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DMT VAS - Acquisition

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1. cell length and sarc length C Cell Length Only Rename Allows the user to change the experiment name Add Adds a new experiment see below Copy Adds a new experiment with the same settings as the selected experiment Eva Delete Delete highlighted experiment after confirmation Experiment Manager Dialog Edit Opens the Parameters dialog to allow editing of the se lected experiment Cancel Undo ALL changes and close dialog Clicking the X in the upper right corner is the same as Cancel OK Save ALL changes and close dialog Adding a New Experiment New Experiment Name When you click Add in the Experiment Manager dialog you will be asked to Example enter a name for your new experiment When you click OK the experiment will be added to the list highlighted and made the current experiment At this point the Parameters dialog will be empty Please see the Parameters section for a discussion of selecting the tasks and other options for this experiment Name New Experiment Dialog 12 DMT VESSEL ACQUISITION SUITE 6 1 ACQUISITION USER MANUAL 3 4 Parameters Dialog The Parameters dialog is used to enter edit the details of the current experiment selected in the Experiment Manager The Pa rameters dialog is used to e Define general experiment information e Select specific tasks for this experiment from the list defined in the Task Manager dialog e Create one or more epochs tha
2. ing Task dialog The graph vertical axis will be labeled using the Full Description string from the Trace Recording Task dialog 4 1 1 1 Task Settings Clicking the Edit button in the Task Manager when a Trace Recording Task is edd MA e Trace Recording Task highlighted will display the task settings dialog It has the following fields General Mame Bath Temperature Name Name this task Name is also used as the Type in the Trace Viewer for data acquired using this task Sensor Temperature Sensor Analog Source Sensor Select the desired analog trace Task Connection from the list available in the current hardware tree Image Quantity Measured sensors can not be used Full Description Abbreviation degrees Calcius C Full Description Describe the parameter being recorded eg Tempera ture or Degrees Used as the vertical axis label for data displayed in scaled units Calibration Units Units Raw 20 Units degrees 2 000 50 000 Notes Abbreviation Provide short hand notation of Full Description for ex ported table headings Again for a temperature probe you might enter Temp or C Units Enter label for raw data trace For analog inputs it would be volts For PMT it would be counts Units Raw Provide the calibration value that converts volts to the desired units You will probably need the Trace Recording Task dialog manual of the device that puts out
3. DMT VESSEL ACQUISITION SUITE 6 1 DMT VAS ACQUISITION User Manual Version 1 1 2 DMT VESSEL ACQUISITION SUITE 6 1 ACQUISITION USER MANUAL DMT VESSEL ACQUISITION SUITE 6 1 DMT VAS Trademarks All rights reserved No parts of this work may be reproduced in any form or by any means graphic electronic or mechanical including photocopying recording taping or information storage and retrieval systems without the written permission of the publisher Products that are referred to in this document may be either trademarks and or registered trademarks of the respective owners The publisher and the author make no claim to these trademarks While every precaution has been taken in the preparation of this document the publisher and the author assume no responsibility for errors or omissions or for damages resulting from the use of information contained in this document or from the use of programs and source code that may accompany it In no event shall the publisher and the author be liable for any loss of profit or any other commercial damage caused or alleged to have been caused directly or indirectly by this document Document date February 1 2010 Printed October 2010 in Milton MAUSA Copyright 2008 10 lonOptix LLC lonOptix LLC 309 Hillside St Milton MA 02186 Phone 617 696 7335 Web www ionoptix com Trademarks 3 Contents OM ANK S ken at en kw ca ek E e mee a aes e aa e an a a k
4. Select intermediate calculation units to be either units that are natural for your data and or provide manageable conver Name for this specific instance of the task Also used as part of the string in the first yellow box type in the Trace Viewer for data acquired using this task Enter any notes to yourself about this recording task All raw traces must be converted to a common set of intermediate units in order perform the calcula tions Specify the units for Length Len Mass and Time The first items select which traces will be available and determines which Data Sources will be re quired Mean Pressure requires Inlet Pressure and Outlet Pressure data sources Vascular Resistance requires Volume Flow Inlet Pressure and Outlet Pressure data sources Shear Stress requires Volume Flow Inner Diameter and Inner Area data sources Reynolds Number requires Volume Flow Inner Diameter and Inner Area data sources The last two items indicate which additional available traces are automatically available based traces selected above Flow Velocity available if Shear Stress or Reynolds Number trace is selected Pressure Diff available if Mean Pressure or Vascular Resistance trace is selected sion values in the Unit Conversions dialog Q If you change the name of an existing task all saved user limits and templates will be reset Solution Presets The Presets group allows you to define an arbitrary number of soluti
