by clicking on the small icons in the upper left corner of the window The cross is closing the V is minimizing and the upside down V is maximizing When minimized the windows can be found in the bar on the SAXSLAB Ganesha Sample Vie bottom of the leftmost screen General Organization Suggestions Generally it is a good idea to keep similar tasks running in the same desktop Per default e Desktop 1 is used for interactive instrument control and monitoring e Desktop 4 is used for windows where various background processes are
19. lO and the transmission is stored in the variable SAMPLE TRANS User Manual UM 300 R1 1 dated 1301 12 01 Page 29 of 64 as Sin SAXSLAB Describing the measurement For entering into the header as well as the super log file master dat one may define the value of the spec variable SAMPLE DESCRIPTION like this gt SAMPLE_DESCRIPTION This is my sample in configuration 3 measured for 300 seconds This string is then saved to the file header and displayed in SAXSGUI when the file is loaded Additional Reduction Parameters In addition to these measured parameters one can also enter the following parameter SAMPLE THICKNESS20 1 where thickness is given in cm Beam Stop Mask To facilitate quick data reduction one can also specify a beamstop mask that will be applied to the data when reduced in SAXSGUI A beamstop mask particular to each configuration has been defined To invoke this feature one can write gt use_bsmask Telling SPEC that it is for real The command gt saxson is anecessary command to tell spec that this measurement is for real and that it needs to establish connection to the detector computer It can be entered anytime and is assumed on until a saxsdiscconnect command is given Pre measurement routine o0 the preparation of a measurement could look like evacuate system do sleep 250 User Manual UM 300 R1 1 dated 1301 12 01 Page 30 of 64 as S SAXSLAB gt conf_ugo 2 gt saxson
20. of 64 a S SAXSLAB Constructing advanced sample descriptions From the 2 examples above you can see there is a lot of repetition involved in these cases Yet generally you want the sample description to be quite specific about the measurement so here is a way to construct a very specific header Let s say myconf 2 conf ugo myconf saxson Make sure spec knows we want to communicat mv beam2bstop Adjust the detector mv ysam ysamblank Move to the Y position of the blank sample position mv zsam zsamblank Move to the Y position of the blank sample position blankpos def Define this position as the blank mv ysam ysam_roughpos1 Move to the sample Y position nominal mv zsam zsam roughpos1 Move to the sample Zposition nominal catalign ysam 2 40 1 Align the capillary transmission measure Measure the sample transmission and Izero strtmp sprintf Blah conf i IO i T 9of myconf loSAMPLE TRANS SAMPLE DESCRIPTION strtmp saxsmeasure 300 The sprintf command prints the values of myconf izero and SAMPLE TRANS to the oample Description String oprintf uses the same syntax for formatted output as the common computing commands sprint and fprintf Constructing a macro for multiple actions with gedit Rather than writing all of these commands on the spec command line they can be put in a txt file There is a decent text editor available gedit which can be used to write the series of command Executing a macro from Spec
21. of many measurements Changing configurations The command for changing configurations was conf ugo configuration number which becomes useful for example with many measurements of a capillary over many configurations evacuate system Evacuate the system do_sleep 250 Waits for the evacuation conf ugo 2 Go to configuration 2 saxson Make sure spec knows we want to communicate mv beam2bstop Adjust the detector mv ysam ysamblank Move to the Y position of the blank sample position mv zsam zsamblank Move to the Y position of the blank sample position blankpos def Define this position as the blank mv ysam ysam roughpos Move to the sample Y position nominal mv zsam zsam roughpos Move to the sample Zposition nominal catalign ysam 2 40 1 Align the capillary transmission measure Measure the sample transmission and Izero SAMPLE DESCRIPTION my sample in conf 2 use bsmask Use a beamstop mask for processing SAMPLE THICKNESSz20 1 Use a sample thickness in cm for processing saxsmeasure time ZMeasure for an amount of time Now for new configuration conf ugo2 Go to configuration 2 mv beam2bstop Adjust the detector transmission measure Measure Sample transmission and lzero SAMPLE DESCRIPTION my sample in conf 2 use bsmask Use a beamstop mask for processing SAMPLE THICKNESSz20 1 Use a sample thickness in cm for processing saxsmeasure time ZMeasure for an amount of time User Manual UM 300 R1 1 dated 1301
22. on You will be able to hear if these are on If the pump cooler for the dry pump is not on the dry pump will stop after a couple of minutes User Manual UM 300 R1 1 dated 1301 12 01 Page 50 of 64 as Sin SAXSLAB Checking if the x rays are on and at full power If X rays are on the orange lamp on top of the instrument will be lit If the generator is at full power the settings should be close to 50kV 60mA but slightly zap v i also inquire about these values by using the spec commands gt p genix get HT gt p genix get current Checking if the pressurized air is on Pressurized air is required for purging the detector clean dry air and providing power to open the ventilation and evacuation valves You should hear a slight hissing from the pipes if the air is on You can also try to operate the vent valve by using the spec commands ventvalve open ventvalve close and listening for the sound of air hissing as the valve changes state Checking to see if the camera is on There will be 2 green lights on the camera underside Power and Communication Of course the image should also be displayed in the sample viewer window Checking to see if the remote disk disk2 is mounted Data is located on the detector computer disk which is remotely mounted for access To check if the remote disk has mounted correctly open a terminal on the linux desktop and write This command should list the directories latest ima
23. together We save both the summed image and the complete measurement history There are a couple of advantages to this approach 1 The dynamic range of the measurement becomes higher 2 We can observe the experiment progression each time the short measurement is finished 3 We can use a time slice of the data if at some point the measurement fails 4 We can track the scattering as a function of time 5 We can perform advanced noise reduction by comparing the short measurement with each other in various ways For practical purposes we have chosen a time interval for the short measurements of 15 seconds A 3600 second measurement therefore actually consists of 240 images As a result of the measurement the following files are generated Filename disk2 data latest latest nnnnn craw tiff A tiff file that is all the time updated to include the latest taken data i e this file is the real time sum of all the short measurements This file has the full header information inserted disk2 data images im nnnnn craw tiff A tiff file that is created at the end of the measurement and is the sum of all the data taken during the short measurements It should therefore be equal to the latest nnnnn craw tiff This file has the full header information inserted disk2 data frames frames nnnnn craw zip A zip file containing the short measurements as well as a file with the Metadata This file is not readable by SAXSGUI but may be processed for
