Quokka user manual 30 July 2012
Contents
1. Then click start on the pink Online Reduction panel Page 16 30 07 2012 IM Online Reduction JE x select file for online reduction GEKDOD23996 nx hf select protocol for online reduction TA ia sur Stop Done The radial average data will then be displayed and automatically updated 1 11 Before you leave Before you leave the instrument please Clean and return your sample holders Instructions in the instructions section of the manual in the cabin We will not lend sample holders to users who have a history of not returning them clean Photocopy scan the relevant pages of the logbook Take all raw and treated data either using a thumb drive by burning the data to a CD DVD ask your local contact nicely or using ANSTO sharefile web based system at sharefile ansto gov au 2 Installing data reduction macros on vour own computer Note Anv data publication with quokka data reduced with the NIST macros should cite Kline SR 2006 Reduction and analvsis of SANS and USANS data using IGOR Pro Journal of Applied Crvstallographv 39 895 900 2 1 Install Igor If you don t already have it A free 30 day demo version can be downloaded from the wavemetrics website You need Igor version 6 2 or later Page 17 30 07 2012 2 2 Remove any older versions of the macros Skip this step if you ve never had any of the NIST or Quokka macros installed If you ve had any older version2. BNLIANSTO PCI DAE Disable auto refresh Total Even ts Total x y histogram Tr ki Mi 1 g lI gt 6 The workflow can be paused if the acquisition is running in the monitor mode Firstly open up the histogram memory website on http das1 quokka nbi ansto gov au 8080 admin viewdata egi book marked in firefox and press the yellow button to pause the system You can press on the same button to resume from a paused acquisition 1 10 On the fly data inspection with Igor It is now possible to look at data during collection before the file is complete Following the procedure below allows vou to open the file and inspect the radial average which will automaticallv be updated approximatelv everv minute Page 13 30 07 2012 1 Open Igor with Quokka macros and in the macros menu select Load Quokka Sans Reduction Macros Following vellow panel appears Pie E Help _ Feedback Reduction 1 D Ops 2 D Ops Misc Ops E SANS Reduction Controls Revision 1817 Display Raw Data Transmission Online Reduction 2 Click on Pick Path and navigate to experiments quokka data proposal xxx 4 SANS Reduc vn Controls Revision 1817 ai x U Pikpa fjecaseg SorCetaeg Hep _ Feedback Reduction 1 D Ops 2 D Ops Misc Ops Display Raw Data Online Reduction 3 In the Reduction tab Build protocol E SANS Reduction Controls Revision 1817 Bel Ea _Pick Path File C
3. Absolute for absolute scaling Click set ABS params then select method of absolute calibration Empty Beam Flux Select the empty beam transmission file and draw a box around the beam with the cursor then click continue Mask Take the mask file in S Bragg Quokka Sensitivity and standards or one given by your local contact or make up your own Average can be left as is for isotropic data The data reduction protocol that you ve now created can be saved Save Protocol You can now reduce a file by selecting Reduce a file directly in the blue Data Reduction Protocol panel or if you have saved the protocol directly on the yellow SANS Reduction Control panel Via the SANS Reduction Control panel you can then select the protocol useful if you want to make multiple protocols During the reduction you ll be prompted to select files to use Each time Igor asks Do you want to add another xxx file This is for if you wish to add multiple runs together if you only have one run select no Reduced data are then saved in the file QKKOOxxx ABS To merge several configurations configurations together 1D Ops sort button Page 25 30 07 2012
4. 70 Cit w SAMPLE 70 Mli w SAMPLE 70 lis w SAMPLE To Fis SAMPLE IC lis w SAMPLE To Mis w SAMPLE 70 C17 w SAMPLE 70 Fis w SAMPLE lo 19 SAMPLE Ta 20 w SAMPLE 10 Clear All Fill From Sample 1 Clear All Drive to load position Page 5 30 07 2012 The drive to load position button allows vou to move the sample changer in the enclosure to a position where vou can easilv load vour samples Once in this position insert vour sample blocks into the changer Quokka Scan Quokka Experiment Workbench 1 4 7 File Edit Window Help lt gt Launch Quokka Scan Experiment Control 1 Quokka Multi Sample Scan Fix Sample Holder IE Load CSV Run Type Sample Name Thickness mm Sample Description Mi v SAMPLE sample name here 2 a more detailled description here E 2 w SAMPLE Ia v SAMPLE M 4 v SAMPLE sample name here M s v SAMPLE sample name here Me v SAMPLE sample name here 7 v SAMPLE Cla SAMPLE Ia v SAMPLE 10 SAMPLE Cli w SAMPLE 112 w SAMPLE liz v SAMPLE 114 w SAMPLE Clis SAMPLE Fis w SAMPLE Cli7 v SAMPLE lis v SAMPLE 7119 w SAMPLE MT cell 20 w EMPTY BEAM MT beam Clear All Fill from Sample 1 Clear All Workflow Info 7 a more detailled description here a more detailled description here a more detailled description here oj 0DJ Oo o o o o o o o o o ob e m 1O O lt Back Next gt Tick the boxes co
