USER MANUAL - Loligo Systems
Contents
1. The following diagram shows how to connect the instruments and devices used for running a preference salinity experiment ini ion overview Sa 4 2 Connect 3 89 19Idepy 3 qe3 dung 3 93 25 sunm 2 Y 4330 OTEE puo 95594 30901d 3q041d HONI OTEE puo Ayanonpuo HONI SSeA 30d x aqoad m s Ova Edo ges d Erud uide qud adiu damaq ma n qad ci domi pedit dudar ee Apo PA Page 13 of 44 temperature ion overview 4 3 Connect The following diagram shows how to connect the instruments and devices used for running a preference temperature experiment YDIAC 955 30d YONI I SS A qOld sem aaa ha 1 I We qo d qousd 31n3e1adua 1 b 33 duing au duing 4ezAjeue 31nje1aduua y Y NI 13z eue et b e au duing T 33 duing 9 qe duing 3 42 85 3 qe3 eje 91929 19IdepY Page 14 of 44 on overview oxygen i 4 4 Connect The following diagram shows how to connect the instruments and devices used for running a preference oxygen experiment YDAC I ss A 301d iain aqoid AezAjeue 213419 u BAxo N 2919892. s Bun the NI DAGmx Test Panels Remove the device View or change device properties S Calibration Right click with mouse on the devi and choose rename or press F2 Change the name to something different than devi In this example the name is changed to devisimu see Screen 25 Screen 25 Y NI USB 6210 Dev1simu Measurement amp Automation Explorer File Edit View Tools Help Configuration Properties X Delete Zj Self Test Test Panels Q Reset Device Create Task 9 Hide Help My System w Data Neighborhood Value Sack 28 Al ci ig Devices and Interfaces x ii NI DAQmx Devices NI wi DAQmx Device NI LISB 6008 Dev2 R i vhs Basics E PX PXI System Unidentified ai Serial amp Parallel H a Scales sel dura What do you want m M 1 1 Drivers to do m 6 Remote Systems s Bun the N DA mx Test Panels Remove the device View or change device properties S Calibration Now change the device name of the NI USB 6008 DAQ card to devi The DAQ S instrument should now work properly with ShuttleSoft Page 43 of 44 Screen 26 Y NI USB 6008 Dev1 Measurement Automation Explorer File Edit View Tools Help Configuration o My System gl Data Neighborhood Name a Devices and Interfaces gt ga NI DAQmx Devices NI USB 6210 Devlsimu xj P
3. 85 3 qe3 ezeq 39 82 19Idepy YONI 4AezAjeue YONI I SS A 301d gus Uv AJLA piousjos u bAxo 4 u bAxo Z JY SAJLA piouajos E m o 3H 5 4 P T JH piouajos 2 e Page 15 of 44 ew turbidity The following diagram shows how to connect the instruments and devices used for running a preference turbidity experiment ION OVervi 4 5 Connect Joquieu 4930 aqoid Ayipiqany Y33q JAezAjeue A p q n N d A lqqe duing 3 42 gsn 4 ejeg x x 91929 19IdepY s qwey YONI 3q04d A p q n YONI 4 zAylpup A p q n Page 16 of 44 ew pH pCO2 The following diagram shows how to connect the instruments and devices used for running a preference pH pCO2 experiment ION OVervi 4 6 Connect HO3d I ss A 30d HONI I SS A Bqoig mE us ki m b 9 qe2 Jajdepy 9 489 485 1 summ j Ip xuu s Tp xiquas Poule 3A3n y at b l 1 4930 OTEE Hd b 3H LA piouajos 4 A Na Z 3H A BA p ou os 1 piousjos q T JY IALA piou jos 2 at br 7 4 b vem Page 17 of 44 4 7 uEye USB camera 1 Connect the uEye U
4. Show mask Show binary Show trace Trace length s ho Page 34 of 44 ShuttleSoft will connect automatically to the first uEye camera found If no uEye camera is found ShuttleSoft will detect all USB cameras connected to the PC and ask the user which camera should b used If no USB camera is found connected to the PC the following box will appear Mo USB camera connected to the PC The next step is that ShuttleSoft looks for a DAQ S instrument connected to the PC and is named dev1 If a DAQ instrument is connected to the PC but ShuttleSoft has problems finding it please look in the chapter TroubleShooting If ShuttleSoft has found the DAQ instrument the initialization is done and images from the camera can now be seen on the screen Page 35 of 44 6 2 New experiment To zoom place the mouse over the picture and use the scroll button to zoom 1 Threshold tool Start by clicking Show Binary and use the vertical threshold bars to find the animal inside the Shuttle Box Start by choosing a narrow range short distance between the 2 bars and then use the right hand side slider to scan the image for your animal If necessary use the filter options found in Settings Filter to remove irrelevant pixels in the picture When done click Show Binary again to view unmodified images To avoid tracking any moving objects outside the Shuttle Box click Settings gt Mask to draw a mask excluding areas outside the exp
5. DCO 2 svedese ev vi Aa ovd e ne aa VR EMI EV DRE mtb 17 MEYL USD Cameras E E S UU UTE 18 DAQ 25 DAQ M InSEUmehto a ca sima sace ust Mese aaa a 19 WTW 3310 Cond instrument salinity only 21 WTW 3310 pH instrument pH pCO2 only 23 EXDEhbiinent seli Urondo aia 25 TANK qr 25 600000 MEE 28 Temperdbll Gs ss onene toin ume oi wet aos 29 Sel e M M Me 30 ALDI a a rs 31 PRDC O opu CELO CDM E iano ma CM UM EU ERU nies 32 500 UC SOE is 33 Stare UD mE 33 New experimenta ula 36 Details I rr 37 TOUDI SANOO n aan ioe 42 AO connection talle 42 RelaysUnFes PONS io 44 uye camera connection TallUEe s sierra echo ERE QUIE A 44 WEVe camera Setas emu 44 Page 2 of 44 3 General e Our ShuttleBox systems for preference avoidance measurements in aquatic organisms includes an ShuttleSoft software for Windows a DAQ instrument for USB video equipment and an experimental tank with pumps tubing and fittings to monitor and control water quality in two independent subcompartments ShuttleSoft requires a mouse with a scroll button e Three free USB ports are required on your PC One for connecting the DAQ instrument one for the digital video camera and one for a software protection dongle e If using WTW COND 3310 instruments for preference salin