24. 5 279 5 beamcenter nominal beamcenter actual O O beamcenter actual data mean data min data max data rms data p10 data p90 lt calibrationtype gt geom lt calibrationtype gt lt kcal gt pixelcal koffset lt wavelength gt 1 5408 lt wavelength gt detector dist 1056 2 detector dist saxsconf r1 saxsconf r2 saxsconf r3 saxsconf 1 saxsconf 2 saxsconf 3 saxsconf l4 saxsconf wavelength 21 5408 saxsconf wavelength lt saxsconf_dwavelength gt 0 01 lt saxsconf_dwavelength gt saxsconf Izero 1 saxsconf lzero saxsconf det offx20 saxsconf det offx saxsconf det offy20 saxsconf det offy saxsconf det rotx 0 saxsconf det rotx saxsconf det roty 0 saxsconf det roty saxsconf det pixsizez 0 172 saxsconf det pixsizez saxsconf det pixsizey20 172 saxsconf det pixsizey saxsconf det reen 0 saxsconf det resy 0 saxsconf abs int fact sample transfact 0 sample transfact sample thickness sample xpos sample ypos sample angle1 sample angle2 sample angle3 sample temp sample pressure sample strain sample stress sample shear rate sample concentation lt hg1 gt 0 299975 lt hg1 gt lt hp1 gt 0 276384 lt hp1 gt lt vg1 gt 0 299975 lt vg1 gt vp1 0 018415 vp1 lt hg2 gt 0 149987 lt hg2 gt lt hp2 gt 0 037719 lt hp2 gt lt vg2 gt 0 149987 lt vg2
25. 77792e 001 2 711755e 003 5 199792e 006 2 908438e 001 0 000000e 000 NaN 2 481884e 000 1 778828e 003 1 415086e 006 6 694634e 001 1 525676e 003 2 327689e 006 2 915773e 001 0 000000e 000 NaN 2 488128e 000 5 609853e 004 3 147045e 007 6 711476e 001 0 000000e 000 NaN 2 923109e 001 0 000000e 000 NaN 2 494372e 000 0 000000e 000 NaN 6 728318e 001 6 105230e 003 3 727383e 005 2 930444e 001 1 055054e 002 1 113139e 004 2 500615e 000 NaN NaN 6 745160e 001 NaN NaN 2 937780e 001 NaN NaN 2 506859e 000 NaN NaN 6 762002e 001 NaN NaN 2 945115e 001 NaN NaN HEADERS latest 0000165 craw silverbeh Conf 1 lt xml versionz 1 0 encoding utf 8 gt lt ROOT gt det pixel size 0 000172 0 000172 det pixel size det thickness 0 00032 det thickness det exposure time 180 det exposure time det exposure period 181 2 det exposure period det tau 3 838e 007 det tau det count cutoff21077896 det count cutoff det threshold setting 4024 det threshold setting det n excluded pixels 19 det n excluded pixels det excluded pixels badpix mask tif det excluded pixels det flat field FF p300k0138 E8048 T4024 vrf mOpi15 tif det flat field det trim directory p300k0138 E8048 T4024 vrf mOp15 bin det trim directory lt detectortype gt PILATUS 300K detectortype start timestamp end timestamp save timestamp realtime lt livetime gt 180 lt livetime gt lt pix
26. O O EE 44 Appendix 1 The SAXSLAB metzdata header 45 Appendix 2 Standard Configurations enne 48 Appendix 3 Checking that the instrument ereach 49 Checking if the instrument control computer is On seeeeeeeeeeeeeeeeeeee 49 Checking if the detector control computer is on 49 Checking if the Motor Drive and controller is on 49 Checking if SAXSLAB software environment is running eese 49 Checking if the pump and cooler is on 49 Checking if the x rays are on and at full power 50 User Manual UM 300 R1 1 dated 1301 12 01 Page 4 of 64 as S SAXSLAB Checking if the pressurized air is on 50 Checking to see if hecamergison enne 50 Checking to see if the remote disk disk2 is mounted 50 Appendix 4 Sample Preparation for the Ganesha SAXS system 51 Preparing the sample s cccscccseeccseeceececseecceeeceueeceuecsueeceueeseeeceueeseueeseeessusenanss 51 Mounting the sampleis nennen nnn nnns 53 Appendix 5 Ganesha SAXS installation SPEC Quick Reference 12 06 20 56 Appendix 6 SAXSLABS GRAD Tomat 60 User Manual UM 300 R1 1 dated 130112 01 Page 5 of 64 as Sin SAXSLAB Introduction Dear User You are about to use the most advanced and versatile laboratory based Small Angles X Ray Scattering system in the world of 2013 That such an instrument is available for the labora
27. Quick Experiment Overview If one uses the Next and Previous buttons in the panel one can quickly investigate a series of measurements The radial CS E of each new e is added to the SS Exporting the AP data When many files are generated the interactive reduction becomes tedious However using the metadata information it is possible to automatically process the files and save e 2D images e 1D plots e Data in SAXSLAB GRAD format see Appendix 7 for examples This can be done by going to Processing gt Autoprocess AP with Metadata Then you will be prompted for which files to process and which directory to save the processed data to Tips for Exporting the AP data The automated processing uses the sizes of the windows to generate the images If you find that the plots in the automated images do not look nice try making the size of the window larger Known Limitations in AP on the Ganesha SAXSGUI as in any other software package in always in development with a timeframe determined by priority and difficulty User Manual UM 300 R1 1 dated 130112 01 Page 38 of 64 as Sin SAXSLAB Many Measurements In the previous sections we showed how to prepare and measure a single sample in a single measurement Of course normally one would want to investigate the sample for a broader range of q values than accessible with a single measurement or measure several samples Both examples are explored below Examples
28. TA START saxsconf rl SaxSconr 423 saxsconf r3 saxscontf li Saxscour La Ssaxscont 15i saxsconf 14 saxsconf wavelength 1 5408 saxsconf dwavelength 0 01 Saxscont Izero 2411938 Saxscont det orfx U csaxsconr det Oriy 8 caxscohr der rot U saxscohnfr der POLys 8 Saxeconrt det prxelzez 0 172 Saxsconf det pixsizey Ke User Manual UM 300 R1 1 dated 1301 12 01 Page 45 of 64 as S SAXSLAB H HHHH E E H cH H cH cH cH cH cH EHEHEHEH EHHE EHH H H H GR saxsconf det resx 0 Saxscont der sesy U EEDOSOODE abs GNE face CONFIGURATION METADATA END SAMPLE METADATA START sample Eranstact 0 00000 sample thickness sample xpos Sample ypas sample anglel sample angle2 sample angle3 Sample temp sample pressure sample strain sample Stress Sample shear race sample concentation SAMPLE METADATA END SSEEC METADATA START hole 0 299975 hpl 0 084741 vgl 0 299975 VOL e0 010509 hoz D149997 hp2 0 003747 E D l49997 Voz D 05LIISI Hg 0 260010 hos 0 009961 vos Di3600l0 Vpos 0 093097 ysam 41 840000 zsams 392290000 thsam 0 000000 d tz 930000000 detys 0 915315 detz 0 890944 bstop 42 120000 pda 10 000000 SPEC METADATA END lt GENERATOR METADATA START source type MMO002 source runnzngtuime source kV 42 kV Source Mas 0 95 MA XGENERATOR METADATA END gt User Manual UM 300 R1 1 dated 130112 01 Page 46 of 64 as S SAXSLAB