5. 1 11 BEFORE YOU LEAVE 2 INSTALLING DATA REDUCTION MACROS ON YOUR OWN COMPUTER 2 1 INSTALL IGOR 2 2 REMOVE ANY OLDER VERSIONS OF THE MACROS 2 3 INSTALL QUOKKA SPECIFIC MACROS 2 4 SWITCH TO NIST MACROS 3 QUICK GUIDE TO QUOKKA DATA REDUCTION 10 12 12 12 12 13 13 13 13 17 17 17 18 18 20 20 3 1 LOGIN TO THE ANSTO NETWORK PC ERROR BOOKMARK NOT DEFINED 3 2 TRANSFER DATA AND REPORT FILES ERROR BOOKMARK NOT DEFINED 3 3 GET THE SENSITIVITY AND MASK FILES ERROR BOOKMARK NOT DEFINED 3 4 OPEN IGOR MACROS 3 5 SELECT WORKING DIRECTORY 3 6 PATCH THE DATA WRITE CORRECT A AND AA A TO ALL FILES DETERMINE BEAM CENTRES FOR EACH CONFIGURATION AND WRITE TO FILE 3 7 CALCULATING TRANSMISSIONS READ THE REPORT FILE amp CREATE TABLE 21 22 22 22 23 23 23 Page 2 30 07 2012 CALCULATE TRANSMISSIONS 23 3 8 REDUCE DATA 24 1 Performing an experiment Your local contact will train you in how to enter the enclosure and load samples Before you do this independently you must sign the training form to acknowledge you have received the training The following describes how to run the acquisition software 1 1 Login to data acquisition computer Login and password will be given to you by your local contact 1 2 Start gumtree Currently version 1 5 7 link on desktop Login and password will be given to you by your local contact Normally this would already be open Caution opening gumtree t
6. Quokka user manual This guide is not intended to replace vour local contact but to jog vour memorv if vou are operating independentiv Anvthing strange call vour local contact Numbers for Quokka instrument scientists Elliot Gilbert office 9470 mobile 04 09 03 43 05 Katy Wood office 7100 mobile 04 17 47 35 37 Chris Garvey office 9328 mobile 04 09 22 58 81 An image of the quokka detector is visible from outside ansto at the following webpage http www nbi ansto gov au quokka Reactor status and cold source temperature visible at do not leave this webpage open for long periods of time http prism nbi ansto gov au reactor ReactorInfo swf Other useful numbers Emergencies SOSS 888 SOSS not emergency working alone form etc 3434 Health Physics 9779 IT helpdesk 9200 Feedback on the manual kwo ansto gov au Page 1 30 07 2012 1 PERFORMING AN EXPERIMENT 1 1 LOGIN TO DATA ACQUISITION COMPUTER 1 2 START GUMTREE 1 3 STARTING A STANDARD EXPERIMENT 1 4 STARTING AN EXPERIMENT USING A CONTROLLED ENVIRONMENT RUNNING THE SAME EXPERIMENT MULTIPLE TIMES 1 5 SAVING RUN NUMBERS TABLE FOR LOG BOOK 1 6 SAVING REPORT FILE DURING EXPERIMENT 1 7 WHERE IS THE DATA 1 8 IS MY EXPERIMENT RUNNING OK 1 9 COMMON ISSUES I HAVE STARTED A WORKFLOW BUT WOULD LIKE TO STOP IT I HAVE STARTED A WORKFLOW BUT WOULD LIKE TO PAUSE IT 1 10 ON THE FLY DATA INSPECTION WITH IGOR
7. akes some time 1 3 Starting a standard experiment Below describes starting an experiment with the 20 position sample changer at ambient temperature 1 Select multi sample workflow Page 3 30 07 2012 m Content Perspective SICS Quokka Experiment Workbench 1 4 7 I a di Launch Fe Scientific Workbench Fi Content Perspective G 280 Fs Sidebar Home Help Dolt GumTree Home 23 Multi Sample Workflow Experiment x Alignment Windows Gaara D Multi Sample Workflow Data Analysis Maintenance Version 1 4 7 c Copyright ANSTO 2008 AK ics1 quokka nbi ansto gov au 60003 Interrupt i The following then appears mav take some time 34M of 85M li e Reactor Source E Power 0 MW CNS In OK gt CNS Out OK amp Shutter Status Secondary CLOSED Sample CLOSED sics Interrupt Bl SICS Status kt JVM Statistics G Quokka Scan Quokka Experiment Workbench 1 4 1 LEB File Edit Window Help Launch amp Quokka Scan Experiment Control Welcome to GumTree Workflow Click Begin gt button to start this workflow Console A KIGINET Java BIDSUUSU PYLON Engine Version 2 x Language CPython Language Version Whatever you compiled with m AK icst quokka nbi ansto gov au 60003 O Interrupt 37M of 65M Ta Click begin to start workflow Page 4 fa 28 Sidebar Home Help Do I