5. Setting Pacer Frequency To select a specific pacing frequency enter the correct Countdown Value to divide the Base Clock Rate of the selected timer to get the desired Pacing Frequency Base Clock Rate Pacing Frequency Countdown Value Q Consult lonOptix before using pacing frequencies greater than 1000Hz 10 DMT VESSEL ACQUISITION SUITE 6 1 ACQUISITION USER MANUAL 3 2 Task Manager Dialog The Task Manager is used to define a collection of tasks that are available for use in one or more experiments Tasks are created by selecting a desired task type see 8 Acquisition Tasks for a list of standard acquisition task types and then selecting the spe devices to use and entering various labels and calibration values needed to run the selected task type To access the Task Manager dialog select Task Manager in the Collect menu or click on the Manage button in the Parameters dialog Some task types such as Cell Length Recording task are extra cost options that may not be present on your system Here is a description of the parts of the Task Manager dialog Existing Tasks Shows the names of all currently defined tasks in the system Click on a task to select it highlighted with pisces Ue ae the blue bar Experiments Lists experiments that are using the currently selec ted task Add Creates a new task Edit Edits parameters for the currently selected task Task Manager Dialog Delete Del
6. Task Trace source type as the trace is selected in the experiment settings group of the Parameters dialog 4 1 2 2 Experiment Settings Selecting the first column of an event recording task row in the Parameters dialog will display the experiment settings group in the edit area The values that can be edited depend upon the Source Type selected in the Event Recording Task dialog Event Type Digital Source There are no additional experiment settings required for the Digital Source source type Event Type Trace Source or Task Trace Single level threshold Dual level threshold Chapter 4 27 For the Trace Source and Task Trace source types you will need to specify the threshold value s that you would like to test to determine the event Type Choose Level for a single threshold value Choose Range for two threshold values Threshold Enter the threshold level in the raw units of the sensor Rising Create an event when the value of the sensor rises from below the threshold value to above Falling Create an event when the value of the sensor falls from above the threshold value to below Source Trace For a Task Trace source type select from a drop down list of all constructed traces in the current experi ment For a Trace Source source type the control is disabled Bi The specific raw sensor that is used for the Trace Source source type is set in the Event Recording Tas
7. Timer See the Timer Configuration dialog for instructions on selecting the system timer source 3 1 1 Add Root Device Dialog Clicking the Add Root button in the Hardware Manager dialog will display the Add Root Device dialog It displays a list of all supported root devices in the Type of Device section If you uncheck the Show All Devices checkbox you will hide hardware devices whose required Windows device driver is not installed After you have selected a device you will see a list of available instances of the device Select the instance that you want to use and then click the Add button The device s Specification dialog will automatically open Please see the device of interest in the Acquisition Devices section for details about the Specification dialog If the instance list is empty it means that you have already installed the maximum supported number of the device type in the hardware tree For details on specific devices please refer to the Connections section of the Acquisition Devices section 3 1 2 Timer Configuration Dialog The Configure Timers button of the Hardware Manager dialog will open the Tim er Configuration dialog The Timer Configuration dialog allows you to select the master interrupt source to use in the system and configure a specific pacing fre quency This pacing frequency determines that rate at which data is sampled Selecting Timer The Timer drop down menu will show all devices in y
8. a device it will be listed next to the connection point following the arrow gt and any connections that it provides will be listed below indented an additional level Eventually you will attach all the devices that will provide input to or output data from DMT Vessel Acquisition Suite For details on specific connections or devices please refer to the device s documentation in the Acquisition Devices sec tion Adding Root Devices Root devices are specialized devices that connect directly to the computer and use a Windows device driver such as interface cards and USB devices In some cases a root device may also be a standin for hardware that does not have any computer controllable parts such as a single excitation light source You must add the appropriate root device using the Add Root button before you can add any non root devices See the Add Root Device dialog for more information Attaching Devices To attach a child device to a root device or other device with connection points select the desired connection point in the Hard ware Tree and then pick a device from the Free Devices section and click the Attach lt lt button The device s Specification dialog will automatically open Please see the device of interest in the Acquisition Devices section for details about the Specification dialog Deleting Devices To delete a device and any attached child devices select the device in the Hardware Tree then click the De
