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Berthold 55393 BA2, Operating Manual

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Berthold 55393 BA2 Operating Manual Download Page 82

indiGO Software Documentation 

LB 983 NightSHADE II Operating Manual 

82 

 

6.1  Graphical User Interface 

The  indiGO  graphical  user  interface  is  clearly  structured  and  offers  a  variety  of  setup 
options. 
Measurements are automatically displayed as overlay. 
 

 

 
 

6.2  Application Toolbar 

 
 

 

 
On the toolbar you find the following commands:  
 

 

Emergency Stop 

Stops all axis of the connected NightShade. The operation will cancel the currently running 
measurement. Might force a reset to the NightShade. 

 

Start an Acquisition 

Start a new measurement for the current selected or any other project. 

 

Create a new Schedule 

Create a new schedule for the current selected or any other project. 

 

Open OWL View 

Start the indiGO image viewer 

Summary of Contents for 55393 BA2

Page 1: ... BA2 Rev No 03 These units are not designed for use in hazardous areas The units must not be repaired by any person other than Berthold Technologies service engineers or technicians authorized by Berthold Technologies In case of operation trouble please contact your local service organization or the central service department ...

Page 2: ...Berthold Technologies GmbH Co KG Calmbacher Str 22 75323 Bad Wildbad Germany Phone 49 7081 177 0 Fax 49 7081 177 100 bio Berthold com www Berthold com bio ...

Page 3: ...EM DESCRIPTION 71 5 1 Use and Function 72 5 2 Design of the Acquisition Device 73 5 3 Acquisition Chamber 75 6 INDIGO SOFTWARE DOCUMENTATION 81 6 1 Graphical User Interface 82 6 2 Application Toolbar 82 6 3 Identity Context 83 6 4 Identities and Measurements 85 6 5 Contrast Slider 85 6 6 Data Slider 88 6 7 Toolbar 91 6 8 IndiGO Menu 94 6 9 Tools Menu 96 6 10 Service Menu 98 6 11 View Menu 105 7 TR...

Page 4: ...Prefatory Comments LB 983 NightSHADE II Operating Manual 4 ...

Page 5: ...nted in bold type Filter Setting Buttons are printed in bold type inside angular brackets Start Stop Enumerations are emphasized by Action steps are identified by 1 2 Warning signs at the instrument We Wear eye protection When using the LED panel an eye protection DIN EN 166 is required to prevent from high intensity light caused by the LED lights Caution Danger This sign indicates a general dange...

Page 6: ...set up and installed properly to guarantee safe opera tion The instruments are tested by the manufacturer and supplied in a condition that allows safe and reliable operation This equipment must be installed and used in accordance with the manufactur er s recommendations Installation must be performed by properly trained and authorized personnel The installation category is II The instrument may on...

Page 7: ...lling the power cord Upon removal of the front and top parts of the housing no safety measures are in effect Be aware of any moving parts The interior of the instrument may reach temperatures that can cause burns Some parts of the instrument may remain hot without visual indication for some time after the power has been turned off The electronic unit of the detector generates high voltage Do not t...

Page 8: ...nstrument may only be used in rooms with a max pollution degree of 2 This instrument must not be used in areas with potentially explosive atmosphere The residual current protective device RCD must be tested before each use of the instrument The tests and service work recommended by the manufacturer has to be performed to make sure that the operator remains safe and that the instrument continues to...

Page 9: ...sure de prélèvements échantillons sont est sou mise s à des réglementations prescrites par la loi il appartient à l utilisateur de les respecter Le constructeur a fait tout le nécessaire pour assurer le fonctionnement sûr des appareils du point de vue électrique électronique et méca nique L utilisateur est tenu de veiller à ce que les appareils soient ins tallés correctement afin d éviter toute al...

Page 10: ...e C I E 61010 1 ou EN 610 10 1 concernant les instruments de mesure élec triques Pour arrêter et débrancher l instrument la fiche doit être retirée hors de la prise Ne pas ouvrir le couvercle lors du fonctionnement de l appareil Arrêtez l instrument avant Les travaux d entretien et de réparation devront être confiés exclusive ment à des spécialistes dûment formés Les travaux d entretien uniquement...

Page 11: ... exclusive de l utilisation des réactifs Transporter l appareil uniquement dans son emballage d origine Lors du transport bloquer le support de plaques à l aide de la vis d arrêt Pour le nettoyage de l instrument veuillez vous référer au paragraphe correspondant dans ce mode d emploi Le fonctionnement correcte ne peut être garantit qu à la condition que des pièces de rechange appropriées sont util...

Page 12: ...enutzer muss dafür sorgen dass die Geräte so aufgestellt und installiert werden dass ihr si cherer Gebrauch nicht beeinträchtigt wird Die Geräte sind werkgeprüft und wurden in betriebssicherem Zustand ausgelie fert Die Geräte dürfen nur von autorisierten Personen in Betrieb genommen und nur von eingewiesenem Personal bedient werden Alle Benutzer die mit den Geräten arbeiten müssen zuerst diese Bed...