8. atalog _Sort Catala Help Feedback 1 D Ops 2 D Ops Misc Ops Build Protocol A Reduce a File P Reduce Multiple Files Show CAT Table Following appears Page 14 30 07 2012 IM Data Reduction Protocol Mile File Catalog Show File Catalog set SAM file ask set BGD file set EMP file set DY file VU Im Im lIe set MASE file set AVERAGE params SYTYPE CircularS vE res NAME Save Protocol Reduce A File Recall Protocol Delete Protocol Uncheck all except Sample and Average and Save protocol Choose a name eg on line Note that it is not possible to put data on an absolute scale on the fly as the transmission has not yet been calculated you can however add in the other steps of the data reduction protocol if required 4 Select Online Reduction on the Raw Data tab E SANS Reduction Controls Revision 1817 Mle x _Pick Path _Fie Catalog _Sort Catalog Help Feedback Reduction 1 D Ops 2 DOps Misc Ops Display Raw Data Pah Onine Reduction Following appears Page 15 30 07 2012 E Online Reduction BEEDDZ3996 na hdf ha Select the file file you would like in top drop down menu In the second window click E Online Reduction zlolxi I QEKOOT 1659 rx Adf je OC following appears PickAProtocol Select the protocol you have just built in the drop down menu eg on line and continue PickAProtocol orm line
9. e vou the relevant sensitivitv and mask files 3 2 Open Igor macros Open Igor with Quokka macros then in the Macros menu select Load Quokka data reduction You should be able to see the following window alot x Pick Path File Catalog Feedback Reduction 1 D Ope 2 D Opes Mise Ops Display Raw Data Page 21 30 07 2012 3 3 Select working directory On the SANS Reduction controls Pick path select path where all your data is then file catalogue A table with all data files characteristics appears this table takes some time to appear the first time the small sign on the bottom left of Igor tells you it s working 3 4 Patch the data This step is only necessary on data taken prior to April 2011 later data does not need to be patched unless advised bv vour local contact Write correct and AM A to all files Select patch on the raw data tab With a in the match string box hit enter The files to patch drop down menu should then be populated with all the files in your working directory IMI Patch Raw SANS Data Files J DJ x Pick Path J quokka data testing new macros none 7 Lhange Header EN Change All Headers in List ii no file selected G File Catalog Page 22 30 07 2012 The wavelength and wavelength spread values have been measured experimentally and should be changed to 5 078 and 0 14 respectivelv These values are for data collected
10. iments quokka data proposal xxx This data can be patched etc and used to do data reduction see section 3 Itis updated approximately every 4 minutes At the end of the cycle the read only copy of the data and report files will be moved into a directory named after the cycle number eg experiments quokka data cycle 030 Links to these directories can be found on the desktop 1 8 Is my experiment running OK As the workflow moves through your run messages will be displayed at the bottom in the console indicating progress Any errors will appear in red Approximate counts rates on standard samples A table is given in the log book with approximate count rates for some standard configurations measured on H20 D20 samples You should have similar values Instrument dashboard The dashboard displays a 2D image of the detector most instrument settings and parameters such as L1 and L2 Do not modify anything from this dashboard Page 12 30 07 2012 1 9 Common issues I have started a workflow but would like to stop it Click on the any of the Interrupt buttons A report file will be saved SICS Interrupt Multisample work flow will then go into cleanup mode ie will drive the attenuation to a high value protecting the detector from any possible over exposure By using the back buttons you can then modify the run and restart I have started a workflow but would like to pause it