6. It is also possible to enter a maximum and minimum value for the parameters If the INCR value is greater than the maximum value ShuttleSoft will not increase the INCR value by triggering RE 1 relay The same goes for the DECR value minimum value and RE 4 It is also possible to calculate the core temperature when temperature is chosen as parameter For the calculation of the body temperature Newton s law is cooling is used T T T T e where T isbody temperature is ambient temperatue T is initial temperature t is time min k is the rate of change of core temperature min k is dependent of fish size and species Stevens and Sutterlin 1976 It is also possible to enable and enter a system maximum rate If enabled ShuttleSoft will calculate the rate of the system by which the INCR and DECR zones increase decrease and regulate if the rate exceeds the entered max rate Camera Opens a dialog box where users may set the video settings and resolution of the camera Please note that a change in the resolution requires a restart of ShuttleSoft Filter Opens a dialog box where user may set the filter options Page 40 of 44 6 3 4 Calibration Menu Calibration Opens a dialog box where users may convert image pixels into mm cm or metres Change the length and or position of the green line to match any known distance in the image e g a ruler The length of the green line will show Then choose the desired uni
7. O W z a x o o c m Q S o k o 5 Q un teo 3 a 0 c q o 2 1 g E 2 m Uc Tu 2 o oS ox on s W gt KN Page 30 of 44 5 5 Turbidity The diagram below shows how to connect buffer tanks with water reservoirs not supplied containing turbid and clear water The fittings in the middle of each buffer tank are used as overflows 2 5 3 a FN o ul 2 c 2 a o 3 y m 2 2 ani 3 a a l r o na z rr E c o x o 9205 E o e j 9 z ds 3 E co 3 1 p ml o gt ely a un cic 3 L niz m ris wi a els a 5 E a Page 31 of 44 5 6 pH pCO2 The diagram below shows how to connect the buffer tanks with air N gas bottles not supplied The air stones need to be placed into down at the bottom of the buffer tanks The remaining fittings on each buffer tank are connected together T3 Tubing Solenoid valve RE 2 Solenoid valve RE 4 Q o Z 2 o o T o lt q lt q oz c Q 2 o x o c 8 o S o L o 0 Q E eo 3 E 0 o c 9 c I 8 E gt n 2 el m T u sw 2 ox cw coo o gt AS W gt n Y 1 Page 32 of 44 6 Using ShuttleSoft 6 1 Start up Start ShuttleSoft by clicking Start gt All Programs ShuttleSoft2 ShuttleSoft If the USB hardkey dongle is not connected to the PC an e
8. SB camera to the PC After a few seconds the software installation will start automatically 2 Click on Install the software automatically Recommended and then on Next 3 Click on continue anyways 4 Click on Finish 5 Open the uEye camera manager by clicking Start gt All Programs gt IDS gt uEYE Screen 18 Elx Avail Type Cam ID Dew 10 Model 111 154 4002 06519 Control center Expert mode General information Camera information Create support File ETH network service ne ET Additional Functions Automatic E L T LI mI Status of device Mr 1 The camera is configured correctly and can be opened 6 Ifinstallation was successful the uEYE camera is now shown here 7 Mount the lens on the uEYE camera 8 The uEYE camera is now ready for use with ShuttleSoft Page 18 of 44 4 8 DAQ S DAQ M instrument 1 Connect the DAQ instrument to the PC After a few seconds the software installation will start automatically 2 Click on Install the software automatically Recommended and then on Next Found New Hardware Wizard This wizard helps you install software for USB 621x Loader 2 f your hardware came with an installation CD or floppy disk insert it now What do you want the wizard to do 2 Install the software automatically Recommended Q Install from a list or specific location Advanced Click Next to continue v 3 The drivers will
9. USER MANUAL ShuttleSoft 1 List of parts O O O O ShuttleSoft installation USB memory stick Loligo USB hardkey dongle Wibu LabView Vison runtime license document uEYE USB camera C mount lens USB cable Tripod adapter Bracket Software CD DAQ S or DAQ M instrument Adapter cables qty 4 DO SET for oxygen pH pCO2 control gty 2 OR TMP SET for temperature control qty 2 OR pump for salinity turbidity control qty 4 Split data cable qty 4 DAQ M only OXY REG for oxygen measurements gty 2 OR TMP REG for temperature measurements qty 2 OR WTW COND 3310 instruments for salinity measurements gty 2 OR WTW pH 3310 instruments for pH pCO2 measurements qty 2 OR TUR REG for turbidity measurements qty 2 Flow through probe vessel gty 2 Not included in turbidity User manual Page 1 of 44 2 Contents 1 2 3 4 4 1 4 2 4 3 4 4 4 5 4 6 4 7 4 8 4 9 4 10 5 5 1 5 2 5 3 5 4 5 5 5 6 6 1 6 2 6 3 7 1 7 2 7 3 7 4 ACODA A E abren A AE nora E 1 CONTENTS ra A a Da aya y a a va su haer vt 2 co as la c b lay 3 InstaldatiOngpEFOGB U Enya aa 4 SHULLIES OR software for WINdOWS voca 4 Connection overview salinity rr rr aaa aaa aaa ail 13 Connection overview temperature scsi 14 CONNEeCtHONn OVervie W OXYGEN critica aa AA 15 Connecti n OVer view CUlDIGILY iia 16 Connection overview DH Z