Page 13: ...zufuhr zu unterbrechen Um das Gerät vollkommen vom Netz zu trennen kann das Netzkabel gezogen werden Gerät ausschalten bevor der Stecker gezogen wird Wenn das Gerät geöffnet ist sind Sicherheitsmaßnahmen nicht mehr in Betrieb Auf bewegliche Komponenten achten Das Innere der Geräte kann Temperaturen erreichen die Verbrennungen verursachen kön nen Einige Teile können heiß bleiben ohne sichtbare Zeic...

Page 14: ...ommen werden wenn die entsprechenden Reagenzbehälter angeschlossen sind Beachten Sie alle gesetzlichen Vorschriften für den Umgang mit biolo gischem Abfall mit Reagenzien und Patientenproben Die Anwendung der Reagenzien liegt im alleinigen Verantwor tungsbereich des Benutzers Das Gerät sollte nur in der eigenen Verpackung transportiert werden Beim Transport ist darauf zu achten dass alle Transport...

Page 15: ...sentative or user d parts other than original Berthold Technologies parts are used e the product and parts thereof have been altered without written authorization from Berthold Technologies GmbH Co KG e the product has not been returned properly packed in the original Berthold Technol ogies packaging This warranty does not apply to any third party product involved in the application Berthold Techn...

Page 16: ... Technologies GmbH Co KG Technical Support Calmbacher Str 22 75323 Bad Wildbad Germany Phone 49 7081 177 114 Fax 49 7081 177 301 Email service berthold com At the end of this manual you will find a Customer Reply Form Appendix section If a problem arises with the instrument which you are not able to resolve please fill in this form and forward it to your Berthold Technologies representative or to ...

Page 17: ...troller First Time Initialization Setup 24 4 1 10First Time Initialization Setup 26 4 1 11User Management 30 4 1 12Installing Fluorescence Filters 31 4 1 13Filter Management 32 4 1 14Filter Inventory 33 4 1 15Filter Manager 34 4 1 16Filter Manager Backup and Restore 35 4 2 First Acquisitions 36 4 2 1 Quick Start Glossary 36 4 2 2 Launching the software 36 4 2 3 Defining the First Application 37 4 ...

Page 18: ... the NightSHADE with out PC and external devices is max 600 W The power consumption of the cooling unit is 340 W To power on off the system with one switch we recommend connecting all devices to a common outlet strip At least 160 cm width of workplace the load carrying capacity of the table or the desktop should be approx 100 kg Make sure that the table or desktop stands firm and does not wobble T...

Page 19: ... camera has to be installed first before it is taken into operation Please note Do not turn on the NightSHADE as long a no camera has been installed Af ter switch on the device is initialized If the device is transported over larger distances e g in a car or truck you have to dismantle the camera prior to the transport to rule out that the camera will get damaged To prevent dam age please remove o...

Page 20: ...e camera to the instrument To assemble the camera at the side proceed as follows Turn off the NightSHADE Open the top cover and remove the USB cable and the power supply cable from the camera Remove the blind plug from the side view camera holder To remove the cover turn it slightly Unscrew the bolts 3 Dismantle the camera by turning it counterclockwise until it can be removed Place the camera in ...

Page 21: ...the supply voltage Check to make sure that the system voltage indicated on the instruments matches the line voltage If possible connect all devices via one outlet strip to the mains supply The NightSHADE is initialized after power on a control lamp on the front panel is flashing The NightSHADE camera is ready for operation after it has cooled down to operating tempera ture this takes approximately...

Page 22: ...operation of the NightSHADE the indiGO software version 2 00 or higher is necessary We recommend using Windows XP SP3 or Windows 7 as operating system Older operating systems are not supported To start the installation program click on the file SETUP EXE on the data carrier After launch ing the installation program a welcome screen appears After the welcome screen the folder for the software insta...

Page 23: ...iver cannot be verified In this case allow the setup to install these Windows drivers After the installation the controller will be initialized for the first time If the installation was performed using an instrument specific installation media USB Stick the configuration procedure can be slightly different since the installer has al ready copied the instrument configuration to disk from the USB S...

Page 24: ...ind both numbers on the back of the instrument You can check the instrument ident number by starting Scan Devices If the calibration for your device was stored on the NightShade by Berthold Technologies before it was delivered you can download the stored calibration parameters from the instruments flash memory now by confirming Yes If you want to recalibrate your instrument please select No You ca...

Page 25: ...nfiguration and calibration files If there is a back up available chose the command that suits you best Select to continue To maintain the instrument the instruments controller needs to create an administrator ac count Please enter a name and a password for the administrator account Select to continue On this screen you will be asked to logon in order to verify the Administrator account ...

Page 26: ...ill be started when indiGO is launched the first time After a reboot it will not start automatically With instruments running unattended for a longer period it is recommended to choose the second option Start controller with Windows to have a working system even after a power failure when the PC is rebooting Select to continue With this screen the NightShade Controller First Time Initialization Se...