29. Viscous Liquids samples User Manual UM 300 R1 1 dated 1301 12 01 Page 52 of 64 as S SAXSLAB Viscous liquids are difficult to get in and out of capillaries As a consequence we use holders where the viscous liquids are sandwiched between 2 thin sheets of either Mica or Kapton 10 mm diameter These are intended for use with the Linkam stage but can be mounted anywhere We prefer Mica windows since scattering is very low and very uniform However since absorption is high in Mica the windows must be very thin and thus unfortunately become costly 4 for 5 7 micron thick window SAXSLAB can supply the required Mica sheets User Manual UM 300 R1 1 dated 1301 12 01 Page 53 of 64 a S SAXSLAB Mounting the sample s The systems would normally be supplied with this stage e A 2D ambient temperature stage where 42 sample positions are provided And may then contain the following optional stages e A JSP multi capillary holder for capillaries both refillable and non refillable with temperature control 5 70C e A special vacuum adapted Linkam thermal stage for thermal analysis which allows for mounting one flat solid sample one capillary inserted into the thermal block or one sandwich cell Temperature range 1s 150C 300C The maximum heating cooling rate of 30 C min User Manual UM 300 R1 1 dated 130112 01 Page 54 of 64 a S SAXSLAB Generic Stage Samples can be fixed t
30. alue final value n of steps time per step counters setplot plotselect Ctrl C newsample User Manual UM 300 R1 1 dated 130112 01 to run spec session from UNIX window list of all defined motors with its user and dial values list of all defined motors with its user values where motors user and dial values soft limits of motors absolute move of a motor by number mm or relative move of a motor by number mm or updated absolute move of a motor by number mm or updated relative move of a motor by number mm or absolute scan remember to open shutter before running this relative scan remember to open shutter before running this relative scan which goes to the peak afterweards define your counters define parameters of the plot on the screen define counters to be plotted stop execution of a command Allows to define parameters for new sample filename plot window etc as Sin SAXSLAB prdef macro name Isdef name Page 57 of 64 listing of commands in a known macro list of known macros conatining string name Beam stop and Pin diode Related Commands change_bstop_conf bstop_in bstop_out pd in pd out Change the desired beam stop position configuration Move the beam stop into nominal position Move the beam stop out of the detector area Move Pin diode into beam Move Pin diode out of beam Configuration Related Commands what conf conf go conf conf ugo conf con
31. an be found in Appendix 5 which should at all times serve as a cheat sheet and be available in hardcopy near the computer A typical action is to scan over a part of you sample and record the transmitted intensity The results of such a scan are plotted by the program C plot which is shown in the upper part of the image above The C plot window will not normally be displayed when opec is started User Manual UM 300 R1 1 dated 1301 12 01 as Sin SAXSLAB Sample Viewer RayCam A completely standard and very useful feature of the Ganesha SAXS system is the Sample Viewer which has an on axis view to the sample The combination of camera lens and curved optic with a hole in it to let the x ray through actually provide a microscope view of the sample that is streamed to a small dedicated viewer Page 19 of 64 The RayCam viewer is a new internal development and has only been with users since November 2012 Please report problems and bugs so that we may address them The viewer allows one to position a while a cross which can then be used as a reference for the beam position when aligning samples When you have defined the cross you may lock the position so that it cannot be moved unless it is unlocked again Several crosses can be defined but only one shown at a time One can calibrate the viewer so that the scale is actually represent real sizes Also one may use the viewer to zoom It zooms in around
32. arge number of sample stages can be inserted into the large sample environment The position sensitive detector is a Pilatus detector combining the best of single photon counting dynamic range and robustness The detector can be moved over 1300 mm allowing for measurement in WAXS MAXS SAXS and Extreme SAXS The beam stops there are 3 can be inserted and retracted for various purposes The same holds true for a large pin diode immediately in front of the beam stop User Manual UM 300 R1 1 dated 1301 12 01 Page 7 of 64 as S SAXSLAB Getting Oriented on the System Source Optic and Collimation Source WA c S SAXSLAB o A N t 2 H A User Manual UM 300 R1 1 dated 130112 01 as S SAXSLAB Sample Area A Leg Vacuum Chamber User Manual UM 300 R1 1 dated 130112 01 Sample Door Page 8 of 64 Sample Camera and Lens Page 9 of 64 a SS SAXSLAB Sample Goniometer Guard Aperture EM Entrance 7 een User Manual UM 300 R1 1 dated 1301 12 01 Page 10 of 64 EA wa X Detector Chamber Motion Beam Stop and Pin diode Detector Chamber A D Lei Insertable Hound r Y Motion e Insertable DETY T Large s Pin Diode X Motion DETX Li User Manual UM 300 R1 1 dated 1301 12 01 Page 11 of 64 a Se SAXS Ports and Valves Detector Chamber Flange Detector Motion Flange Evacuation Valv
33. beh Conf 2 lt xml version 1 0 encoding utf 8 gt lt ROOT gt lt det_pixel_size gt 0 000172 0 000172 det pixel size lt det_thickness gt 0 00032 lt det_thickness gt lt det_exposure_time gt 600 lt det_exposure_time gt lt det_exposure_period gt 604 lt det_exposure_period gt lt det_tau gt 3 838e 007 lt det_tau gt lt det_count_cutoff gt 1077896 lt det_count_cutoff gt lt det_threshold_setting gt 4024 lt det_threshold_setting gt lt det_n_excluded_pixels gt 19 lt det_n_excluded_pixels gt lt det_excluded_pixels gt badpix_mask tif lt det_excluded_pixels gt lt det_flat_field gt FF_p300k0138 E8048 T4024 vrf_m0p15 tif lt det_flat_field gt lt det_trim_directory gt p300k0138 E8048 14024 vrf_m0p15 bin lt det_trim_directory gt lt detectortype gt PILATUS 300K lt detectortype gt start timestamp end timestamp save timestamp realtime lt livetime gt 600 lt livetime gt lt pixelsize gt 0 172 0 172 lt pixelsize gt beamcenter nominal 201 5 279 5 beamcenter nominal lt beamcenter_actual gt 0 O beamcenter actual data mean data min data max data rms data p10 data p90 lt calibrationtype gt geom lt calibrationtype gt kcal lt pixelcal gt lt koffset gt lt wavelength gt 1 5408 lt wavelength gt lt detector_dist gt 456 2 lt detector_dist gt saxsconf r1 saxsconf r2 saxsconf r3 saxsconf 1 saxsconf 2 saxsconf 3 lt saxsconf_ 4