10. X PXI System Unidentified i zb Self Test Test Panels Value x13D6760 a Reset Device Hok m Create Task Back NI DAGmx Device Basics d 9 Hide Help Fal 1 Serial amp Parallel Ai Scales 2 El Software c dj IVI Drivers o Remote Systems What do you want to do s Bun the N DA mx Test Panels Remove the Another USB device was improperly removed If an USB device like a USB memory stick is not properly removed while ShuttleSoft is running there can be a connection problem with the DAQ S instrument To solve this problem close ShuttleSoft Then disconnect the USB cable between the PC and the DAQ S instrument Wait 30 seconds Then connect the cable and wait When the green diode on the front side of the DAQ S instrument is flashing the connection is re established ShuttleSoft can now be opened again 7 2 Relays unresponsive Make sure the DAQ S instrument is connected with a power cable and the Power button is ON 7 3 uEye camera connection failure Make sure that no other program is using the uEYE camera while using it in ShuttleSoft Only one software program at the time can acquire data from the camera 7 4 uEye camera settings To change camera settings on the uEYE camera open uEye DEMO and set the settings Then click File gt Save parameters to file Save the file and name it uEYE Loligo ini Browse to the folder where ShuttleSoft is installed Bac
11. ame to frame to be obtained as a movement Object mean O2 temperature salinity turbidity In this field the mean value of the object O2 Object temp Object sal Object turb is calculated This value will be set to 0 when user starts logging During dynamic experiments this value will approach the true preference value of the animal Page 37 of 44 FPS This field shows the frame rate of the camera If frame rate should be low decrease the resolution in the camera settings menu or use a faster PC Threshold bars Use the bars to set the threshold used to find the binary picture On the left bar it is possible to set the range of the threshold values The right bar is to move both sliders Example The two sliders on the left are set to 40 and 70 and the red indication is between them Every pixel that has a value between 40 to 70 will be coloured red and all other pixels will be coloured black The slider on the right bar will stay on 55 Now the user moves the slider to 110 The red indication on the left bar will now be between 95 and 125 Show Mask Use this button to toggle between unmodified video images and masked images Show Binary Use this button to toggle between unmodified video images and thresholded images Show Trace Use this button to enable disable a trailing trace from being shown behind the moving animal and set the duration of the trailing trace in seconds RE1 This diode indicator gives the relay status for re
12. ch for current and updated software by looking on your computer on the hardware installation CD or on the Windows Update Web site with your permission Read our privacy policy Can Windows connect to Windows Update to search for software Yes this time only Yes now and every time connect a device No not this time Click Next to continue 2 Click on Install the software automatically Recommended and then on Next If Winows cannot find the drivers please insert the WTW disc Found New Hardware Wizard This wizard helps you install software for CP2102 USB to UART Bridge Controller If your hardware came with an installation CD lt 6 or floppy disk insert it now What do you want the wizard to do 6 Install the software automatically Recommended Install from a list or specific location Advanced Click Next to continue 3 The drivers will now be installed when done click Finish Found New Hardware Wizard Completing the Found New Hardware Wizard The wizard has finished installing the software for e CP2101 USB Composite Device Click Finish to close the wizard Bacl Finish 4 Repeat step 1 3 for the second WTW Cond 3310 instrument Page 21 of 44 The WTW 3310 Cond needs to be calibrated before starting an experiment Please follow the instructions in the WTW user manual of the instrument The user manual can be found on the CD delivered together with the instrumen
13. e reaches 20 C When temperature goes under 19 8 C ShuttleSoft will start heating If choosing Dynamic the animals position will determine the regulation Example Oxygen saturation is 80 in INCR zone and 70 in DECR zone Delta is set to 15 Now if the animal enters the DECR zone ShuttleSoft will start decreasing the oxygen value in this zone When the oxygen saturation drops below 65 and Delta thus exceeds a value of 15 air sat ShuttleSoft will also start decreasing oxygen saturation in the INCR zone to maintain a constant difference of 15 air sat Once the Delta value is lt 15 air sat the bubbling of nitrogen gas in the INCR zone will stop again Page 39 of 44 Use a hysteresis value greater than O to avoid digital relays going on and off constantly on the sharp edge of the Delta value since this might cause a malfunctioning of the solenoid valve or pump The hysteresis value will also determine upper and lower limits maintained by the system while the animal is in OFF zone Example Oxygen saturation is 80 in INCR zone and 70 in DECR zone Hysteresis is set to 1 The animal enters OFF zone between the two tanks and stays there fora while Due to equilibration with the atmosphere oxygen values will rise in both tanks Once the oxygen saturation in DECR zone reaches 71 ShuttleSoft will activate a relay to open the valve blowing nitrogen into the buffer tank connected to this tank until oxygen saturation is back to 70