Page 27: ... Please note IndiGO manages all measuring data in a file based database The indiGO software is able to manage the database on the local computer as well as on a network location Therefore the database location can be set up to an individual folder The benefit of storage on the network is that one has access to the data from several evaluation stations which is a major advantage in a multi user env...

Page 28: ...rt number to contact the instrument controller is al ways 1024 Host and port number must be separated with a dash IndiGO offers a user management For the user management are three different modes available Disable User Management not recommended Set a Default User Account this user will be logged on automatically or User must log in everytime the software starts In case no user management is requi...

Page 29: ...r account tick the box Set a default user account By selecting Next you will be asked to set up a user name and a passwort Please note that the created account will have administrator rights Click to continue At the end of the configuration the summary page is displayed To end the first time initialization setup select Finish ...

Page 30: ...ss to all measurements created Administrators can change the ownership of measurements and man age invitations of all users Service Service users can change all settings of the system New users can be created and existing us ers can be deleted The access to measurements is restricted through the user management Other users can be invited to own projets User Users can change any settings necessary ...

Page 31: ...t through the fibre optic This fluorescence filter option is not available on LuLU and IKLu versions Filters placed in the filter slider should be fixed with the snap rings provided with the device Using excitation filters the inprinted arrow on the filter should match the arrow printed on the flu orescence filter housing The arrow should face the sample turning away from the light The filter slid...

Page 32: ...ilters the inprinted arrow on the filter should face the sample turning away from the cam era To insert the filter slides switch off the NightSHADE open the filter flap at the front side of the instrument move the wheel manually to the required position and slide in the filter holder After moving the filter wheel manually it is required to initialize the wheel again Otherwise the filter posi tioni...

Page 33: ...overns two filter inventory lists One is used for the excitation filters the other for the emission filters The inventory lists can be reached via Excitation Inventory Filter Inventory for the exci tations filters or via Emission Inventory Filter Inventory for the emission filters To add a new filter to the inventory list select the New command ...

Page 34: ...ter was added to the filter inventory list the filter can be placed on an excitation filter slider or an emission filter wheel The filter manager can be reached via Excitation Inventory Filter Manager for the excita tions filters or via Emission Inventory Filter Manager for the emission filter To add a new excitation filter slider or an emission filter wheel to the manager select New To change or ...

Page 35: ...r the filter you have to add a new filter to the Filter Inventory or to remove an existing filter from a position 4 1 16 Filter Manager Backup and Restore All data from the filter manager can be exported from the system and stored to a single archive as a backup using the command Filter Management Advanced Export Filter Inventory A further created backup can be imported using the command Filter Ma...

Page 36: ...rement 1 Measurement n Identity n Measurement 1 Measurement n Project n Projects and Users Projects can be associated to users When created the project belongs to a specified owner The owner has the possibility to allow other users to access the project and to run measure ments on identities associated with the project To allow other users the access to the project the owner has to create an invit...

Page 37: ...up an application in indiGO Administor access rights are necessary If this is not guaran teed the function to define an application is not available to rule out faulty operations To set up a new application refer to Applications Templates Measuring Templates Select New Measuring Template from the Measuring Templates context menu indiGO starts the wizard and you first have to enter a name for the a...

Page 38: ... is the time when the CCD chip is exposed to the sample Gain is an internal conversion factor Low Gain offers high dynamic range while high gain gives higher intensity numbers but limited dynamic range Read out defines the speed to read out the camera High speed is recommended for phgotographioc images high intensity measurements of fluorescence images since a higher background noise will be obtai...

Page 39: ...the lowest intensities on the image Flatfield Correction corrects the uneven image caused by the vignetting of the lens Just enable the cosmic suppression to avoid cosmic spots during longer exposures Clicking on the button will open the parameter box to adjust the image processing filters Since luminescence is measured no filter is necessary That requires the selection of the empty photo position...

Page 40: ...t of measurements select Add Photo The default parameters 100ms exposure time 10 illumination intensity can be used for most applications Disable all Post Processors in the corresponding section To close the photographic parameter wizard select To get to the sample size definition dialog box select ...

Page 41: ... meas ured e g animals or plants the sample height has to be set to a relevant range e g height of a special leaf If you are analyzing animals it is advisable to use half the height of the animal as sample height If you are working with sample holders or other extra parts e g transilluminators you have to take their height into account when calculating the sample height Comment You can enter a com...

Page 42: ...ample feature allows the possibility to split the image into sections Each section is treated as a single sample identity This feature might be useful for animal imaging in case that more than one animal at a time is measured The X Images and Y Images define the amount of samples in X and Y direction This feature is limited to five images in each direction max 25 sample ID s per measurement To clo...

Page 43: ... refer to Applications Templates Measuring Tem plates Select New Controller Template from the Controller Templates context menu indiGO starts the wizard and you first have to enter a name for the controller template you want to define You can also add a descriptive comment Select to define the control workflow Different kinds of control actions can be performed Please note that depending on the sy...