9. any epoch column of a vessel dimension recording task row in the Parameters dialog will display epoch settings group in the edit area for the selected epoch The edit area will let you select the following values Frequency Period Average Sampling frequency if Frequency selected in the ex periment settings column Sampling period if Period selected in the experi ment settings column not pictured At a given frequency period there will be a maximum number of points displayed as the of n that can be collected Select the number of samples to average into a single raw data point Vessel Rates Frequency 60 000 0 060 lt 60 000 lt 60 000 Average 1 of 1 Vessel dimension recording task gobal settings edit area The minimum and maximum values for frequency or period are determined by the camera capabilities and settings Frequency and period values are rounded to the nearest multiple of the pacer frequency and displayed above the input box When focus is moved away from the control this value is moved into the input control 30 DMT VESSEL ACQUISITION SUITE 6 1 ACQUISITION USER MANUAL 4 1 3 4 Tool Bar Display Video 4 Current f3 l Height 2 Help Vessel Dimension Recording Task Tool Bar Video Options Gain Offset 100 100 50 3 0 0 Default The Vessel Dimension Recording Task tool bar provides on screen mechanism for visual
10. data you enter in the following files located in the DMT Vessel Acquisition Suite program directory IHWCFG XML Hardware manager configuration data DA EST Task and experiment definitions D4 GST Task control options entered via the tool bars To copy your hardware task and experiments settings between installations of DMT Vessel Acquisition Suite copy all three files Q If you delete IHWCFG XML the other files will be unusable 56 DMT VESSEL ACQUISITION SUITE 6 1 ACQUISITION USER MANUAL Notes Notes 57 DMT A S Skejby Science Center Skejbyparken 152 DK 8200 Aarhus N Tel 45 87 41 11 00 or A A OL www dmt dk sales dmt dk support dmt dk DMT Asia Rm 28C Liang Feng Building No 8 Dong Fang Road Lu Zui Financial District Shanghai 200120 China Tel 86 0 21 5425 1330 Fax 1860 21 SST 0063 wwwv dmt asia com salesQdmt asia com support dmt asia com DMT USA Inc 206 East Liberty Street Suite 6 Ann Arbor MI 48104 USA Tel 1 770 612 8014 Fax 1 678 302 7013 www dmt usa com sales dmt usa com support dmt usa com
11. device if any will return at the end of the current epoch Activate button When clicked all new values will override any values set by acqusition task s if any Values will not return to acquisition task control until then end of the current epoch or until manual override is disabled When manual override is enabled and you activate new settings the normal output by the signal generator task is disabled until the end of the epoch or if the Lock button is pressed until manual override is disabled 44 DMT VESSEL ACQUISITION SUITE 6 1 ACQUISITION USER MANUAL 4 3 Task Primitives The following primitives are tools that are common to more than one task 4 3 1 Video Calibration Dialog The Video Calibration dialog is used to collect and calculate the scaling factor used to convert pixel dimensions into physical units from within the Task Settings dialog of any acquisition task that measures objects seen by a camera The resulting value IS automatically entered into the Units Pixel field of the recording task when you click OK This is done by placing an object with known physical dimensions on the microscope stage then using the mouse to indicate where on the video image the object is located The Video Calibration dialog has three main areas Video Calibrartion 1 Video display and measurement area This area n most delay 3213661520 Frame rate 60 883 displays the live video from the camera 2 Calibration Data The original sca
12. possible and that there is reasonable contrast between the lines and the background bi 1 M Video Calibration stage micrometer position add a new calibration measurement click the Add point button A popup message box shown at right will prompt you to enter the length that you want to measure The units um in this example are taken from current value of the units field in the recording task that you are editing The value that you enter here will be physical length of the calibration ruler control that you will position on the video screen in the next steps Video Calibration Enter unit spacing 46 DMT VESSEL ACQUISITION SUITE 6 1 ACQUISITION USER MANUAL 4 Afteryou click the OK button a new calibration ruler control will be added in Udas Calihrastion the Video Display Area The control can be moved and resized by dragging different areas of the control Video Ce Post dela Video Calibration calibration ruler 5 To stretch or shrink the length click and drag the red box at either end to the left or right When you click on the end a white box will appear to confirm that you have clicked in the correct location 6 The exact position of the edges are calculated by scanning the video image under the box The resulting position is displayed as a magenta line below the box When positioning the left right ends of the calibration ruler control move red box so that it is over the image of
13. task produces the following traces in DMT Vessel Acquisition Suite where Name is the description entered in the Task Settings dialog The actual traces that you will see depend on options selected in the Task Settings and Experiment Settings Name Raw Inputs traces Name Inputs traces Name lnputs zones traces Name Inputs iunit traces Name Inputs iunit zones traces Name Inputs interpolated iunit traces Name lnputs interpolated iunit zones traces Name Outputs iunit traces Name Outputs iunit zones traces Name Outputs traces Name Outputs zones traces Raw data traces collected by Data Sources that are defined using a hardware sensor Flow flow rate Diameter vessel diameter Inlet Pressure inlet pressure Outlet Pressure outlet pressure Raw Inputs trace s scaled to calibrated units specified in Data Sources group of Task Settings PLUS area if diameter trace does not have zones Flow flow rate Diameter vessel diameter Inlet Pressure inlet pressure Outlet Pressure outlet pressure Area calculated from Diameter task output OR from Diameter raw input trace Calculated trace when diameter traces can have more than one zone Area calculated from Diameter task output hidden by default All Inputs traces converted to intermediate units hidden by default All Inputs zones traces converted to intermediate units hidden by defau