14. erimental tank for analysis When done click OK The mask file can be saved for later use 2 Pixel calibration Now click Calibration gt Pixel and use the mouse to draw a line along an axis of a known distance in the image e g place a ruler in the experimental tank Then enter the distance and unit for the line The pixel to meter ratio is now calculated Click OK when done 3 Define the two zones Then click Settings gt Zones and draw two zones one for each of the two subcompartments Any areas outside the two zones will be referred to as OFF zone We recommend leaving a narrow space between the two user defined zones corresponding to the short channel connecting the subcompartments This to avoid errors or misinterpretation associated with animals taking positions in the connecting channel for prolonged periods of time When done click OK 4 Experiment settings Now click Experiment and choose between a static or dynamic experiment Static means that the water quality in the two subcompartments is kept at setpoint levels entered in the software by the user and independent of animal positions e g for choice avoidance experiments Dynamic experiments means that water quality control in the two subcompartments will depend on the behaviour of the experimental animal e g when in one INCR compartment the parameter setpoint e g temperature will increase and when the animal then shuttle to the other compartment it will decrease e g beha
15. ew Runtime engine n 3 If you accept the License Agreement please select I accept the License Agreement s and then press Next Screen 4 E ShuttleSoft License Agreement Tou must accept the licenses displayed below to proceed NATIONAL INSTRUMENTS SOFTWARE LICENSE AGREEMENT INSTALLATION NOTICE THIS IS A CONTRACT BEFORE YOU DOWNLOAD THE SOFTWARE ANCOR COMPLETE THE INSTALLATION PROCESS CAREFULLY READ THIS AGREEMENT BY DOWNLOADING THE SOFTWARE AND OR CLICKING THE APPLICABLE BUTTON TO COMPLETE THE INSTALLATION PROCESS YOU CONSENT TO THE TERMS OF THIS AGREEMENT AND YOU AGREE TO BE BOUND BY THIS AGREEMENT IF YOU DO NOT WISH T BECOME A PARTY TO THIS AGREEMENT AND BE BOUND BY ALL OF ITS TERMS AND CONDITIONS CLICK THE APPROPRIATE BUTTON TO CANCEL THE INSTALLATION PROCESS DO NOT INSTALL OR USE THE SOFTWARE AND RETURN THE SOFTWARE WITHIN THIRTY 30 DAYS OF RECEIPT OF THE SOFTWARE INCLUDING ALL ACCOMPANYING WRITTEN MATERIALS ALONG WITH THEIR CONTAINERS TO THE PLACE YOU OBTAINED THEM ALL RETURNS SHALL BE SUBJECT TO NI S THEM CURRENT RETURN POLICY Definitions As used in this Agreement the following terms have the following meanings 2 accept the License amp greement s C3 I da not accept the License Agreement s 4 Click Next Page 5 of 44 On Screen 5 the status of the installation is shown The installation may take a while Screen 5 3E ShuttleSoft Overall Progress Currently instal
16. ick Next Screen 9 HI Activation Wizard Activating LabVIEW 8 2 Development System The Following information is required to activate your product First Marne Last Mame Organization Ei lessen Loligo Systems 5 Register my product to Facilitate technical support and ensure I receive important updates From National Instruments Country Denmark Address Agro Business Park Address cont hu City State Postal Code We m Email Phone Fax ej loligosystems corn T4588002546 45859992599 National Instruments Product Activation Privacy Statement 9 If activation was successful Screen 10 appears Click on Finish to end the activation Screen 10 NI Activation Wizard Activating LabVIEW 8 7 Development System Product Successfully Activated The Following product has been successfully activated You may need to restart the associated product in order to use any new Functionality LabVIEW 8 2 Full Development System with MathScript IF ou experience any problems or have any questions or Feedback regarding product activation visit the Following Web site ni compactivate I want to register my NI hardware Page 8 of 44 10 Now install drivers for the hardkey dongle When Screen 11 appears click Next Screen 11 4 WIBU KEY Setup This program will install ABL EET Software on your oll Welcome to the WIBLU REY Software Setup program computer iiz strongly rec
17. ill now start sending data out every second via the serial interface RS232 DO NOT CHANGE ANY SETTINGS LIKE LANGUAGE ETC ELSE THE COMMUNICATION BETWEEN THE INSTRUMENT AND CAPCTRL WILL FAIL Page 24 of 44 5 Experiment set up 5 1 Tank Set up the shuttle tank system as shown in the diagram below Make sure to check if the direction of flow is correct For optimum separation of flows it is very important to that both sub compartments are fed with exactly equal flow rates To adjust the flow rate use tube clamps on the hose going from each pump and or raise lower the position of the buffer tanks feeding the Shuttle box tank continous Flow Recirc pump Buffer tank DECR Tubing Probe vessel DECR Shuttle tank rr en r mu m Probe vessel INCR Buffer tank INCR Recirc pump continous Page 25 of 44 To avoid mixing between the two sub compartments it is also very important that the water surface level is equal between the two sides i e to avoid water from one side entering the other due to pressure differences gravity System check It is easy to check flows inside the tank by adding a colored dye to one side and follow it over time Please check the picture below for reference Page 26 of 44 Please note that when running a turbidity experiment no probe vessels are used Set up the shuttle tank system as shown in the diagram below Place the turbidity probes in the Shu