11. is section is not complete but gives a quick overview More info is available in the NIST help document In the reduction tab choose build protocol The following appears IMI Data Reduction Protocol l Im File Catalog Show File Catalog set SAM file ask lv set BGD file set EMP file set DIV file set MASE file set AVERAGE params AVTYPE LrcularS vE res NAME 4 kie da dr VE SI save Protocol Reduce File Recall Protocol Delete Protocol Leaving ask will mean that during the reduction Igor will prompt you to select the file you wish to use Sample will typically remain ask Background is a scan of the blocked beam Empty Cell If you are always subtracting the same empty cell buffer run this can be set to the empty file by clicking on the appropriate filename in the Data File Catalog table then clicking set EMP file or the filename can be copied and pasted in If you are using an empty Page 24 30 07 2012 cell from a previous run you need to copy the file to the current directory these will have different beam centres unless obviously far off warnings about this can be ignored Sensitivity Take the sensitivity file in S Bragg Quokka Sensitivity and standards or one given by your local contact Copy and paste the sensitivity file name or select it in the data file catalog then set DIV file on the data reduction window
12. nds etc Enter counting times in all the different configurations 4 Select environment Once you are happy with configurations and counting times next brings up the following Page 8 30 07 2012 fr Quokka Scan Quokka Experiment Workbench 1 4 1 File Edit Window Help i Launch Quokka Scan Experiment Control gt Quokka Multi Sample Scan G Normal Environment Workflow Info 7 Controlled Environment Normal environment is left selected if running with the 20 position Sample changer at ambient temperatures Select next Quokka Scan Quokka Experiment Workbench 1 4 1 File Edit Window Help Experiment Control 7 Quokka Multi Sample Scan Workflow Info 7 Normal Environment H Script Preview H Script Export 55 Export Table E Result Export mE HR m_central l Sequence Position Sample Name Thickness im Scat ering Preset sec A l EEE Scattering Pre 1 1 sample name 1 here 2 0 wl wl 240 wl vi 240 2 4 sample name 2here 1 0 wl wl 240 wl wl 240 3 5 sample name 3 here 1 0 wl wl 240 wl wl 240 4 6 sample name 4 here 1 0 wl wl 240 wl vi 240 wis 19 MT cell 0 0 WI WI 240 WI wl 240 vi 6 20 MT beam 0 0 wl WI 240 wl v 240 KG Data collection time Configuration time Total Estimated Time 02 00 00 01 59 10 03 59 10 fupdate A table now appears with your samples and configurations Scroll acro
13. nfigurations brings up the following Select instrument configuration amp G Select new instrument configuration O New an empty configuration STANDARD Long STANDARD Medium STANDARD Short Li L2 20m offset flux Li L2 20m central Flux Li L2 20m central res Li 8m L2 7m offset Li 8m L2 7m central Li L2 4m central det4m 1off det3m 1off det2m 1off detim 1off det0 5m 1off det05m 1off detOpSm_1off G7 4m G7 1m G7 Det4000 Doff G7 Det4000 3000ff Li L2 4m offset G7 Det2000 3000ff G7 Det2000 Doff Li 4m L2 2m central Li 4m L2 2m offset Li 4m L2 1 3m offset Li 4m L2 1 3m central Li L2 20m offset res Li L2 20m central res KW test quickDet 14300 quickDet 9300 L1 L2 20m_8Alens Li L2 20m SAlens offset Li L2 20m central flux blockedbeam Li L2 20m 17plAlens prism Li L2 20m 17pi1Alens prism central Li L2 20m 17plAlens prism offset Li 4m L2 1 3m central BB Li 4m L2 1 3m offset BB Li 4m L2 2m central bb Li L2 4m central bb Li 8m L2 7m central bb g7 4500 340 240609 ga 18900 g7 1000 g7 1000 4000ff Remove user defined Page 7 30 07 2012 Click on a configuration to select it then OK Your local contact will discuss suitable instrument configurations with vou prior to commencing the experiment Quokka Scan Quokka Experiment Workbench 1 4 1 File Edit Window Help ib Launch amp Quokka Scan Ex
14. on Quokka after October 2010 Enter these number into the Wavelength and Wavelength spread boxes tick the boxes and click Change All Headers in List Determine beam centres for each configuration and write to file In the green patch window select the SDD box under Match String 15 x Pick Path C Documents and Settings kwo M Did LEKONZJA 71 nes hf U Change Header i z M Change All Headers in List S e Enter the SDD distance of the configuration you wish to treat in the Match String box and hit enter If the SDD 1 31531 writing 1 3 is enough The drop down menu under Files to patch should now only contain the files at the specified SDD distance Select a transmission file for the first configuration vou wish to treat bv usinig the Displav raw data in the raw data tab Select the direct beam using the marquee right click and find beam centre The X and V centers will be displaved in the Igor historv window cntrl 4J will bring this window to the front if it is hidden Copv and paste the beam centre values which are displaved in the Igor historv window into the patch window Then change all headers in List Bv selecting File catalog again the table Data File Catalog will be refreshed and the columns Xcenter and Ycenter should be filled Repeat this step for the other configurations vou wish to treat 3 5 Calculating transmissions Read the report file amp c