14. task row i e the row heading or the global settings row Add Task Menu When you delete a task from the experiment you are NOT deleting it from the system Any other experiments using the same task will not be affected Cy If you accidentally delete a task you can press the Cancel button to restore ALL parameters to their previous values Control functions Epochs Group The Epochs group has the following functions for working with Epoch columns New Epoch Clicking the New button in the Epochs group of the Parameters dialog will add a copy of the currently highlighted epoch to the end of the list If this is the first epoch it will filled with default values You can edit the new epoch by selecting the appropriate cell in the main grid and then editing the values in the matching Edit Area group Delete Epochs Clicking the Delete button in the Epochs group of the Parameters dialog will remove the current epoch and shift any remaining epochs to the left over the deleted epoch Move Epochs Clicking the or buttons in the Epochs group of the Parameters dialog will move the current epoch to the left or right When the experiment is run epochs are run from left to right So moving an epoch allows you to change the order in which they are run Control functions Ok Cancel and Help Cancel Undo ALL changes and close dialog Clicking the X in the upper right corner is the same as Cancel Ok Save ALL changes and close dialog He
15. to device Control Temperature Check to enable pressure control Force mN Display current force and zero control Current actual force Zero Force reset current force as zero force pH Probe Display current pH reading Current Actual pH reading or No pH meter attached if enabled in Specification dialog The initial values in the Test dialog are read from the Pressure MyoGraph device when the Test dialog is opened After the dialog is opened changes made using the Myograph controller keypad will NOT be reflected in the Test dialog and will be replaced if changed using the Set button 5 1 1 5 Manual Control DMT 11 Controls 36 8 T Set 20 0 37 6 60 0 Pi 88 P1 Set D fI0 20 59 P2 Set 0 lt 60 250 v Pressure On Off l Heater On Off 000 6 Zero Force DMT Pressure Myograph Manual Control The DMT Pressure Myograph device has a manual control group that appears in the Manual Control Tool Bar displayed in the in the Experiment Tool Bar area at the bottom of the DMT Vessel Acquisition Suite window It allows you to see the current hardware settings and to override settings set by acquisition tasks The manual control group appears whenever any DMT Pressure Myograph Task Connection is used in any acquisition task that is included in the current experiment Chapter 5 51 Display Values The following values are displayed in the left side of the tool bar Current temperat
16. tool bar mark group You may also enter marks at any point in the past with the mouse See the main DMT Vessel Acquisition Suite manual for details Saving Closing After you stop the experiment you can can save it by picking Save from the Collect menu Chapter3 23 Chapter 4 Acquisition Tasks Before you can create an an experiment you must define all of the tasks that you want to execute in the Task Manager dialog To define a task you will need to select from a list of the task types that are available There are two main groups of task types recording tasks and output control tasks A recording task records data from one or more devices Depending on the task type the data will be either a collection of traces values over time or will be a list of events times an event occurred Recording tasks may also control devices as part of the recording task such as moving a filter wheel to the correct excitation filter before reading the the emission output intensity Output Control tasks output trace data to a device or provide control of a device separately from other experiment tasks Recording Task Types Here is a list of common recording task types Additional recording task types may be documented separately Trace Records values from a device at the rate specified in the current epoch Event Records the times that a signal is detected from a device Fluorescence Controls an excitation light source and records resulti
17. traces that you want to collect with this data Select what data trace will provide the output times for the calculated data Choices are Flow Diameter Inlet Pressure and Outlet Pressure Select the solution preset to use from the list defined in the Solution Presets group of the Task Settings dia log Select the specific task output trace for each Task Output data source defined in the Task Settings dia log Vessel Flow Options Sampling Units Frequency Hz Traces To Collect Mean Pressure v Shear Stress Vascular Resistance V Reynolds Number Master Rate Solution Preset Flow vi Some Solution Diameter Data Source Vessel Cale Lumen Diameter 1 vi Area Data Source Vessel Cale Lumen Area 1 m Vessel Flow Recording Task experiment settings edit area All output traces eg Name Outputs will have the same times rate as the data trace selected in Master Rate Chapter 4 39 4 1 4 3 Epoch Settings Selecting any epoch column of a Vessel Flow Characteristics Recording Task row in the Parameters dialog will display the epoch settings group in the edit area for the selected epoch There will be a separate group for each Data source and the contents of that group will depend on how it is configured in the Task Settings and Experiment Settings The edit area will let you select the following values If the data source is a hardware sensor Frequen