18. ity experiments two additional USB ports are required one for each of two the two conductivity instruments e If using WTW pH 3310 instruments for preference pH pCO2 experiments two additional USB ports are required one for each of two the two pH instruments e The ShuttleSoft software tracks the position of the experimental animal on the principle of contrast between an object and its surroundings e ON the fly the software determines whether the animal is in one or the other subcompartment of the experimental ShuttleBox tank e The software then activates deactivates solenoid valves or pumps connected to digital relays on the DAQ instrument to control water quality in the two subcompartments in a dynamic way depending on animal real time position e g it is the behaviour of the animal that determines the water quality e Itis also possible to set up a static experiment during which water quality in the two subcompartments are kept at setpoint levels defined by the user in the ShuttleSoft software e The software will save all input data and calculated values to a text data file Page 3 of 44 4 Installation procedure Minimum PC requirements ShuttleSoft requires Windows XP Vista 7 running on a PC with an Intel Pentium IV processor of 2 GHz and 2GB RAM or better We recommend monitors with a minimum resolution of 1024x768 pixels 4 1 ShuttleSoft software for Windows The following steps will explain how to install ShuttleSoft on y
19. iver Stark the setup program For the driver installation 7 19 Select Install driver 20 Choose language and then click Next 21 VVhen Screen 15 appears click Next Screen 15 IDS uEye Welcome to the InstallShield Wizard for uEye Please read the file Whats ew tet before working with Eye Yu can choose to read the file at the end of the installation process Also visit http wii uepre com far the latest drivers Page 11 of 44 22 When Screen 16 appears select Complete and then click Next Screen 16 IDS uEye Setup Type Select the setup type that best suits pour needs Click the type of setup you prefer D escrplian 1 Complete 2 USB and Gigabit Ethernet Installation of all components 3 USB 4 Custom 23 Choose a destination and then click Next 24 Select a program folder and then click Next 25 Click Install to start the installation 26 Select the additional features you want then click Next Screen 17 Additional features Select or clear additional features Install a desktop shortcut to WEye Demo and to yEye Camera Manager Install a quick launch shortcut to uEye Demo and uEve Camera Manager Read the latest information about this driver release Whata ew tet 27 Select Click Finish to end the installation of the uEye software package 28 Restart the Computer You have now finished the installation of all the software Page 12 of 44 ty
20. kup the old file uEYE Loligo ini by renaming it to e g uEYE Loligo backup ini Now copy the uEYE_Loligo ini file to the folder and start ShuttleSoft The settings are now loaded Page 44 of 44
21. lay 1 On relay 1 the oxygen valve heating pump for the INCR zone must be connected RE2 This diode indicator gives the relay status for relay 2 On relay 2 the nitrogen valve cooling pump for the INCR zone must be connected RE3 This diode indicator gives the relay status for relay 3 On relay 3 the oxygen valve heating pump for the DECR zone must be connected RE4 This diode indicator gives the relay status for relay 4 On relay 4 the oxygen valve cooling pump for the DECR zone must be connected Log This diode vvill blink vvhile logging VVhen moving the mouse over the diode the actual saving path will be shown Image Here the video images from the camera is shown When maximizing ShuttleSoft on your PC monitor the image will scale accordingly Move your cursor over the image and zoom unzoom by using the scroll button on your mouse Parameter Velocity Distance graph On these graphs the values vs Time are shown e g reading from the inputs IN A or 1 and IN B or 2 The y scale can be changed by double clicking on the scale and entering a new number Right clicking will open a menu where x scale can be changed etc Page 38 of 44 6 3 2 File Menu Exit On exit the software will close the camera input and save all settings and then close ShuttleSoft 6 3 3 Settings Menu Mask Opens a dialog box where users may create a mask to avoid analysis outside areas of interest Use either one of the upper buttons to d
22. ling ShuttleS oft Part 1 of 1 Copying new files Screen 6 E ShuttleSoft Installation Complete The installer has finished updating your system Some of the installed products require activation Activate these products now 5 Click Next to end installation of ShuttleSoft and activate the product This activation requires an internet connection Page 6 of 44 6 Choose automatic activation and click Next to activate the software Screen 7 MI Activation Wizard Welcome to the National Instruments Activation Wizard Complete the Activation Wizard to activate your product Activation is the process of acquiring and applying an activation code 5 Automatically activate through a secure Internet connection 5 Use a Web browser email client telephone or Fax machine to acquire an activation code Apply a 20 character activation code previously acquired For this computer Understanding the National Instruments Software License Agreement How can I move an activated product Ea a different cam uter 7 Enter the serial number found on the LabView Vison runtime license card Then click on Next Screen 8 NI Activation Wizard Activating LabVIEW 8 7 Development System Enter the serial number supplied with your product Serial Number The serial number can be found on your product s Certificate of Ownership or packaging Page 7 of 44 8 Fill out the fields with your information when done cl