34. cases it is very useful to construct the advanced sample descriptions as discussed above as for example SAMPLE_DESCRIPTION sprintf My Great Sample Temp d Mytemp User Manual UM 300 R1 1 dated 130112 01 as S SAXSLAB Page 42 of 64 Varying position To vary the position or angle of the sample one can use the commands mv umv mvr umvr as discussed earlier in this manual The sample motors that can be manipulated are ysam zsam and thsam SO a position scan could look as follows for icnt 0 icnt lt 10 icnt ysamstart 42 ysamstep 1 ysampos ysamstart icnt ysamstep mv ysam ysampos SAMPLE DESCRIPTION sprint Mysample ysam d A ysam use bsmask saxsmeaure 600 And of course one could make a 2D scan by enclosing the above loop within another loop for icnt120 icnt1 10 icnt1 zsamstart 10 zsamstep 1 zsampos zsamstart icnt1 zsamstep mv zsam zsampos for icnt220 icnt2 10 icnt2 ysamstart 42 ysamstep 1 ysampos ysamstart icnt2 ysamstep mv ysam ysampos tmp sprint Mysample xsam d ysam d A ysam A zsam SAMPLE_DESCRIPTION tmp use bsmask saxsmeaure 600 User Manual UM 300 R1 1 dated 1301 12 01 Page 43 of 64 as S SAXSLAB Varying Temperature with the Julabo Circulating Heater Chiller Useful Commands for the Julabo Julabo Thermostated Bath julabo_start Switches ON the Julabo Unit julabo_end Switches OFF the Julabo Unit julabo stabilise s p stabilization ti
35. cluded_pixels gt badpix_mask tif lt det_excluded_pixels gt lt det_flat_field gt FF_p300k0138 E8048 T4024 vrf_m0p15 tif lt det_flat_field gt det trim directory p300k0138 E8048 14024 vrf mOp15 bin det trim directory lt detectortype gt PILATUS 300K detectortype start timestamp end timestamp save timestamp realtime lt livetime gt 1800 lt livetime gt lt pixelsize gt 0 172 0 172 lt pixelsize gt beamcenter nominal 201 5 279 5 beamcenter nominal lt beamcenter_actual gt 0 O beamcenter actual data mean data min data max data rms data p10 data p90 lt calibrationtype gt geom lt calibrationtype gt lt kcal gt lt pixelcal gt lt koffset gt lt wavelength gt 1 5408 lt wavelength gt lt detector_dist gt 1056 2 lt detector_dist gt saxsconf r1 saxsconf r2 saxsconf r3 lt saxsconf_l1 gt saxsconf 2 saxsconf 3 saxsconf 4 saxsconf wavelength 1 5408 saxsconf wavelength lt saxsconf_dwavelength gt 0 01 lt saxsconf_dwavelength gt saxsconf lzero 1 saxsconf Izero saxsconf det offx 0 saxsconf det offx saxsconf det offy20 saxsconf det offy saxsconf det rotx 0 saxsconf det rotx saxsconf det roty O saxsconf det roty saxsconf det pixsizez 0 172 saxsconf det pixsizez saxsconf det pixsizey20 172 saxsconf det pixsizey saxsconf det resx 0 saxsconf det resy 0 saxsconf abs int fact sample
36. e Venting Valve NM 7 VG Detector Chamber Flange Detector Motion Image Shown is for Air Cooled detector Water cooled detector will only have one upper electroni cable Image shown is for Air Cooled detector Uppor connectors will differ for water cooled detector User Manual UM 300 R1 1 dated 130112 01 Page 12 of 64 a D SAXS Electronics Vacuum Meter Pin diode meter top and Vacuum Meter Voltage Analyser User Manual UM 300 R1 1 dated 130112 01 Page 13 of 64 a D sAxs Vacuum Pumps 2 options i Volume Dry Coolers Source Detector and Pump Detector and Source Cooler Dry Pump Cooler User Manual UM 300 R1 1 dated 130112 01 Page 14 of 64 a Se SAXS Sample holders and stages not all may be available for your system 8 mm between holes 27 Versatile Ambient Plate 2 S 4 4 44 Neen User Manual UM 300 R1 1 dated 130112 01 Page 15 of 64 as S SAXSLAB Linkam Heater Stage ial Humidity Cell or Segment Linkam DSC User Manual UM 300 R1 1 dated 130112 01 Page 16 of 64 as S SAXSLAB Getting Oriented on the Computer Desktop Startup Screen The Instrument controlling computer ICC is a linux computer running Ubuntu 12 04 LTS The login prompt will look like the image on the G right The account is rrr saxslab cama iar And the password is o
37. elsize gt 0 172 0 172 lt pixelsize gt beamcenter nominal 201 5 279 5 beamcenter nominal lt beamcenter_actual gt 0 O beamcenter actual data mean data min data max data rms data p10 data p90 lt calibrationtype gt geom lt calibrationtype gt kcal pixelcal koffset lt wavelength gt 1 5408 lt wavelength gt detector dist 106 2 detector dist saxsconf r1 saxsconf r2 saxsconf r3 saxsconf 1 saxsconf 2 saxsconf I3 saxsconf l4 saxsconf wavelength 1 5408 saxsconf wavelength saxsconf dwavelength20 01 saxsconf dwavelength saxsconf lzero 1 saxsconf lzero saxsconf det offx 0 saxsconf det offx saxsconf det offy2O saxsconf det offy saxsconf det rotx 0 saxsconf det rotx saxsconf det roty 0 saxsconf det roty saxsconf det pixsizez 0 172 saxsconf det pixsizez saxsconf det pixsizey20 172 saxsconf det pixsizey saxsconf det resx 0 saxsconf det resy 0 saxsconf abs int fact sample transfact 0 sample transfact sample thickness sample xpos sample ypos sample angle1 sample angle2 sample angle3 sample temp sample pressure sample strain sample stress sample shear rate sample concentation lt hg1 gt 0 700025 lt hg1 gt lt hp1 gt 0 114364 lt hp1 gt lt vg1 gt 0 700025 lt vg1 gt lt vp1 gt 0 022162 lt vp1 gt lt hg2 gt 0 399987 lt hg2 gt
38. f lineup conf full conf lineup conf detpos go conf detpos ugo conf conf save conf conf save2disk conf load latest conf load default positions Ask what configuration is most likely the present Go to the configuration specified using configuration variables Go to the configuration specified using configuration variables updating positions Create lineup procedure for configuration specified Create lineup procedure for configuration specified including detector alignment Go to the detector position in the specified configuration Save the present pinhole location to the pinhole configuration variables Saves the present pinhole configuration variables to a file that can later be reloaded Loads latest saved pinhole positions Loads old default positions Source and Detector Related Commands remember remote mode for generator o shut c shut x Start x ramp x standby x off User Manual UM 300 R1 1 dated 1301 12 01 Open X ray Shutter Close X ray Shutter Starts X ray generator and goes to standby mode Ramps the X ray generator and goes to full power Moves the X ray generator to standby values Turns the generator off as S SAXSLAB saxson saxsconnect saxsdisconnect saxsoff saxsmeasure time saxsmeasure_free time saxsmeasure_temp time saxsmeasure_cont time saxsmeasure_freefile time filename SAMPLE DESCRIPTION sprintf bla blankpos def Transmission measure Page 58 of 64