Page 44: ...steps Artificial Daylight This command sets the LED illumination panel to a defined intensitiy The used intensi ties are temporarily saved for future use Daylight Off Turns off the LED Panels and memorizes the intensities set before Should be added to a project as Pre Measurement action to make sure the artificial daylight is off while measuring Daylight On Sets the LED panels to the last used int...

Page 45: ...ion Relay Out Controls the power socket inside the dark room Relay 1 Relay 2 is not used yet Wait Defines a waiting time within the control sequence No other action is possible while waiting Sample Changer Moves the sample changer to a defined position Halogen This command will turn on the fluorescence illumination Only available with xxFlu sys ...

Page 46: ...Quick Start LB 983 NightSHADE II Operating Manual 46 tems ...

Page 47: ... parameters like user access rights scale settings etc To create a new project indiGO starts the wizard The following parameters are necessary Project Name Enter the project name under which the project is to be saved Due to the windows file and path name conventions special characters such as are not allowed Comment Enter a comment which describes the project To go to the next page select In this...

Page 48: ... select the Acquisition Settings used for the project You can define a Pre Measurement and a Post Measurement template to be executed before and after the measurement Under Measurement select the application template used to run the measurement To go to the next page select The display ranges for the b w photographic and colored signal data image can be defined on this page If Use Default Setting ...

Page 49: ...ed users are listed in the left column and can be added to the project using the add command All users assigned to the project are listed in the right column Users can be removed using the remove command Users assigned to the project are authorized to accomplish measurements for the project Us ers defined as users can t change the measurement settings for the project For users defined as guests th...

Page 50: ...er details about how to use the scheduler can be found at the end of the chapter To start an acquisition refer to Acquisition Scheduling Start an Acquisition The acquisition wizard will be shown The project and identity might be pre selected Otherwise select the project and the identity from the provided drop down lists By selecting a photographic preview of the sample using the project s settings...

Page 51: ...tart the actual measurement sequence select Upon completion of the measure ment the data is automatically stored and displayed on the screen The measurement consists of a photographic image in grayscales and the luminescence image combined in pseudo color ...

Page 52: ...sequence refer to Acquisition Scheduling Create a new Schedule The sequence wizard will be shown First of all the type of scheduled event must be specified For Scheduled measurements choose Schedule Measurement for control actions lights on mains switch etc choose Schedule Controller Template Choosing the measurement mode a Project and sample ID must be selected In case of the con troller Template...

Page 53: ...e scheduler Now the sequence is active and the instrument controller is taking care of the measurements It s possible to evaluate other measurements or even exit indigo Only the instrument controller must be running This is the case as long as the indigo icon is visible in the taskbar To check the scheduler click on The scheduler will show up displaying all queued jobs Job details can be seen by d...

Page 54: ...xt menu Please note The contents of the project folder shown depend on the user account based on the indiGO user access management The identity number is displayed on top of the data view If several sample IDs are open a cardfile tab for each identity is displayed each cardfile tab has its own color Below the identity number a row of index cards is shown containing the measurements ac quired The l...

Page 55: ...wer brightness limit At the right margin of the screen you see the intensity scale and histogram of the measurement together with the associated sliders With these sliders the scaling of the pseudocolor signal image can be set The top slider defines which intensity value has been assigned to the highest color value Values above this threshold are not dis played transparent area The bottom slider d...

Page 56: ...on different autoalignment preset features Best fit 1 to Best fit 3 are listed to adjust the min max value based on the histogram At the bottom margin of the screen a transparency slider is available This slider can be used to define the transparency of the overlay If the slider is in the 100 position the overlay is com pletely opaque whereas the overlay is fully invisible if the slider is set to ...

Page 57: ...ings as default for new Measurements is selected these settings are also valid for all future measurements in the project The selections Annotation Layer and Manually Layer will copy the areas and annota tions to all other measurements within the project The Run Peak Search option will perform a peaksearch on all other measurements in the active project using the current settings The process will ...

Page 58: ...the measured data This function is recommendet to evaluate the measuring data To use this function select An additional window is opened where the line profile created from a given lead is displayed The pixel intensity along the selected path is displayed as a line diagram The average width of the lead can be selected Moving the lead updates the line profile ...

Page 59: ...only please refer to associated command The same applies if you want to create a 3D surface plot from the measurement data only From the dialog Photo Properties or Data Properties select Range and start Sur face To change the perspective of the 3D view pick the graph and move the image to the position required To zoom in use the mouse wheel To animate the surface double click on the graph Please n...

Page 60: ...w of all automatically found peaks in the current image To run a new search select The following parameters can be edited o Peak Threshold Based on Using a droplist different search algorhytms are available Area The area of every possible spot is analyzed and if the area is larger than a size specified in a parameter box below the spot is validated as a peak This is useful to get rid of smaller un...

Page 61: ...eaks To start the peaksearch select 4 3 6 Define Areas Manually The Manual Areas are available via the command Manually They are used for the manual definition of integration areas Here you have the possibility to de fine free forms such as circles rectangles or polygons To start this function select A window is opened where an overview of all currently defined areas is displayed If you have not d...