23. now be installed when done click Finish 4 Open the Measurement and Automation Explorer MAX by clicking Start gt All Programs National Instruments MAX Screen 19 Y NI DAOmx Devices Measurement Automation Explorer 9 Hide Help e My System ai 7 a Data Neighborhood NI DAQmx Devices Device Type Back 29 a GM Devicasmak WA NI USB 6008 Devi Plug in Device IMI DAOmx Devices NI DAQmx Device Basics 44 Scales e E Software c Mj 1V1 Drivers What do you want to do e Remote Systems s Bun Nl DAGmx Test Panels s Remove the device View or change device properties 5 If installation was successful the USB 6008 DAQ S USB 6009 DAQ M card is now Shown here Page 19 of 44 Please note that the newer DAQ M instrument has eight analog input channels whereas the DAQ S has only two The input channels on the DAQ S are named IN A and IN B The corresponding inputs on the newer DAQ M instrument are inputs 1 and 2 To get access to those two input channels the split data cables are needed Q 4 eo c ci j j v D m m l l mnm 2 a Ww T DAQ M Page 20 of 44 4 9WTW 3310 Cond instrument salinity only 1 Connect the WTW Cond 3310 instrument to your PC After a few seconds the software installation will start automatically Found New Hardware Wizard Welcome to the Found New Hardware Wizard Windows will sear
24. ommended that you exit all Windows programs and the control panel before running this Setup program Click sCancele to quit Setup and then clase any programs you have running Click Next to continue with the Setup program Version 5 0b Cancel 11 Select supported language and click Next 12 Click Next without changing any options 13 Click Next again after you have accepted the summary of the installation 14 When installation is done click Next again 15 Click Finish to end installation of the WiBu drivers Page 9 of 44 16 Now drivers for the uEye USB camera will be installed When Screen 12 appears click Next Screen 12 5 uEye InstallShield Wizard Welcome to the self extracting uEye installation uEye 3000 exe is a self extracting archive The files will be saved in the folder you are asked to enter The default folder will be lt TEMP JEYE_ 33000 lt TEMP iz a temporary directory selected by the system The following directories wil be created in the specified folder Check S8 This directory contains a program that shows all USB controllers of your computer system Hardware Check This directory contains a program that checks if your hardware is compatible with this driver This directory contains text files with the latest information regarding the installation and the uEye driver Setup This directory contains the installation program for the uE ye driver setu
25. our computer Insert the USB memory stick labelled Loligo and wait until you see the following screen AutoPlay Removable Disk Er i a F Open folder to view files vues AG pas Ey m using Windows Explorer View more AutoPlay options in Control Panel Click Open folder to view files and double click on the icon labelled ShuttleSoft_Installer exe Screen 1 WinZip Self Extractor ShuttleSoft 1 exe 8 Unzipping Shuttles by Loligo Systems Gatun Si T msi 1 Click Next to start installation of ShuttleSoft Screen 2 E ShuttleSoft Welcome to the ShuttleSoft installer t iz strongly recommended that you exit all programe before running this installer Applications that run in the background such as viruz scanning F utilities might cause the installer to take longer than average to complete Please wait while the installer initializes Cancel Page 4 of 44 2 Select destination directory for ShuttleSoft and LabView drivers and then press Next Screen 3 Y ShuttleSoft Destination Directory Select the primary installation directory All software will be installed in the following location s To install software into a different location s click the Browse button and select another directory Directory for Shuttles oft Pragrammer s5 huttles oft Directory for National Instruments products D Lab Vi
26. p exe Please note SOU can choose nat to delete the Installation files after the setup process Bact Next gt Cancel 17 Select unpack and remove and then click Next Screen 13 ll uEye InstallShield Wizard Remove Installation Files Do vau want to remove the Files used to perform the installation f Unpack the files used to perform the installation to a temporary location and automatically remove these files after the setup is completed Select this option if you are nat planning to run the setup again later Unpack the files used to perform the installation to the location specified below and don t remove these files after the setup is completed Select this option if you are planning to run the setup again at a later time IF the specified folder location does nat exist iE will be created automatically Save files in folder To continue click Next lt Back Cancel Page 10 of 44 18 Wait for the files to be unpacked The setup screen will appear when done Screen 14 9 uEye SDK 3 30 Webstart Welcome to the installation program For the 105 uEye camera Family Please check first whether the hardware of your camera is compatible with this driver version Wihakshew txt Show File with the latest information regarding this driver release Check hardware Check the compatibility of your camera hardware with this driver version oCheckUSBbus Show all USB controllers Install dr
27. raw a closed figure in the image Then decide if you want to include or exclude the enclosed area by pressing either one of the two upper buttons in the lower group of buttons Below there is a button to undo the last step and one to clear the entire mask and start over Also it is possible to invert the drawn mask Created masks can be saved or loaded as bitmap files for later use When maximizing the dialog box the image will scale When moving the mouse over the camera it is possible to zoom unzoom the image via the scroll button on the mouse Zones Opens a dialog box where users may define the INCR and the DECR zone Start by drawing a closed figure Then decide if the closed figure should be used as INCR or DECRS zone by clicking either on the I button or the D button Then draw a next closed figure and choose this as the missing zone Drawn zones can be saved or loaded as bitmap files for later use When maximizing the dialog box the image will scale When moving the mouse over the camera it is possible to zoom unzoom the image via the scroll button on the mouse Experiment Opens a dialog box where user may choose between a dynamic or static regulation of the water quality If choosing Static ShuttleSoft will now regulate for each of the two zones around the setpoints and hysteresis e g 20 C and 0 2 C for the INCR zone ShuttleSoft will start cooling when temperature goes above 20 2 C and will stop cooling as soon as temperatur