39. file is opened both the image the polar plot and the radial average will be displayed Each window has a range of tools and menus for displaying the data Interactive Centering and Calibrating Due to the program history there is a long list of interactive methods to visualize alter center and calibrate the data which will normally not be required as the relevant information is usually already in the metadata header Heductions oome reductions are presently available in the metadata e transmission correction e intensity correction e sample thickness correction e beam stop mask However relational reductions relating to other files such as e empty holder reduction e darkcurrent reduction e zinger reduction are not presently supported in the Ganesha meta data format To reduce the data further one may Dice eww ol KG m o7 CG RZO m9 therefore use the Reduction Panel in the Reduction Menu mem Corrections en ZS This panel will be filled with parameters from the metadata header and relational files can be added 32 39 0 e E f Masking In the reduction panel File menu there is a Create Mask item This will open up MaskMaker which is a mask building tool for Irom Parere SAXSGUI SS te a Save and Load Configuration a User Manual UM 300 R1 1 dated 130112 01 a S SAXSLAB Averaging Averaging is performed from the processing menu The GUI gives the options to
40. ges frames and stats If not please run the command and test again If it still fails contact the instrument responsible User Manual UM 300 R1 1 dated 1301 12 01 Page 51 of 64 as S SAXSLAB Appendix 4 Sample Preparation for the Ganesha SAXS system With heavy inspiration from Ronit Bitton Ben Gurion University Preparing the sample s Powder samples If the samples are powders they can conveniently be mounted in a capillary or in between two pieces of tape Sometimes using the hole of a small washer with tape on both side of the washer is a good simple way to prepare a thicker powder sample 3M Scotch tape is fairly good but does have some weak low q scattering A dle b ue as Alternatively one can use the Sandwich Cells provided for the Linkam stage and fill them as described for Viscous Liquid Samples Non viscous Liquids samples Non viscous liquids can be inserted into a capillary The capillary should be sealed either by wax glue or flame sealing or by using one of the reusable Wem capillary holders where sealing is done with an O ring The capillary EA should ideally be free of bubbles containing as little air as possible Be the pressure from the residual air has been known to break some A capillaries Please treat capillaries with care Free standing capillaries are typically 3 4 per piece and reusable capillaries are more than 500 up to 1000 by some vendors
41. gt lt vp2 gt 0 04299 lt vp2 gt lt hg3 gt 0 5 lt hg3 gt lt hp3 gt 0 008191 lt hp3 gt lt vg3 gt 0 5 lt vg3 gt lt vp3 gt 0 084303 lt vp3 gt lt ysam gt 73 64 lt ysam gt lt zsam gt 53 6 lt zsam gt lt thsam gt 0 lt thsam gt lt detx gt 950 lt detx gt lt dety gt 0 606719 lt dety gt lt detz gt 0 4006 lt detz gt lt bstop gt 42 12 lt bstop gt lt pd gt 10 lt pd gt lt source_type gt MM002 lt source_type gt source runningtime source kV 42 kV source kV lt source_ma gt 0 95 mA source ma xaxis lt xaxisfull gt yaxis error norm fact 1 error norm fact lt xaxisbintype gt lin lt xaxisbintype gt lt log gt log lt log gt reduction type s reduction type reduction state raw filename mask filename flatfield filename empty filename solvent filename darkcurrent filename readoutnoise filename zinger removal 0 zinger removal data added constant 0 data added constant data multiplied constant 1 data multiplied constant Img lt Class gt MonitorMethod ImgType 2D ImgType Site KU LIF Site Group Researcher Operator lt Administrator gt Img Meas Description silverbeh Conf 3 lt Description gt Meas ROOT User Manual UM 300 R1 1 dated 1301 12 01 Page 62 of 64 as S SAXSLAB Example of a multiple plot file Multiple plots can also be saved in GRAD files i
42. ide the stage body Alternatively one can screw a small lid on the heater plate and insert the capillary into this lid User Manual UM 300 R1 1 dated 130112 01 as Be SAXSLAB Page 56 of 64 Appendix 5 Ganesha SAXS installation SPEC Quick Reference 12 06 20 Most used Commands vent system evacuate system c shut o shut conf go conf ugo what conf mv umv mvr umrv wu ascan dscan lup pd_in pd out SAMPLE DESCRIPTION hello saxsmeasure killsaxsmeasure transmission measure blankpos def qdo macro file mv beam2bstop Light on Light off Vent and evacuate the SAXS system Close and Open the Shutter Go to a predefined configuration update Moves motors in different ways Shows motor positions Different types of motor scans Move pin diode detector into the beam Sets a parameter that is written to master dat and image header Takes and image and saves it kill the saxsmeasurement completely Measures the transmission of a sample define blank position Execute the commands in the macrofile quiet do Centers the beam on the beamstop Centers the beam on the beamstop Standard SPEC Commands gt spec wa wu wm motor name1 motor name2 mv motor name number mvr motor name number umv motor name number umvr motor name number ascan motor name init value final value n of steps time per step dscan motor name init value final value n of steps time per step lup motor name init v
43. me maxtime Sets setpoint to s p and logs temperature until the temperature is reached After the temperature is reached it stabilizes for the given time If reaching the temperature takes more than maxtime then the command is stopped julabo get temperature Returnt the temperature of Julabo stage julabo get temperature Prints out the current temperature to the screen An example macro julabo start for Icnt2O icnt 10 icnt mytempstart 42 mytemstep 0 5 mytemp mytempstart icnt ysamstep julabo_ stabilise mytemp 300 tmp sprint Mysample temp d julabo get temperature SAMPLE _DESCRIPTION tmp use bsmask saxsmeaure 600 julabo end User Manual UM 300 R1 1 dated 1301 12 01 as S SAXSLAB Page 44 of 64 Varying Temperature with the Linkam Heater stage Useful Commands for the Linkam Heater Stage Linkam Thermal Stage Commands linkam_start linkam_end linkam_pump_auto linkam_stabilise s p maxtime linkam get temperature linkam get temperature linkam get rate linkam get setpoint linkam set rate rate linkam set setpoint temp linkam set pumpseed nn linkam watch maxtime linkam cool An example macro linkam start linkam pump auto linkam set rate 10 Switches ON communication with Linkam Controller overhead cost 4 seconds Switches OFF communication with Linkam Controller Start the Linkam pump in auto mode Manual mode can also be set Linkam pump manual and then Linkam set pumpspeed But this i