Page 62: ...e shape to the required position A context menu for all shapes is available To open the context menu select the shape and right click inside the shape For editing the standard clipboard commands are available To use the object for background subtraction select Set as background An object defined as background area is identified by a checkmark in front of the context menu entry In this case the ave...

Page 63: ...LB 983 NightSHADE Operating Manual Quick Start 63 To export areas the Export command from the Overlay Properties can be used To import areas the Import command from the Overlay Properties can be used ...

Page 64: ...dress or logo can be setup through the indiGO options Export Images If this option is set all overlay images will be included into the report You can also select wheth er the overlay areas will be included into the images Units Area Elongating Different units for the areas and the elongatings can be selected Millimeter and centimeter can be selected for geometrical values e G area or size of an ar...

Page 65: ...e height or position the calibration is not valid and wrong results will be calculated using the default calibration In this case a dedicated calibra tion must be performed using the light standard Rich Text Export Options The report can be opened to be printed or stored into a file for further usage ...

Page 66: ...rt menu will start the Excel Report Creation Wizard To create a report follow the instructions given by the wizard In brief the following options can be set Create a Front Page With this command you can create a report front page The contents of the page like your com pany name address or logo can be setup through the indiGO options Export Area Details Graphs You can select either bar graphs or li...

Page 67: ... contain one to three worksheets depending on the selected options IndiGO The indiGO sheet contains the front page Analysis The Analysis sheet contains all measurement results and the diagrams depending on the set tings Images The Images sheet includes the overlay images and all additional measurement information e g file name date of acquisition sample description and measurement parameters to en...

Page 68: ... Scheduling Create a new Schedule The system will start the Create a new Schedule wizard which allows you to select the con tents you want to schedule first To schedule a measurement select Schedule Measurement and chose to continue On the next page you can select the project and the identity you want to measure Using the Advanced or Tools commands you can validate the acquisition pre and postcont...

Page 69: ...t 15 15 00 The Overall Measurements are set to 2 and the Delay Cycle Time was set to 2 as well Therefore the system will add two measurements into the scheduler The first will be executed Wednesday the 22th of September at 15 15 00 and the second will be executed Wednesday the 22th of September at 17 15 00 The measurements will be executed in the background by the scheduler and will be sorted au t...

Page 70: ...Quick Start LB 983 NightSHADE II Operating Manual 70 Note If you open the selected project and the scheduled identity the measured image data will be displayed automatically too ...

Page 71: ...uisition Chamber 75 5 3 1 Light tight Door with Door Button 75 5 3 2 Illumination of the Acquisition Chamber Dark Box 75 5 3 3 Connector Field 75 5 3 4 Camera and Lens 76 5 3 5 Filter Wheel 76 5 3 6 Filter Slider 77 5 3 7 Fluorescence Illumination 78 5 3 8 Bottom Plate 79 5 3 9 Top Part of Acquisition Device 79 5 3 10Connections on the Rear Panel 79 ...

Page 72: ...ons face protection mask or eye protection NightSHADE LB 985 includes the following compo nents o Acquisition device including the transport mechanism with camera and lens and the electronics The high resolution CCD camera and the special wide open lens guarantee excellent sensitivity and image quality o The control of the acquisition system and the image processing and evaluation take place under...

Page 73: ...ith camera lens and filter wheel The elec tronics and excitation light source for fluorescence measurements are accommodated in the upper part of the device The ventilation cap is designed for drawing off the waste heat caused by the camera cooling Upper part with elec tronics and camera Door can be closed light tight Operating status indicator Door sensor Connector field inside Removable bottom p...

Page 74: ...r o Connector field o Liquid cooling connectors for LED panel o LED panel control connector o Outlet of the fluorescence light for connection of the illumination light guide Rear panel Top part o Connection ports o On off switch o Mains fuse o Mains connector o USB port in o USB port out for side view camera o Camera power outlet for side view camera o Liquid cooling in outlet for LED panels o Ven...

Page 75: ...et strip in the acquisition chamber The illumination of the acquisition chamber is automatically controlled by the software 5 3 3 Connector Field The connector field is located in the right rear corner of the acquisition chamber it includes the following ports The mains socket is controlled through the software see chapter 4 2 4 To prevent exposure to danger ous UV light when using e g a UV transi...

Page 76: ...uca 120 x 120 at baseplate level up to 30 x 30mm Sample must be rasied up Discharge electrostatics before taking out the camera Clean the camera and lens only with special cleaning products from your photo shop see page 110 5 3 5 Filter Wheel The filter wheel is installed below the camera The filters are located on specific filter holders These holders can be slided into the filter wheel Please ob...

Page 77: ...O software The eject command can be found under To eject the slider select When loading the filter please observe the correct installation direction arrow on the filter wheel To reload the slider select After that the slider will be initialized by the instrument The Berthold Application Support is available to recommend filters when you are selecting the optimum filter combination for your fluores...