15. periment Control b 2 gt Quokka Multi Sample Scan 3 2 p Configurations Configuration 9 HER Name Locked L1 L2 20m_central_flux L1 8m_L2 7m_central al sala mee PE ensom ds Script Initialise Pre transmission Pre scattering Drive attenuator to safe value driveAtt 330 Drive detector to short position driveDet 500 0 Drive guide to g7 driveGuide quideConfig g7 Drive entrance aperture to 180 for guide g7 driveEntRotAp 180 Drive beamstops up selBs 3 T Transmission Mode timer vw Preset gry Scattering Mode timer vi Preset gt aro File Association Empty Beam Transmission Load from Report Empty Cell Transmission Clear All Empty Cell Scattering 3 Restore Script Kul Conenle Several configurations can be selected in this way Red cross to delete any you have added by mistake Do not modify any configurations only your local contact should do this In the transmission and scattering boxes you enter the time the samples will be measured for If you would like to measure different samples for different amounts of time you can change these values for individual samples later only for the scattering runs not the transmissions If you chose the timer mode enter the time you choose in seconds In Counter mode it will count to monitor and you should enter a monitor count rate A table is given on the right of the computer with monitor counts seco
16. reate table Select transmission in the raw data tab pick path then select the xml report generated by gumtree then List Files A table is then created with all the correct file associations Calculate transmissions Select the empty beam transmission file for the first configuration you want to treat by clicking on the appropriate box in the table should appear in the column EMP_Filenames and click set BCENT file on the calculate transmissions window this sets this to beam centre Click Set XY Box and use the square to select the beam centre Right click and select SetXY box coords Then highlight the scattering files in the scattering files table at the configuration for which you ve just set the empty beam transmission and click calculate selected files in the Calculate transmissions window The S_Transmission column in the ScatteringFiles window should now be populated Page 23 30 07 2012 Repeat this step for the other configuations Click done when finished with transmissions If you click File catalog the data File catalog window will be updated and you should be able to see the transmission values These are patched into the data files If your report is incomplete ie you have stopped a MSW early and the different files are now in different reports you can easily modify the report by opening it in a text editor 3 6 Reduce data Th
17. ronment controllers in an experiment You can press button under the controller to add more Each Page 11 30 07 2012 additional controller simplv adds a one more nested loop to vour experiment sequence 1 5 Saving run numbers table for log book As data is saved the run numbers appear in the table It s then particularly useful to save this table with export table This button exports the table as a jpeg file which can then be printed Note that you only export what is visible on the screen If you wish to save all configurations you will have to scroll to the right 1 6 Saving report file during experiment At the end of a multi sample workflow a report file is created This file contains all the associations for the different configurations which run numbers are scattering files which are transmissions empty beam etc and simplifies data reduction If you d like to treat your data before the end you can create a report file by hitting Result Export If you want to stop a multi sample workflow early for some reason make sure vou Result Export first as this is not done automatically 1 7 Where is the data Data files are written and updated every minute in the directory in experiments quokka data current This directory is read only Report files are in experiments quokka data current reports A read write copy of the data is also copied to the directory named after the proposal number exper