44. me sleep time linkam start linkam end linkam pump auto linkam stabilise s p maxtime linkam get Temperature linkam get temperature linkam get rate linkam get setpoint linkam set rate rate linkam set setpoint temp linkam set pumpseed nn linkam watch maxtime linkam cool User Manual UM 300 R1 1 dated 1301 12 01 Page 59 of 64 Julabo Thermostated Bath Switches ON communication with Julabo Controller overhead cost 4 seconds Switches OFF communication with Julabo Controller Start using Julabo as a counter to Julabos and Julaboe Stop using Julabo as a counter Get current temperature of Julabo stage Get current setpoint for Julabo stage Sets the temperature setpoint to temp Sets setpoint to s p and logs temperature until the temperature is reached After the temperature is reached it stabilizes for the given time If reaching the temperature takes more than maxtime then the command is stopped Logs the temperature for maxtime Cools the Julabo stage as fast as possible Command for Time sequences Counts until it is stopped In between each counting time there is a sleep time As timescan but stops after npoints Linkam Thermal Stage Commands Switches ON communication with Linkam Controller overhead cost 4 seconds Switches OFF communication with Linkam Controller Start the Linkam pump in auto mode Manual mode can also be set Linkam pump manual and then Linkam set pumpspeed But this is not recommended
45. mercial use With Teamviewer the operator may monitor the system from a remote location Naturally such access is dependent on the internet access policy of the organization User Manual UM 300 R1 1 dated 130112 01 Page 33 of 64 as S SAXSLAB Interactive Data Reduction SAXSGUI is the main data reduction tool available with the system It has its own manual and even its own basic website www saxsgui com The source code can be found at http www saxsgui com latest saxsgui saxslab zip The latest executables can be found at http www saxsgui com latest saxsgui SLlinux32 zip linux 32 bit and http www saxsgui com latest saxsgui SLwin32 prg exe windows 32 bit If one already has the appropriate Matlab Runtime Library one can choose to download instead http www saxsgui com latest saxsgui SLwin32 exe which is just the program The latest manual often not completely current can be found at http www saxsgui com latest_manual pdf or http www saxsgui com latest_manual doc User Manual UM 300 R1 1 dated 130112 01 a Page 34 of 64 Viewing the data SAXSGUI was originally created for very interactive viewing of data collected on less automated instrumentation It therefore features a long list of interactive methods to visualize alter center and calibrate the data However it has been adapted to make extensive use of the header information available in the Ganesha data file As a result when a
46. n this case the format is the same with the multiple data sets put into additional column and the additional meta data sets listed one after the ohter See an example here 3 Number of Datasets 3 Number of Columns per Dataset 400 Maximum Number of Rows for Any Dataset DATASETS q units Angstrom l units A U latest 0000165 craw silverbeh Conf 1 latest_0000174_craw silverbeh Conf 2 latest 0000183 craw silverbeh Conf 3 q I dl q l dl q l dl 1 557831e 002 2 646137e 004 7 002041e 008 4 202093e 003 6 391972e 003 1 667992e 005 1 830175e 003 4 187610e 002 3 738704e 004 2 182212e 002 6 048441e 004 1 829182e 007 5 886299e 003 8 788975e 003 1 994485e 005 2 563712e 003 3 768850e 002 2 367372e 004 2 806593e 002 4 981209e 004 1 240622e 007 7 570505e 003 8 018028e 003 1 783050e 005 3 297249e 003 3 195810e 002 1 896544e 004 3 430975e 002 4 457028e 004 9 932547e 008 9 254711e 003 9 081331e 000 4 937561e 001 4 030787e 003 6 404026e 001 1 235938e 001 4 055356e 002 5 962245e 002 1 203130e 004 1 093892e 002 4 295231e 001 5 304727e 000 4 764324e 003 1 916254e 002 6 681762e 001 4 679737e 002 1 556202e 001 5 338377e 004 1 262312e 002 2 351147e 001 1 904302e 000 5 497861e 003 1 342785e 002 3 474193e 001 5 304118e 002 4 234801e 002 8 020123e 005 1 430733e 002 1 314908e 001 8 061074e 001 6 231398e 003 7 794415e 001 1 452430e 001 2 475640e 000 2 080022e 003 1 529646e 006 6 6
47. ng and mounting the sample Samples need to be prepared for measurement in vacuum Depending on the samples this may mean inserting them in disposable capillaries putting them in sandwich cells inserting them in refillable capillaries or doing nothing at all Please see Appendix 4 for some inspiration Sample Alignment Establishing a vacuum When samples are mounted and everything is ready to go the system should be evacuated This can be done with the spec command evacuate system It will take roughly 4 minutes to reach the operating pressure of 2E 1 mbar It is possible to measure data long before this level has been reached but the background scattering from residual air will be too high for weakly scattering samples The vacuum will continue to improve over the evacuation time but this will not affect the measurements If 2E 1 cannot be reached please try to look for unattached hoses or other leaks or a lack of pressurized air which means the evacuation valve can not be opened Alternatively have the instrument responsible take a look User Manual UM 300 R1 1 dated 1301 12 01 Page 25 of 64 as Sin SAXSLAB Telling spec what sample holder is mounted In order to make sure that the calibration holds for different sample holders it is important that spec knows which stage is mounted The spec command change sample stage will give you a list of stages to choose from Choose the correct one and proceed Note
48. ngtime lt source_kV gt 42 kV lt source_kV gt lt source_ma gt 0 95 mA lt source_ma gt lt xaxis gt lt xaxisfull gt lt yaxis gt lt error_norm_fact gt 1 lt error_norm_fact gt lt xaxisbintype gt lin lt xaxisbintype gt lt log gt log lt log gt lt reduction_type gt s lt reduction_type gt lt reduction_state gt lt raw_filename gt lt mask_filename gt lt flatfield_filename gt empty filename solvent filename lt darkcurrent_filename gt lt readoutnoise filename zinger removal 0 zinger removal data added constant 0 data added constant data multiplied constant 1 data multiplied constant Img Class MonitorMethod ImgType 2D ImgType Site KU LIF Site Group lt Researcher gt Operator lt Administrator gt Img Meas Description silverbeh Conf 2 lt Description gt lt Meas gt lt ROOT gt latest_0000183_craw silverbeh Conf 3 lt xml version 1 0 encoding utf 8 gt lt ROOT gt lt det_pixel_size gt 0 000172 0 000172 det pixel size lt det_thickness gt 0 00032 lt det_thickness gt lt det_exposure_time gt 1800 lt det_exposure_time gt lt det_exposure_period gt 1812 lt det_exposure_period gt lt det_tau gt 3 838e 007 lt det_tau gt lt det_count_cutoff gt 1077896 lt det_count_cutoff gt lt det_threshold_setting gt 4024 lt det_threshold_setting gt lt det_n_excluded_pixels gt 19 lt det_n_excluded_pixels gt lt det_ex