Page 78: ...r the best possible illumina tion For additional illumination devices such as a double goose neck see 10 1 6 or the line light see 10 1 5 an auxiliary light output port 2 is located at the right side at the ceiling of the dark box When the ring is in the lower position the light is guided to the 4 fibre optic light guides When pulling the ring to the upper side an optical switch guides the light t...

Page 79: ...t up the lid Please note The ventilation slits of the cooler must always be open 5 3 10 Connections on the Rear Panel The power supply and device communica tion ports are located on the rear panel of the NightSHADE Plug the power cord into the mains inlet 1 The main power switch is located next to the mains inlet Connect the NightSHADE to the PC via the USB B socket 2 on the rear panel using a USB...

Page 80: ......

Page 81: ...6 6 2 Data Properties Dialog 88 6 7 Toolbar 91 6 8 IndiGO Menu 94 6 8 1 New 94 6 8 2 Start a new Acquisition 94 6 8 3 Create a new Schedule 94 6 8 4 Report 94 6 8 5 Print Image 94 6 8 6 Print Report 95 6 8 7 Logoff 95 6 8 8 Exit 95 6 9 Tools Menu 96 6 9 1 Backup Projects 96 6 9 2 External Tools 96 6 9 3 Import indiGO 1 x Project 96 6 9 4 Import Winlight Data 97 6 10 Service Menu 98 6 10 1Filter Ma...

Page 82: ... 2 Application Toolbar On the toolbar you find the following commands Emergency Stop Stops all axis of the connected NightShade The operation will cancel the currently running measurement Might force a reset to the NightShade Start an Acquisition Start a new measurement for the current selected or any other project Create a new Schedule Create a new schedule for the current selected or any other p...

Page 83: ... version and copyright information 6 3 Identity Context On the left of the context bar the actual selected identity name is displayed On the right are three quick commands available Apply to Project With this command the current image and contrast settings as well as the overlay proper ties of the annotation and the manual layers can be applied to the current project You also have the possibility ...

Page 84: ...t image and contrast settings as well as the overlay proper ties of the annotation and the manual layers can be applied to all measurements of the cur rent identity You also have the possibility to start the peak search for all measurements of the identity Store Identity Store all changes made to the identity to disk ...

Page 85: ...With the contrast slider on the left side of the image the brightness of the pho tographic display is defined The top handle sets the upper brightness value whereas the bottom handle is for the definition of the lower brightness limit The brightness can be scaled using several scaling algorithms and can be aligned automatically These operations can be reached via the Photo Prop erties The Photo Pr...

Page 86: ...ettings for the scaling and the alignment Scale Scale the contrast of the photo using the selected algorithm Align Align the contrast sliders using the selected algorithm 6 5 2 Photo Properties Dialog To access the photo properties dialog simply click the icon shown below Photo The Photo page is used to select the active photo If a measurement contains more than one photo the photo displayed with ...

Page 87: ...date the photo was taken In our example 03 March 2010 005800 is the recording time In our example 12 58 00 AM By following the link the indiGO image viewer will be opened and the photo will be displayed Unit The Unit page can be used to setup the unit of the contrast slider Range The Range page can be used to setup the contrast slider For further analysis a LUT and a surface is supported ...

Page 88: ...es which intensity value has been assigned to the highest val ued color Values above this threshold are displayed in white The bottom slider defines which intensity in the signal image is displayed with the lowest valued color All values below this threshold are not displayed 6 6 1 Data Properties Quick Menu The Data Properties Quick Menu supports the the same functions as the Photo Properties Qui...

Page 89: ...The Range page can be used to setup the data slider For further analysis a LUT and a surface is supported In addition the overlay intensity can be set through Overlay level Filter The Filter page can be used to change or setup the filter properties used to render the over lay ...

Page 90: ...False Color Table Activates the system default false color table Record Filter Activates the filter properties used for recording Custom Filer Enables the user to setup a custom filter using a center wave length and a bandwidth Custom Gradient Enables the user to define a gradient using a center wave length ...

Page 91: ...oom Increase the zoom Used to increment the zoom Current zoom Used to setup the zoom manually displays current zoom factor Align Align image into the view used to calculate a best fit zoom factor Undo area editing Redo area editing Used for undo and redo while area editing is active Annotation Menu Create annotation areas ...

Page 92: ...indiGO Software Documentation LB 983 NightSHADE II Operating Manual 92 Manually Menu Create manual areas Peak Search Menu Starts the peak search Peak Search Command ...

Page 93: ...port Rich Text Report Starts the wizard to export a Rich Text report Same function as Rich Text Report Copy current view to clipboard The current presentation of the measurement will be copied to the clipboard Same func tion as Copy Image Render Video Starts the wizard to create a video of the measurements Same function as Create Video Print Report Starts the wizard to print a report Same function...

Page 94: ... measurements Several quick check commands are available to verify the settings made to the application For further details please refer to chapter 4 2 5 6 8 3 Create a new Schedule The system will start the Create a new Schedule wizard which allows you to select the con tents you want to schedule first For further details please refer to chapter 4 4 3 6 8 4 Report indiGO offers the possibility to...