28. rror dialog box pops up see Screen 20 Screen 20 ShuttleSoft exe Start Error Connect the USB hardkey dongle to your PC and wait for the device to be recognized then click on Retry Then ShuttleSoft will ask the user of what kind the input is Screen 21 ET Type of variable Please choose variable to control 4 Oxygen Temperature E Salinity WTW Cond 3310 E Turbidity pH E poo If choosing preferred Salinity experiment and WTW Cond 3310 or pH or pCO2 the following screen will appear where user is asked to choose the right COM ports for the two WTW 3310 instruments Page 33 of 44 4 Instrument connections WTW Cond 3310 1 COMI el Waiting to connect WTW Cond 3310 2 I a COM Waiting to connect I Connect Cancel After choosing COM port press Connect and ShuttleSoft will try to establish communication with the two WTW 3310 Cond instruments If connection was successful the OK button gets available and the user can continue the initialization by pressing OK Now Screen 22 will now appear Screen 22 ES ShuttleSoft n m m succ ps je File Settings Calibration Log Help INCR 02 Parameter Velocity Distance R 69 M 0 2 DECR 02 0 Object zone Object 02 0 Preferred 02 lo E Time INCR s 0 E Time DECR s 2 0 Distance pix Velocity pix s 0 Passage fo FPS 1151 1
29. t Before starting ShuttleSoft the WTW instrument serial interface has to be set to secure export of data 4 J Press ENTER in 2 seconds and choose System Then press Reset and choose Yes Then press F1 and choose Reset Press Yes Press the M button several times until the instrument measures in Sal Press the F2 button in 2 seconds Choose Interval and set it to 1 s Now choose Continue and press ENTER The WTW instrument will now start sending data out every second via the serial interface RS232 DO NOT CHANGE ANY SETTINGS LIKE LANGUAGE SEND ID UNIT ETC ELSE THE COMMUNICATION BETWEEN THE INSTRUMENT AND SHUTTLESOFT WILL FAIL Page 22 of 44 4 10 WTW 3310 pH instrument pH pCO2 only 5 Connect the WTW pH 3310 instrument to your PC After a few seconds the software installation will start automatically Found New Hardware Wizard Welcome to the Found New Hardware Wizard Windows will search for current and updated software by looking on your computer on the hardware installation CD or on the Windows Update Web site with your permission Read our privacy policy Can Windows connect to Windows Update to search for software Yes this time only Yes now and every time connect a device No not this time Click Next to continue 6 Click on Install the software automatically Recommended and then on Next If Winows cannot find the drivers please insert the WTW disc Found Ne
30. t of measure and enter the known distance A pixel ratio will now be calculated and used for all calculations When maximizing the dialog box the image will scale When moving the cursor over the image it is possible to zoom unzoom the image via the scroll button on the mouse Oxygen Opens a dialog box where users may calibrate convert the input signal from the DAQ instrument to air sat C The calibration is a 2 point calibration Place the tip of the probe connected as input IN A in a known solution and wait for it to stabilize Press Lock LO and write the air sat temperature value in the LO calibration field Now place the tip of the oxygen probe in a second known solution and wait for it to stabilize Press Lock HI and write the air sat C value in the HI field Use a gt gt 20 difference between the two calibration solutions to maximize the accuracy of oxygen temperature measurements Finally choose if the input should be used as input for INCR or DECR zone Do the same for input IN B 6 3 5 Log Menu Start logging data Opens a note field where users may write notes for the experiment Then a file prompt opens and user must choose a destination for the data file When pressing OK data logging starts Stop logging data Stops logging data to the data file and closes it 6 3 6 Help Menu About This menu will open a dialog box showing the version number of the ShuttleSoft software and contact information for Loligo Sys
31. tems Page 41 of 44 7 TroubleShooting 7 1DAQ connection failure Screen 23 Error 201003 occurred at DA Qmx Create Channel DO Digital Qutput vi i Possible reason s Measurements Device cannot be accessed Possible Causes Device is na langer present in the system Device is not powered Device is powered but was temporarily without power Device is damaged Ensure the device is properly connected and powered Turn the computer off and on again IF vou suspect that Fhe dewire iz damaned_eontart Makinnal Tnebrumente at The error shown on Screen 23 occurs when the NI USB 6008 6009 DAQ card has no properly connection to the PC This error can occur in 2 ways Name is not dev1 To change the device name open the NI program called Measurement amp Automation look for desktop icon The following example on Screen 24 shows a simulated device named as dev1 The NI USB 6008 DAQ card is registered as dev2 Page 42 of 44 Screen 24 Y NI USB 6210 Dev1 Measurement amp Automation Explorer File Edit View Tools Help Configuration 1 9 Hide Help E My System 5 z ie m Data Neighborhood pack 28 Al 8 21 Devices and Interfaces aa NI DAQmx Devices NI IE MI LISB 6210 Devi DAQmx Device pa NI USB 6008 Dev2 Basics E PXI PXI System Unidentified E Serial amp Parallel 3 444 Scales l Software What do you want ca fi 1V1 Drivers to do El a Remote Systems