49. nn 24 Preparing and mounting the sample enn 24 Sample AllgnmMmeEN E 24 Establishing a Te dam 24 Telling spec what sample holder is mounted eeeeeeeeeeseeeeeeees 25 Gono meter e te a Nm See EE eee eee ee ee ee ee 25 Aligning the sample by using the on axis Gamer 26 Aligning the sample by using the pin diode and scanning MOtOTrS s nna0naanenn 27 Where s the DIANK Eed Beete 27 Pre measurement ee EE 28 Choosing a q range configuration eegene eegene eege 28 Letting the computer adjust the beam stop position eesseeesessssssse 28 Measuring lo and the sample Iransmtseion 28 Describing the measurement nennen nnne nn nenne rans 29 User Manual UM 300 R1 1 dated 1301 12 01 Page 3 of 64 as Sin SAXSLAB Additional Reduction Parameters eeeseesssesssessesseeeneeeennn nennen nnns 29 Dealn3ouUbD E 29 TONIS EG Wal AS TOF FOAM uses iaa qe broma deni pat uti UdUE INE MIO ECED D OqUES 29 Pre measurement routine nennen nennen nennen nennen nennen 29 The E ET csisicrsestsisindsieastetnigromcsierelerstesnuhetes ae deisscmicas sama rA ERU ERIT R I RR ERIGI 31 The Measurement command and on screen feedback n ssssseernerreererrrerrrerenn 31 Monitoring the measurement from GAS 31 Monitoring the measurement remotely by Teamviewer 32 feet RRE Tele BEE 33 Viewing the data 34 Interactive Centering and Callratmg 34 zie c
50. nsen SAXSLAB Aps Copenhagen January 2013 1 1st generation systems were 2 pinhole systems offered by Bruker 2 generation systems were 3 pinhole systems offered by Bruker Nanoviewer Rigaku nanoviewer Molecular Metrology SMAX User Manual UM 300 R1 1 dated 130112 01 Page 6 of 64 as S SAXSLAB System Overview A schematic illustration of a 2 dimensional SAXS system is seen below Light Source Beam Shaping Sample Stage Position Sensitive Detector Extended Sample to Detector Distance Beam Stop http www physics queensu ca saxs SAXSoverview html In the Ganesha each item is truly state of the art with hardware and software integration as well as full motorization and extended automation allowing the strengths of the individual components to live out their full potential As examples we can mention The x ray source is a High Brilliance Microfocus Sealed Tube with shaped multilayer optics yielding a monochromatic high intensity beam at very low power The beam shaping is initially handled by the shaped multilayer and then further collimated by 3 sets of 4 bladed slits the last of which contains single crystal Scatterless blades The beam path is evacuated by an oil free high speed pump allowing full pump down to clean operating pressures in 4 minutes The sample area comes with an XY theta goniometer for alignment and position of samples for both transmission and grazing incidence work A l
51. o the generic stages by using tape vacuum grease wax or holes in the sample holder that fit the pins on the eneric stage um m 8 e gy o Capillaries should be mounted vertically The sample holder is inserted into the chamber by sliding it into the gap in the sample stage The writing on the side of the sample holder should be facing the chamber door you GISAXS in generic holder Tape the sample in the middle of the sample holder sticking out on top The sample holder is inserted into the chamber by sliding it into the gap in the sample stage Multi capillary holder This holder fits 6 capillary metal cartridges The cartridges should be filled capped and inserted all the way into the holder A pin will ensure that they are placed reproducibly User Manual UM 300 R1 1 dated 130112 01 Page 55 of 64 as S SAXSLAB Linkam thermal stage The stub below the thermal block should be fitted with a spring which forces the sample or the sandwich holder up against the block The springs supplied by Linkam have a lollipop shape and there is 1 such lollipops provided It should be possible to change samples without taking out the block For samples in capillaries an alternative mounting approach is used in that the capillary can be inserted horizontally into a small 1 6 mm hole in the block 1 and 1 5 mm capillaries should fit With a little bit of care the capillary can be inserted from outs
52. or Tvx this server runs on the detector computer and can provide low level communication to Camserver if needed Should not be needed by the operator Sl_server this server runs on the detector computer and handles all of the processing of the data in a measurement producing cumulative files and making sure correct headers are included in the files As of January 2013 this server also does advanced noise reduction Modbus server This server runs on the instrument control computer and handles communication from spec to the Xenocs source generator controlling for example the opening and closing of the shutter and the High voltage and current settings These various servers are usually reporting in Desktop 4 User Manual UM 300 R1 1 dated 1301 12 01 Page 22 of 64 as Sin SAXSLAB Data Output Image data is saved in tiff format and should be readable by most data handling packages However since the header see Appendix 1 for details on the header is stuffed with information about the measurement full utilization of this information requires SAXSGUI or a dedicated customer header interpreter The measurements are numbered consecutively with pre fix and suffixes indicating the actually type of tile A measurement is actually a string of measurements Per default we have chosen that instead of making one long exposure for each measurement we will make many short measurements and then add these short measurements
53. ot be moved to User Manual UM 300 R1 1 dated 1301 12 01 Page 28 of 64 as Sin SAXSLAB Pre measurement Actions Choosing a q range configuration Based on the table of the various configurations in Appendix 2 one can decide which combination of resolution q range and intensity is desired Once this has been decided one can go to this configuration using the spec command gt conf_ugo N where N is the number of the configuration forexample conf ugo 1 Letting the computer adjust the beam stop position It has been our experience that the most sensitive alignment is the location of the detector with respect to the beam which ultimately means the location of the beam stop with respect to the beam In order to correct for this the system has a small routine which can be executed on its own So if you wish you may run the spec command gt mv_beam2bstop to center the beamstop on the beam Note This routine relies on the beamstop being centered on a reference position on the detector If for some reason it is not centered on here someone bumped or similar then one will have to redefine either motor positions or this reference positioned as described in the Expert Users FAQ Measuring lo and the sample transmission If a blank position has been defined one can issue the command gt transmission_ measure to measure the Izero as well as the transmission using the pin diode The Izero is stored in the spec variable