Page 95: ...eport indiGO offers the possibility to create and display measurement reports The output can be adapted to the user s requirements For further details please refer to chapter 4 4 6 8 7 Logoff This command will change the current user account 6 8 8 Exit Quit indiGO to come back later ...

Page 96: ...network drive or removable storage to assure a proper backup An Backup name can be assigned This is the name of the file created by the backup extension zip dba Depending on the amount of data and the computer transfer performance the backup may take a while After a successful backup a summary page will pop up 6 9 2 External Tools indiGO supports some external tools which can be accessed through t...

Page 97: ...cessful import a summary page will pop up 6 9 4 Import Winlight Data Projects and measurement data created with WinLight can be imported into indiGO for reanaly sis via this command A smart wizard will guide you through the steps necessary to import the data Please follow the instructions given by the wizard The file structure of the files to be imported must fit the file structure of images creat...

Page 98: ...s command will start the indiGO filter manager For further details please refer to section 4 1 14 6 10 2 User Manager This command will start the indiGO user manager For further details please refer to section 4 1 12 6 10 3 Controller Service The Controller Service command will start the Instrument Controller Setup ...

Page 99: ...libration tasks 6 10 4 Device State The Device State command can be used to display the current states of the instrument the camera and the scheduler Raw device commands and test operations can be executed using the context command but tons 6 10 5 Quick Check The Quick Check command can be used to get access to highlevel quickcheck commands for photo luminescence and fluorescence ...

Page 100: ...rough the neccessary steps to perform the quickcheck 6 10 6 Controller Version The command will display the current controller and instrument version information Please note Watch the owl while moving the mouse 6 10 7 Messages The Messages command will start the systems Message Monitor which can be used to re view internal indiGO trace and error messages ...

Page 101: ...LB 983 NightSHADE Operating Manual indiGO Software Documentation 101 ...

Page 102: ...iguration wizards and connectivity settings necessary for update and sup port mail access Setup Database Connection Using this wizard the connection type can be changed This might be required when the com puter was moved away from the system or in case the database was changed from the local disk to a network drive Enter the type of connection first usually direct connection to the instrument and ...

Page 103: ...efault User With this wizard a default user can be assigned who logs in automatically after launching indiGO The user management can be disabled completely or a default user can be assigned First Time Initialisation Wizard This button will start the initial initialization See chapter 4 1 10 for details Export Export report settings like address company logo and preferred format ...

Page 104: ...indiGO Software Documentation LB 983 NightSHADE II Operating Manual 104 ...

Page 105: ...r This option is not persistent and the toolbar will be shown on the next start of indiGO 6 11 2 Statusbar This command shows or hides the status bar This option is not persistent and the statusbar will be shown on the next start of indiGO 6 11 3 Scheduler Open the editor for the scheduler For further details please refer to section 6 2 ...

Page 106: ...hooting LB 983 NightSHADE II Operating Manual 106 7 Trouble Shooting 7 1 Hardware 107 7 1 1 Door status always open 107 7 1 2 Fluorescence lamp not working 107 7 2 Software 108 7 2 1 Surface plot not visible 108 ...

Page 107: ...son could be a disaligned door sensor The door senssor is located at the upper right front side of the dark box To adjust the door sensor refer to 8 2 3 7 1 2 Fluorescence lamp not working The built in halogen fluorescence excitation light source has a lifetime of approx 30h When the lamp is no longer working replace the lamp Refer to 8 2 4 ...

Page 108: ...s card is required 7 2 2 USB Driver installation fails on 64 bit systems On 64 bit operating systems such as Win7 it can happen that the USB drivers for the camera and the instrument are not properly installed In this case a manual installation of the drivers through the Windows device manager is required This method requires the use of the original drivers since the windows install methods needs ...

Page 109: ...Camera and Lens 110 8 1 1 Removing the bottom plate 110 8 1 2 Cleaning the Dark Box 110 8 1 3 Cleaning the Camera 110 8 1 4 Cleaning the Lens 110 8 2 Darkbox 111 8 2 1 Replacing the Air Filter 111 8 2 2 Replacing the Fuse 111 8 2 3 Setting the Door Sensor 111 8 2 4 Replacing the halogen lamp 112 ...

Page 110: ... or optical paper Remove the camera for cleaning Dismantling and cleaning the camera o Turn the camera to unlock the bayonet lock o Carefully lift the camera off from above o Do not detach the cable from the camera o If the camera has a shutter start an acquisition with long exposure time via the software This opens the camera shutter at the bottom and allows you to remove dust particles Caution D...

Page 111: ... with the screwdriver like a drawer o Replace the fuse o Insert the fuse holder again until it clicks into place Use only fuses that match the value and the line voltage indi cated on the device 250V T 6 3AL 8 2 3 Setting the Door Sensor In case the sensor on the door frame should be displaced so that there is no contact although the door is closed you can easily re adjust the sensor as follows o ...