18. values set by acqusition task s if any Values will not return to acquisition task control until then end of the current epoch or until manual override is disabled When manual override is enabled and you activate new settings the normal control of the DMT device by any acquisition tasks is disabled until the end of the epoch or if the Lock button is pressed until manual override is disabled 52 DMT VESSEL ACQUISITION SUITE 6 1 ACQUISITION USER MANUAL Manual Settings The remaining controls in the toolbar give you manual control of parameters that can only be set here or with the front panel controls on the device The lw Pressure On Off Enable Lock and Activate buttons operate differently for these controls see Zero Force v Heater On Off below igi DMT Pressure Myograph Manual Toolbar Group manual settings Pressure On Off Automatically changes to reflect current hardware setting When the Enable button is pressed you can turn on pressure control by checking the box and turn off by unchecking the box Heater On Off Automatically changes to reflect current hardware setting When the Enable button is pressed you can turn on heater control by checking the box and turn off by unchecking the box Zero Force When the Enable button is pressed clicking the button will make the current force reading zero 5 1 2 DMT FlowMeter 161FM The DMT FlowMeter device allows flow readings Device Name The DMT FlowMeter device appears as Fl
19. would be to output the cell length trace to a chart recorder Signal Generator A task can output a different value to a device at the start of each epoch An example usage would be to change the temperature of a solution between each epoch 4 2 1 Trace Output Task The trace output task scales values from the selected Trace Data Source and outputs them to the Data Receiving Device The source can be any trace from the current experiment or any analog sensor in the current hardware tree The range of source values that you specify in the Experiment settings are output over the range of the Data Receiving Device New output values are calculated at the pacing rate set in the Hardware Manager Timer Configuration Dialog The output is delayed by an amount specified in the Experiment Parameters Global Settings DA Delay to allow data from sensors with different processing times to be synchronized A trace output task uses data entered in three separate places e Task settings Settings that apply to all experiments using this task Entered in the Task Manager dialog e Experiment settings Settings that apply to all tasks and epochs in an experiment Entered in the Experiment Global Settings section of the Parameters dialog e Epoch settings Settings for this task that apply to all epochs in an experiment Entered in the Parameters dialog 4 2 1 1 Task Settings Clicking the Edit button in the Task Manager when a Trace Output Task is highlig
20. 0 000 s T ual fi Hodes Qutside n Frequency Bath Temperalure Uphors View 10 000 Outsidae in 240 000 Hz Options Mirimize excitation 4 Sampling Unita i Source E poche Deere eem Nen Dese End Cir lt lt l Melhad irterpolaksd 0100 5 amplig TERR Hz Experiment Settings Column selected 14 DMT VESSEL ACQUISITION SUITE 6 1 ACQUISITION USER MANUAL The figure shows the edit area when the Experiment Settings column is selected The indicated areas show 1 Experiment Global Settings Experiment options global to all tasks in an experiment See Experiment Global Settings for details the remaining items depend on the tasks in the experiment 2 Edge Options Experiment options for Edge task See Cell Length Recording Task Experiment Settings for details 3 Bath Temperature Options Experiment options for Bath Temperature task See Trace Recording Task Experiment Settings for details 4 Dual Excitation Options Experiment options for Dual Excitation task Dual Excitation Trace Recording Task Experiment Settings Epoch Settings Ni Example Parameters Global Settings Epoch 1 Experiment Start immediate etings Trials 1 then acquire for 10 00 s Start Jimmedately v Vlew 10 000 Minimize excitation then acquire e Outside in 240 000 Hz 10 000 en
21. Fan Pressure MyoGraph PM11x Inlet Pressur Y E Es rite Uns 3 nt ate TH e Pressure MyoGraph PM11x Outlet Press Vessel Flow Solution Presets The Data Source group allow you to define the source of the data for each calculation parameter Source The first column lists the possible sources for each of the parameters The specific parameter name is listed above the source drop down list The first choice Task Output allows you to use any trace in any recording task in the current experiment the specific trace is selected in Experiment Settings For Inner Area Ai the other choice is Calculate from diameter for all other data sources the remain ing choices are a list of all compatible sensors in the current hardware tree Units Calibrated units for the selected source e g Temperature flow etc Disabled when the sensor provides this information Units Raw Scale factor to convert raw sensor values e g volts to calibrated units specified in the Units field Disa bled when sensor provides this information Units ORaw Calibrated units value to return raw sensor value is Disabled when sensor provides this information Chapter4 37 4 1 4 1 1 Unit Conversions Unit Conversions 1 0000 Mn SE Vessel Flow Solution Presets The Unit Conversions sub dialog accessed by pressing the Units button in the Task Settings dialog provides the ability to set the conver