18. rresponding to where you have put samples and enter sample name thickness and description In the type pull down menu you can select either SAMPLE EMPTY BEAM It s best to treat your empty cell measurement as a SAMPLE Making sure you have made the right selection simplifies data processing Positions 19 and 20 on the sample changer are generally left with the empty cell and empty beam respectively Export CSV allows you to save a file with all sample names thickness etc in the different positions This can then be re loaded at a later stage if you will be using similar sample names with the Load CSV button The Clear All and Fill from Sample 1 buttons are self explanatory 3 Select configurations Clicking the next button brings up the following screen where you can select your configurations Page 6 30 07 2012 Experiment Control Quokka Multi Sample Scan Configurations Configuration Name Script Initialise l Pre transmission Pre scattering Workflow Info Locked E ag r Transmission Scattering File Association Test Drive Mode ly Preset Mode x Preset Empty Beam Transmission Empty Cell Transmission Empty Cell Scattering L i 4 2 Restore Script Clicking the small green plus sign under Co
19. s OK to download the macros select yes After installation continue will launch Igor Ticking the continue when done box will automatically start Igor after you have used the switch Once this is done you should have a Igor with Quokka macros shortcut either under the Start gt Igor menu OR on your desktop depending on which version of windows you are running Once Igor Pro is open the Macros menu should now contain Load QUOKKA SANS Reduction Macros Selecting this brings up yellow SANS Reduction Controls Page 19 30 07 2012 jii leor Pro 6 22A File Edit Data Analysis Macros Windows Panel Misc Help SANS Untitled NCNR_SANSReductionLoader StrvarOrDefault root Packages NCNRitemStr2a Load NCNR SANS Reduction Macros i Initialize sDolgorMenu Control Retrieve All Windows CloseProc NAME NCNR Package Loader ipf Every time you open the Igor with Quokka macros shortcut if you are connected to the internet you will be prompted to install any updates as they become available 2 4 Switch to NIST macros Double click again on the executable IgorUserFilesSwitch exe Or select the Igor Pro Macro Settings shortcut under either under start gt Igor or on the desktop Select the NIST macros and click OK As above you will be asked if it is OK to download macros select yes Once this is done you should have a Igor with NIST macros shortcut either under the Start g
20. s of the NIST or Quokka analysis macros installed it s important to remove completely rename folder so there will be no conflicts You will only have to do this once as the future updates will be done automatically as long as you are connected to the internet I Caution once you have installed the newer versions of the macros you will not be able to load any Igor project files made with the older ones This means you should save all the treated asquii files you are likely to need before installing a newer version of the software 1 Delete any old NIST and Quokka macros from the following directories or move all macros elsewhere if you d like to keep older versions of the macros e C Program Files WaveMetrics Igor Pro Folder User Procedures e C Documents and Settings user_name My Documents WaveMetrics Igor Pro 6 User Files User Procedures e C Documents and Settings user_name My Documents WaveMetrics Igor Pro 6 User Files Igor Procedures 2 Delete the two shortcuts to HDF5 xop and HDF5 Browser ipf in C Program Files WaveMetrics Igor Pro Folder Igor Extensions 2 3 Install Quokka specific macros Navigate to http www nbi ansto gov au quokka macros IgorUserFilesSwitch exe and download the executable IgorUserFilesSwitch exe Double click on the executable Page 18 30 07 2012 Select Macro Please select the macro you would like to start Select Quokka macros to install and click OK You will be asked if it i
21. ss to see all If you do not with to measure all samples at all configurations you can uncheck the appropriate boxes If you wish to do absolute normalisation always leave a transmission measurement of the empty Page 9 30 07 2012 beam as we use this At this point the preset column can be modified if vou wish to count for different times Vou do not need to measure the scattering from the emptv camera position 20 unless vou are using this as a background i e not using cuvette solvent etc Underneath the table an estimated experimental time is given If vou change individual run times Update will update this If the runtime looks verv long vou ve probablv made an error and selected to count to monitor counts but accidentally left the option selected as time Clicking run then starts the run you have setup If you have not opened the shutter you will see a prompt shutter not open Check it s open and then OK to start your run 1 4 Starting an experiment using a controlled environment running the same experiment multiple times As per 1 3 except that at step 4 select environment select Controlled environment Using the Controlled Environment option you may then select a list of sample environment controllers for your experiment Select dummy_motor if you would like to run the same series of samples multiple times Experiment Control Quokka Multi Sample Scan O Normal Environment Workflo