Page 112: ...ug the mains connector If the lamp was in use before allow some time to cool down the lamp Open the top flap to get access to the lamp module Pull out the black protection cover to get access to the lamp Remove the lamp from the snap in holder Unplug the lamp socket and plug in the replacement lamp Do not touch the reflector of the lamp to avoid damage of the lamp Place the lamp back into the snap...

Page 113: ...ation Lens standard 25mm f 0 95 Sample chamber Illumination internal illumination can be adjusted via the software optional white light fluorescence illumination 400 800 nm Max sample size 210 mm x 210 mm Min sample size 50 x 50 mm with standard lens Dimensions Acquisition device 600 mm x 900 mm x 400 mm WxHxD Camera head 110 mm x 175 mm x 110 mm Sample chamber inside 400 mm x 380 mm x 450 mm Weig...

Page 114: ...o Blue 470nm o White warm white o Red 660nm o Far red 730nm Make sure to wear standard safety glasses when using the LED panels due to the possible high intensity of the light source CE EN 166 EN 172 These safety glasses ensure that bright intense light intensity will not harm the be holders eyes The panels are coded for the left and the right hand side They are fixed on the upper left and right s...

Page 115: ...ear side of the miniChiller and the rear panel of the NightSHADE Tubing connector at the miniChiller and at the rear panel of the NightSHADE When the miniChiller or any other device using liquids to cool the LED panel is connect ed to the NightSHADE it is not allowed to operate 100 230V devices such as transilluminators etc inside the dark room due to electrical safety regulations The preset tempe...

Page 116: ...ing holes and markers on the positioning plate The orientation of the turn table can be seen on the image below Depending on the sample size the turn table can be lifted up to change the image center In addition the positioning plate offers 2 different posi tions to adjust the sample size When using the 130mm petri dishes the turn table must be placed at the outer right position to ensure the whol...

Page 117: ...e dummy plug must be present Switch on the NightSHADE to initialize the turn table Before removing the turntable make sure the instrument is switched off The sample changer feature must be activated in the indiGO service backend in order to control the turn table The position of the turn table is defined by the number of the sampleID 001 represents the sample position 1 006 moves the turntable to ...

Page 118: ...ecified on the type label of the device Never leave the transilluminator powered up without any supervision Before carrying out any maintenance and repair work pull the power cord and make sure that all parts of the device you may possibly come into contact with have cooled down to room temper ature Pull power cord Different types of transilluminators are available For this reason there are differ...

Page 119: ...tensity of the light source CE EN 166 These safety glasses ensure that bright intense light intensity will not harm the beholders eyes All safety glasses that reduce the light intensity by approx 50 can be used Every transilluminator may be operated only by persons who have been trained and instructed accordingly and who possess the appropriate authorization These persons must be familiar with the...

Page 120: ...on it will work only after the device has booted up again This is done by clicking on and selecting Boot Device from the Reference dropdown list After approx 5 to 10 minutes the heated macro measurement table has reached its working temperature preset 37 C The current temperature is displayed in the bottom status bar of the indiGO user interface The default temperature can be defined in the config...

Page 121: ...ar illu mination conditions Plug the fiber optics connection into the transfer port see 5 3 7 located in the right upper sec tion of the dark box of the NightSHADE it ensures reliable light coupling 10 1 6 Goose Neck Light Guide The goose neck light guide is used to illuminate very small samples or plant parts Thanks to the two flexible arms it can be employed universally and can be adapted to the...

Page 122: ...e white reflector microplate position E9 emits light with an energy of approx 20nW see individual certificate This spot can be used to check the NightSHADE calibration The measuring time should not ex ceed 1 second since the camera could be saturated otherwise Position E6 gives a lower signal intensity This position can be used to check the detection limit with additional neutral density filters o...

Page 123: ...nd the Customer Reply Form to Berthold Technologies GmbH Co KG Technical Support Calmbacher Str 22 75323 Bad Wildbad Germany Phone 49 7081 177 171 Fax 49 7081 177 446 Email service berthold com or send it to your local representative A blank Customer Reply Form can be found overleaf ...

Page 124: ...ess Address Phone Fax Email Instrument ID no Serial no Embedded software version Instrument driver software version Accessory instruments PC Software PC software version Windows version Computer type CPU type Other installed software Time when problem occurred Windows clock Error message s Description of the problem ...

Page 125: ...pe attached to the out side Please use capital letters to fill in the form instrument component serial no instrument or component has come into contact with radioactive substances Isotope s means of decontamination applied chemical reagents specify R and S rules means of decontamination applied biological material specifiy means of decontamination applied contagious agents specify means of deconta...

Page 126: ...el 67 Report Settings 103 Rich Text 65 Exposure Time 38 Filter Manager 34 filter slider 77 filter wheel 76 first time initialization 27 Flatfield Correction 39 Fluorescence Filters 31 fuse 111 Fuse 111 Gain 38 goose neck light guide 121 Guest 30 halogen lamp 112 Identities 48 Import indiGO 1 x Data 96 WinLight Data 97 LED Panels 114 line light 121 Messages 100 miniChiller 115 Noise 113 Peaksearch ...

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