32. ttle tank chambers directly 4 Recirc pump continous Flow Buffer tank DECR o WZ Ll 27 Oey Tubing t DECR Shuttle tank Buffer tank INCR Recirc pump continous Page 27 of 44 5 2 Salinity The diagram below shows how to connect buffer tanks with water reservoirs not supplied containing high and low saline water The fittings in the middle of each buffer tank are used as overflows un E p Nf 2 ka xj 5 cL o E 2 Im b C uL 4 a o x z 9 x a c o ji x o 8 9 6 e 5 8 5 t E m z ule al E 2 5 m ls xj e z E m 5 un a Page 28 of 44 5 3 Temperature The diagram below shows how to connect the buffer tanks with the cooling heating baths not Supplied Tubing Cooling bath Ww 2 2 2 x 3 2 a z 2 6 c u x Q s 2 x c S 8 0 0 9 a 3 D m ul a ul E a 3 6 3 a Heating bath Page 29 of 44 5 4 Oxygen The diagram below shows how to connect the buffer tanks with O2 N gt gas bottles not supplied The air stones need to be placed into down at the bottom of the buffer tanks The remaining fittings on each buffer tank are connected together Dao ODSB A A Ajpobex il Tubing Solenoid valve RE 2 Solenoid valve RE 4 o o c o o Y 124 lt q q oz c Q
33. vioural thermoregulation For static experiments enter a setpoint and hysteresis for each zone These can also be changed during experiments For dynamic experiments the user should enter a constant difference in either oxygen temperature salinity or turbidity between the two compartments The system will maintain this difference we call it the Delta value hysteresis Depending on the animals position the valves pumps will be activated deactivated to keep a set difference Delta between the two zones During times when the animal is in the OFF zone the system will maintain the oxygen temperature salinity levels in the two zones recorded prior to entering the OFF zone 5 Sensor signal calibration Click Calibration gt Oxygen Temperature Salinity Turbidity to do a two point calibration converting analog inputs on channels IN A and IN B or 1 and 2 into relevant units air sat C etc If using WTW Cond 3310 this is not necessary Refer the OXY REG TMP REG WTW Cond 3310 user manual for further instructions on how to calibrate or service probes Then decide if input IN A or 1 Page 36 of 44 Should be used for monitoring oxygen temperature in the red INCR zone or the blue DECR zone Do the same for IN B or 2 When done click OK Now ShuttleSoft will show oxygen temperature salinity turbidity values for the zone or tank in which the animal is present During times when the animal is in OFF zone an average between the ox
34. w Hardware Wizard This wizard helps you install software for CP2102 USB to UART Bridge Controller If your hardware came with an installation CD lt 6 or floppy disk insert it now What do you want the wizard to do 6 Install the software automatically Recommended Install from a list or specific location Advanced Click Next to continue 7 The drivers will now be installed when done click Finish Found New Hardware Wizard Completing the Found New Hardware Wizard The wizard has finished installing the software for e CP2101 USB Composite Device Click Finish to close the wizard Bacl Finish 8 Repeat step 1 3 for the second WTW pH 3310 instrument Page 23 of 44 9 6 The WTW 3310 pH needs to be calibrated before starting an experiment Please follow the instructions in the WTW user manual of the instrument The user manual can be found on the CD delivered together with the instrument Before starting ShuttleSoft the WTW instrument serial interface has to be set to secure export of data Press ENTER in 2 seconds and choose System Then press Reset and choose Yes Then press F1 and choose Reset Press Yes Press ENTER in 2 seconds and choose System Then press Interface and then Output format Choose CSV and press ENTER Leave the menu Press the F2 button in 2 seconds Choose Interval and set it to 1 s Set SEND ID to Yes Now choose Continue and press ENTER The WTW instrument w
35. ygen temperature salinity turbidity values in INCR and DECR zones will be calculated 6 Data file To start writing experimental data to a file click Log gt Start Then choose a destination for the data file To stop logging click Log gt Stop To exit ShuttleSoft click File Exit 6 3 Details 6 3 1 General INCR O2 INCR temp INCR sal INCR turb This field indicates the current Oz saturation temperature salinity for the INCR zone DECR O2 DECR temp DECR sal DECR turb This field indicates the current Oz saturation temperature salinity for the INCR zone Obyect zone This field indicates vvhether the obfect is in INCR DECR or OFF zone Object O2 Object temp Object sal Object turb This field indicates the current Oz saturation temperature salinity that the animal is exposed to Time INCR s This field indicates how long the object has stayed the INCR zone This value will be set to 0 when user starts logging Time DECR s This field indicates how long the object has stayed the DECR zone This value will be set to 0 when user starts logging Distance In this field the distance moved by the object is calculated The unit of measure can be set via the menu for pixel to meter calibration This value will be set to 0 when user Starts logging Velocity In this field the velocity of the object is calculated once per second Please note that the object has to move at least a half pixel length from fr
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