22. t 10 Reactor Source E po 18 7105 MW 20 1252K CNS Out 26 41 K LA Shutter Status EF Batch Buffer Status No running buffer SICS Interrupt 30 07 2012 Fill in first four boxes with appropriate details Ignore next three for now then click next 2 Insert sample details f Quokka Scan Quokka Experiment Workbench 1 4 1 J eg File Edit Window Help J ta B ib Launch amp Quokka Scan Sidebar Home Help Do It Experiment Control 5 l Q fa i e tor S pr eactor Source JOQ g 3 Quokka Multi Sample Scan pe z 20 1325 K Experiment Title CNS Out 26 42 K 5 User LA Shutter Status Email Phone Dark current File EF Batch Buffer Status Sensitivity File No running buffer Pal Report directorv SICS Interrupt Console BILQLIIE Java BIIPNSULEU PFVLHOL la Engine Version 2 x Language CPython il Language Version Whatever vou compiled with g e me Bk ics1 quokka nbi ansto gov au 60003 O Interrupt 37mofesm i Quokka Scan Quokka Experiment Workbench 1 4 1 File Edit Window Help lt 7 Launch 48 Quokka Scan Experiment Control b e Quokka Multi Sample Scan Workflow Inf Run Type Sample Name Thickness mm Sample Description CJi v SAMPLE 0 ma w SAMPLE 70 C3 w SAMPLE 10 4 v SAMPLE lo Cs w SAMPLE 70 Me w SAMPLE lo C7 w SAMPLE To Cls v SAMPLE lo fo SAMPLE lo Mio SAMPLE
23. t Igor menu OR on your desktop depending on which version of windows you are running Both NIST and Quokka macros will now be on your computer and you can switch between by selecting the different shortcuts Igor with NIST macros and Igor with Quokka macros 3 Quick guide to Quokka data reduction Note Any data publication with quokka data reduced with the NIST macros should cite Kline SR 2006 Reduction Page 20 30 07 2012 and analvsis of SANS and USANS data using IGOR Pro Journal of Applied Crvstallographv 39 895 900 The following is a quick guide to treating quokka data More detailled help about the macros is found in the help buttons in Igor 3 1 Chose a workspace and copy across report files Data can be treated either on the instrument control PC or the NBI PC on the left in cabin DAV2 Quokka or your own PC with Quokka Igor macros installed If working on DAV2 Quokka please work under D Quokka Users Any old pre April 2012 reduced data is now under D NSVIS backup On DAV2 Quokka your data can be copied across from J proposal xxx where xxx iS your proposal number Report files are saved which associates the relevant transmission measurements with the scattering files copy across the report files associated with your data to your working directory These are under data current reports on the Instrument control PC J current reports on the DAV2 quokka PC Vour local contact should giv
24. w Info T Controlled Environment Controller x From 1 fo 3 in 3 steps Generate Wait For 2 Sec In the example above 3 steps will be generated on clicking on the generate button and the table will be updated as follows Page 10 30 07 2012 Experiment Control Quokka Multi Sample Scan O Normal Environment Workflow Info Controlled Environment Controller 1 0 La a E fx From 1 to 3 in 3 steps Generate Wait for 2 SEC It is then possible to run the samples and configurations selected previously three times with a 2 second wait between each Select sample tc1 setpoint to use temperature control needs to be correctiv set up first by your local contact Experiment Control Quokka Multi Sample Scan Normal Environment Workflow Info 7 Controlled Environment Controller jsamplejtal fsetpoint we Preset Wait sec 1 0 Lx ff 10 0 From i to 10 in 5 steps Generate wait for 2 sec To enter the preset values for the controller type the numbers into the text boxes and press Generate In the example above the samples will be measured at 5 different temperatures between 1 to 10 degrees Insert a small wait in seconds at the beginning of each step You may modify the preset values from the table if you do not wish to use the fixed step presets generated by GumTree The multi sample workflow can support multiple sample envi
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