22. It provided faster speeds as well as plug and play configuration and was originally designed for printers keyboards etc USB 2 0 Second generation of USB that provides support for higher speed devices such as hard drives and cam eras Q If you are purchasing or upgrading a computer you must make sure that the new computer has the type of ports needed by your devices DMT Vessel Acquisition Suite supports standard USB to Serial adapters that allow you to connect a serial device to a USB 1 1 or 2 0 port If your computer has extra slots but is missing a specific port type you MAY be able to purchase an interface card ie a PCI to USB 2 0 card 5 1 Danish Myo Techology Devices The Danish Myo Technology devices provide support for equipment manufactured by Danish Myo Technology A S 48 DMT VESSEL ACQUISITION SUITE 6 1 ACQUISITION USER MANUAL 5 1 1 DMT Pressure Myograph PM11X The DMT Pressure Myograph device provides support for pressure myograph systems from Danish Myo Technologies This device provides support for the temperature pressure force and optional pH functions of the system Device Name The DMT Pressure Myograph device appears as DMT PM in the Hardware Manager dialog s Hardware Tree section The name can be changed in the Specification Dialog Requirements The DMT Pressure Myograph device requires an available serial port in the hardware tree 5 1 1 1 Device Connections Required connections T
23. Tool Bar While running The Experiment Status tool bar is available in the Experiment Tool Bars area for every experiment It appears at the bottom of the screen once the current experiment is not blank that is has at least one task and epoch The Experiment Status tool bar IS used to provide quick access to the common experiment control functions The three main areas of the tool bar provide the following functions Experiment group Start or stop the current experiment and display remaining time in experiment Epoch group Pause or resume an epoch jump to epoch number n and display time remaining in current epoch Mark group Add mark at current time Mark description will contain the phrase entered in Mark Text dialog 3 7 2 Manual Control Tool Bar Manual Control Toolbar with two manual controls The Manual Control tool bar appears whenever one or more acquisition tasks in the current experiment provide manual control functions For details on the operation of a specific manual control please refer to the Manual Control section of the appropriate acquisition task or acquisition device 22 DMT VESSEL ACQUISITION SUITE 6 1 ACQUISITION USER MANUAL 3 8 Running Experiment Once you have defined the current experiment parameters in the Parameters dialog you can perform the following functions Start Stop The primary operation that you will want to perform is to start and stop your experiment To start an experiment either p
24. Video Options kan Offset If supported by the camera selected in the Task Setting dialog the Video tions group will be displayed to allow you to change the image brightness gain and black level offset Gain Increase brightness of the camera image Offset Change the black level of the camera image Default Video options Gain and Offset are analog functions done before the video image is digitized Setting Gain and Offset correctly will result in better images 4 1 4 Vessel Flow Characteristics Recording Task The Vessel Flow Characteristics Recording Task provides the ability to display one or more of the following vessel centric traces e Mean Pressure e Vascular Resistance e Shear Stress e Reynolds Number The Vessel Flow Characteristics Recording Task uses information entered in the following places e Task settings Settings that apply to all experiments using this task entered in the Task Manager dialog e Experiment settings Settings for this task that apply to all epochs in an experiment entered in the Parameters dialog e Epoch settings Settings for this task for a specific epoch in an experiment entered in the Parameters dialog Task Options The vessel flow characteristics recording task experiment settings allow you to select which raw traces are collected and configure which optional calculated traces will be shown Chapter4 33 Task Output The vessel flow characteristics recording
25. all saved user limits and templates will be reset Chapter 4 29 4 1 3 2 Experiment Settings Selecting the first column of a cell length recording task row in the Parameters dialog will display the experiment settings group in the edit area The following fields can be edited Zones Raw Data Optional Sampling Units Select the number of separate vessel measurements to collect 1 4 Select what raw data traces you would like to collect inside diameter collect left and right inside position outside diameter collect left and right outside posi tion outside inside dia collects both If you select outside inside dia in the Raw Data op tion you can also select which additional calculated traces will be available Left right thickness calculates thickness of left and right walls Average thickness calculates average of left right thickness Cross Sectional Area calculates the area the vessel wall Media lumen ratio calculates ratio of the outer me dia and inner lumen ratio Chose how you want to enter sampling rates in the ep och settings dialog Frequency Enter as Hertz 4 1 3 3 Epoch Settings Vessel Options Zones 3 Haw Data outside inside dia Optional M Leftyright thickness v Average thickness W Cross Sectional Area Media lumen ratio Sampling Units Frequency Hz Vessel Dimension Recording Task experiment settings edit area Selecting
26. alue that will result in lowest output Maximum Output Value 3000 voltage Maximum Output Value Device or trace value that will result in highest output Trace Output Task voltage experiment settings Adding one or more Trace Output tasks will enable the DA Delay option in the Experiment Global Settings area of the Pa rameters dialog The trace output task uses the full voltage range of the data receiving device or if supported the input range set in the specification dialog The lowest voltage will be output for the minimum value or below the highest voltage will be output for the maximum value or above and the voltage will be linearly scaled between lowest and highest voltage if the value is between the minimum and maximum 4 2 1 3 Epoch Settings Ing Sarc Analog Output Rates No editable parameters for Trace Output Task There are no editable parameters for the Trace Out Task 422 Signal Generator Task Trace output task epoch settings The Signal Generator Task provides the ability to output separate voltages for each epoch in an experiment and to optionally provide manual control using the Manual Control Tool Bar The signal generator task is configured in three separate places e Task settings Settings that apply to all experiments using this task Entered in the Task Manager dialog e Experiment settings Settings that apply to all tasks and epochs in an experiment Entered in the Experiment Global Setti