54. ross indicates where the beam is And one can then use a transmission measurement combined with a scan as immediately above to do a fine alignment User Manual UM 300 R1 1 dated 130112 01 Page 27 of 64 a S SAXSLAB Aligning the sample by using the pin diode and scanning motors After having performed the rough alignment with the camera one can perform a scan like this gt pd_in gt o_ shut gt dscan ysam 3 3 12 1 gt c_ shut gt pd_ out This could yield this plot which we could analyze to determine the best sample eege Go ete Leg position EZE Fol Toba TET ad urhe D we ne mom LR P Deer Lo However for capillaries there is a west lee dedicated routine that does the same guum p gt capalign ysam 3 12 1 st S saoo Nm e PX AND moves to the best spot by itself ii Very useful EDk 2 Where s the blank In order to make transmission measurements we need to measure the transmitted intensity through the sample But we also need to measure the intensity without any absorption i e the lo So we need to define a blank spot where there is no sample if we want to measure transmission We do this with these spec commands gt mv ysam 12 4 gt mv zsam 35 4 blankpos def Please note that the stage is first moved to a position and then this position is defined as the blank position This is to make sure that you do not make an error and specify a position that cann
55. s not recommended Sets setpoint to s p and logs temperature until the temperature is reached Unless maxtime is exceeded Returns current temperature of Linkam stage Get current temperature of Linkam stage Get current ramp rate for Linkam stage Get current setpoint for Linkam stage Sets the temperature ramp rate to rate degrees per minute Sets the temperature to temp degrees Sets the pumpspeed to nn Logs the temperature for maxtime Cools the Linkam stage as fast as possible for icntzO icnt 10 icnt mytempstart 80 mytemstep 5 mytemp mytempstart icnt ysamstep linkam_stabilise mytemp 180 900 tmp sprint Mysample temp d _linkam_get_temperature SAMPLE_DESCRIPTION tmp use bsmask saxsmeaure 600 linkam end User Manual UM 300 R1 1 dated 1301 12 01 as S SAXSLAB Appendix 1 The SAXSLAB metadata header H H H SE SE cH cH cH cH EHHH EEHEHE HHHH H H SS lt SAXSLAB METADATA START datatype tiff detectortype PILATUS 300K Start Limes amp end timestamp save timestamp realtime Lxwetrimes 1800 00 pixelsize 0 172 0 172 beamcenter nominal EEN Sch 0 ele Ae ER 338 47 201 42 DATA METADATA START data mean data min data max data rms data p10 data p90 lt DATA METADATA END gt CALIBRATION METADATA START calibrationtype geom KOALI pixelcal kofftset wavelength 1 5408 detector dist 1056 2000 CALIBRATION METADATA END CONFIGURATION METADA
56. tant data multiplied constant 1 data multiplied constant Img lt Class gt MonitorMethod ImgType 2D ImgType lt Site gt KU LIF lt Site gt Group lt Researcher gt lt Operator gt lt Administrator gt Img Meas Description silverbeh Conf 3 lt Description gt lt Meas gt lt ROOT gt User Manual UM 300 R1 1 dated 130112 01 Page 64 of 64 as S SAXSLAB User Manual UM 300 R1 1 dated 130112 01
57. the cross For documentation purposes one may also use the viewer to take a snapshot or even to record the video stream Note Due to curvature of the mirror straight lines may look curved This is User Manual UM 300 R1 1 dated 1301 12 01 Page 20 of 64 as S SAXSLAB PyMCA If one wants to look at the results from previous scans one can use the program PyMca to look for scans saved in the log files All scans are saved in the current log file You can change the name of the log file by using the spec command newsample GEZEI LT ET ET aa TUIJA Consan Peak PtIn7 Im abi St DES Cn as em Pate 1 7066 m 55591 HW 0 0008 x 9000 1 02060 Cw 57 7041 erem 10 63 76 63 2 M 4a Ae amp i D 76 56 T6 2 J T6 54 76 2j s vam 54 1000 ED 200 p An vm 44 ES KS Z 9r GOH P SAXSGUI SAXSGUI is the data monitoring and data reduction program that gives you the possibility to image reduce plot and save your data manually or in the case you have a large number of files do the same automatically based on the information in the header and your reduction selections User Manual UM 300 R1 1 dated 130112 01 Page 21 of 64 as S SAXSLAB The various Servers Various servers are required to run in the background in order for everything to work correctly Camserver this server runs on the detector computer and talks directly to the Detector Should not be needed by the operat
58. tory usage is the result of a number of very recent and significant advances in x ray generators and detectors Without these advances the performance functionality and unprecedented up time would not have been possible Given these advances SAXSLAB previously named JJ X Ray Systems applied their extensive knowledge in instrumentation precision motion automation and SAXS experimentation to come up with a SAXS instrument like no other commercially available system 1 The motion of the detector allows the user to make measurements over a very large q range 2 The complete motorization of the system allows for ease of use and a high degree of automation in alignment and experiment execution 3 The integrated data management with detailed system information being carried over in date headers interpretable by the data reduction software facilitates the task of monitoring data collection data reduction and data interpretation Based on a close collaboration with the Life Science Department of the University of Copenhagen the prototype came to life in 2010 and was the basis for the first series of production instruments installed in 2012 Your instrument is one of the first 6 production instruments and as such one of the very first of these 3rd Generation laboratory based SAXS systems We trust that you will find the instrument useful for your analysis needs and hope that you will contact us with both praise and criticism Karsten Joe
59. transfact 0 sample transfact sample thickness sample xpos sample ypos sample angle1 sample angle2 sample angle3 sample temp sample pressure sample strain sample stress sample shear rate sample concentation lt hg1 gt 0 299975 lt hg1 gt lt hp1 gt 0 276384 lt hp1 gt lt vg1 gt 0 299975 lt vg1 gt lt vp1 gt 0 018415 vp1 lt hg2 gt 0 149987 lt hg2 gt lt hp2 gt 0 037719 lt hp2 gt lt vg2 gt 0 149987 lt vg2 gt lt vp2 gt 0 04299 lt vp2 gt lt hg3 gt 0 5 lt hg3 gt lt hp3 gt 0 008191 lt hp3 gt lt vg3 gt 0 5 lt vg3 gt lt vp3 gt 0 084303 lt vp3 gt lt ysam gt 73 64 lt ysam gt lt zsam gt 53 6 lt zsam gt thsam 0 thsam lt detx gt 950 lt detx gt lt dety gt 0 606719 lt dety gt lt detz gt 0 4006 lt detz gt lt bstop gt 42 12 lt bstop gt lt pd gt 10 lt pd gt lt source_type gt MMO002 lt source_type gt lt source_runningtime gt source kV 42 kV source kV lt source_ma gt 0 95 mA source ma lt xaxis gt lt xaxisfull gt yaxis lt error_norm_fact gt 1 lt error_norm_fact gt lt xaxisbintype gt lin lt xaxisbintype gt lt log gt log lt log gt reduction type s reduction type reduction state raw filename mask filename flatfield filename empty filename solvent filename darkcurrent filename readoutnoise filename zinger removal 0 zinger removal data added constant 0 data added cons
Download Pdf Manuals
Related Search