27. asks are called task connections When you edit the settings of a given task such as the Task Settings dialog of the Trace Recording Task you will pick what you are recording by selecting a sensor from the list of all available analog trace task connections in the hardware tree In addition to providing a representation of the physical device interconnections each device may have a specification and or test function that can be accessed in the Hardware Manager dialog The specification function provides the ability to indicate to DMT Vessel Acquisition Suite how the physical device is configured If the device has options that can be controlled via computer the specification function may also allow them to be set The test function provides the ability to operate the physical devices from the Hardware Manager dialog This is normally used to test that the device is able to control and or read from the physical device Refer to specific device documentation for specific details on functions and connections provided by each device External Ports Some devices attach to standard computer external ports The device documentation will refer to the following external port types Serial Ports Legacy 9 pin serial ports for slow speed communications with simple cables Parallel Ports Legacy 25 pin parallel ports for faster communications USB The original USB port usually called USB 1 0 or USB 1 1 was created to replace legacy ports
28. be difficult to remove devices from this tree Once their device is added to the tree certain physical devices such as the camera will need to be powered and connected for the software to start MM Hardware Manager 24 0 Delete 37 DSUB gt FSICO 12 9 25 Pin DSUB USTEP 0 UA PMT 1 gt on CFA E 2 gt Empty AD 1 Temperature Sensor AD 2 gt Empty AD 3 gt Empty AD 4 gt Empty DA 1 Chart Recorder DA 2 Empty BALD Empty Mark In Pacer Gate Out Start In Empty Start Qut Empty MV510 0 RCA MOCO Empty AUK gt Empty Aemics YIS0U USB Camera Nikon Microscope Light Source Hardware manager 8 DMT VESSEL ACQUISITION SUITE 6 1 ACQUISITION USER MANUAL Selecting Hardware from Collect menu will display the Hardware Manager dialog which provides two main functions 1 Manages the Hardware Tree using the Add Root and Attach lt lt buttons 2 Selects the primary system timer via the Configure Timers button in the Timers section Managing the Hardware Tree The hardware tree shows how devices are connected in a hierarchal tree At the left edge are the root devices which interface directly with normal Windows device drivers Below each device is a list of connection points that it provides When you highlight a connection point you will see a list of supported devices that can be attached in the Free Devices section When you attach
29. c flow meter 5 1 2 4 Test Dialog DMT Flow Meter 161FM Test DMT Flow Meter Test Dialog 54 DMT VESSEL ACQUISITION SUITE 6 1 ACQUISITION USER MANUAL The DMT FlowMeter Test dialog provides real time display and of data from the attached flow meter device Device Information Display information about the attached device Frequency Hz Select the sampling frequency to use when the Start button is pressed This control is disabled unless update is stopped Start Pressing the Start button starts real time update of the Flow ul min value Once started the Start but ton changes to Stop Stop Pressing the Stop button stops real time update of the Flow ul min value Once stopped the Stop but ton changes to Start 5 1 2 5 Global Sensor Settings Global Sensor Settings When the current experiment includes one or more tasks that use the DMT FlowMeter device a Flow Meter Control group will be added to the Global Sensor Settings area of the Parameters dialog This control allows you to set the base acquisition rate that will be used when reading flow data from the device 5 2 Lxetor Software Timer The Lxetor Software Timer is part of the Hardware manager and implemented using resources that are builtin to the computer It is a Timer of last resort and should not generally be used 5 2 1 Timer Settings Timer Configuration Lwetor Software time Lextor Timer Dialog If you select the Lxetor Sof
30. cy Sampling frequency if Frequency selected in the ex periment settings column Period Sampling period if Period selected in the experi ment settings column not pictured Average At a given frequency period there will be a maximum number of points displayed as the of n that can be collected Select the number of samples to average into a single raw data point Only editable on the master data source If the data source is a task output Frequency Sampling frequency if Frequency selected in the ex periment settings column Period Sampling period if Period selected in the experi ment settings column not pictured Only editable on the master data source Vessel dimension recording task gobal settings edit area The minimum and maximum values for frequency or period are determined by the hardware capabilities and settings Frequency and period values entered are rounded to the nearest multiple of the pacer frequency and displayed above the input box When focus is moved away from the control this value is moved into the input control 40 DMT VESSEL ACQUISITION SUITE 6 1 ACQUISITION USER MANUAL 4 2 Output Control Tasks Output Tasks are tasks that output data to one or more devices Output tasks can output Trace data Any trace data that can be displayed in an DMT Vessel Acquisition Suite trace viewer can also be out put to any analog output device An example usage
31. e Recording Task epoch settings edit area Average At a given frequency period there will be a maximum number of points displayed as the of n that can be collected Select the number of samples to average into a single raw data point The minimum and maximum values for frequency or period are determined by the device capabilities and or the current pacing frequency Frequency and period values are rounded to the nearest multiple of the pacing frequency when focus is moved away from the control This effect is especially noticeable when the entered frequency approaches the maximum 4 1 2 Event Recording Task An event recording task records the times a specific event is detected during acquisition as DMT Vessel Acquisition Suite event marks You select the type of event to record in the Event Recording Task dialog Depending on the option selected you may enter addition parameters that define the event in the experiment settings edit area of the Parameters dialog An event recording task uses data entered in two separate places e Task settings Settings that apply to all experiments using this task Entered in the Task Manager dialog e Experiment settings Settings for this task that apply to all epochs in an experiment Entered in the Parameters dialog Task Output An event recording task produces a single mark for each event that is detected The mark text is automatically set to the name of the task entered in the Event R
32. e kl Aa es wee ke a ea a n ac e a e ce n a yee ep e a ee a ka m a ma 3 Chapter 1 What is Acquisition n n t vin it v t ia ii ki ki a on a ak ai a at lk e ti a m e n ZO n n a an kan a ik A SR GER ak a a a Da 5 Chapter 2 Manual Convention ou mo a l ko EU n av a a a kl EA oo EE UR EX a EVE e e DU E a DI MENSEM Dj RENNES 6 Chapter 3 Acquisition Tools ou oo l ik a a ak ki kn e E a n ka no n a S po A 7 Se AAWON DI PRECES 8 SE NE NI A LO FD IA Or ns a e e mte pa tk ea ERE t l e 11 3 eTersdi E co MEE T e E a a ta an al EE Pap pla we da 12 SA A ANE eine e a ai la a ie e erie rt cine a l cso hein a e a ind e EFE ik si kip EN A ik e na de 18 NM IONMONS DI A NO ke era ki pt n ei ra ket fett e l n a la n n e e ee a ee kay a a eee 20 voa ir Mud DI MO L a it e kt ali man tl pestis n ja Su ik e ni eau kk n a e a a ea it a k Pe a an k t n elt er ik l a ka 21 BF JE DON NETTO OLB T pani ft entite oti NE e AE E E E E a e kai oi 21 so RUNMINE TNE EDE ANNE MI ia ik e tt a e n ta n a a a EE a kt kt KOU n abo ko pa an 23 Chapter 4 Acqguisition ES RETI jik e kil tk ab fi SKE n ka a a n n n n ak e n a kk kk 24 TASK beton ere ef yn ee ee ee a e ki ef nek pe e it ke 24 AOU DWE GON ife MS it TTE ETT TT TT 41 NI GIVING ti TN TT 45 Chapter 5 Acqu
33. e tree by adding configuring and testing devices Opens the Task Manager dialog which creates and manages the list of tasks that are available for use in experiments Opens the Experiment Manager dialog which creates and deletes experiments and selects the current experiment Opens the Parameters dialog to edit parameters for the current experiment Opens the Trace Monitors dialog to add edit trace monitors for the current experiment Opens the Mark Text dialog to edit predefined mark text available to any experiment I TonWizard untitled File Collect Help Hardware Task Manager Experiments Parameters Trace Monitors Mark text ta 15 Collect Menu tools The middle section of the Collect menu allows the user to show or hide experiment tool bars available in the current experiment Experiment Status Manual Control Trace Monitors Vessel Measurement If checked display the Experiment Status Tool Bar If checked display the Manual Control Tool Bar Available depending on tasks and options selected in the current experiment parameters If checked display the Trace Monitors Tool Bar Available when one or more trace monitors have been added to the current experiment If checked display the Vessel Dimension Recording Task Tool Bar Available when there is a Vessel Dimension Recording task in the current experiment Mark texi w Experiment Status w Manual Cont
34. ecording Task dialog 4 1 2 1 Task Settings Clicking the Edit button in the Task Manager when an Event Recording Task is highlighted will display the task settings dialog It has the following fields 26 DMT VESSEL ACQUISITION SUITE 6 1 ACQUISITION USER MANUAL Source Source Full Description Abbreviation Notes Name this task Select type of source Digital Source An event is recorded for each positive pulse from the source selected in the Source drop down list Trace Source An event is recorded each time the val ue read from the source selected in the Source drop down list matches threshold range values entered in the experiment settings group of the Parameters dia log Task Trace In this case both the source and the threshold range values are defined in the experiment settings group of the Parameters dialog An event is recorded each time value in the task trace matches the threshold range values Select the desired digital or trace source to use from a list of all that are available in the Hardware Manager Describe the event that is being recorded Provide short hand notation for Full Description Enter any notes to yourself about this recording task Event Recording Task MyoPacer Gate Digtal Source Pacer Gate Out Digital Source Stimulation faim Event Recording Task settings dialog The Source drop down list is not used for the
35. em will set a default name as you change the Source or Source Type Once you change the name from its default value it will no longer be changed when you change Source Selects between monitoring the output of a trace sensor in the Hardware Tree or the output of a a task in the current experiment List all available sources for the current Source Type Name will be changed based on the source unless you have edited the name since the last time you changed the Source Type 20 DMT VESSEL ACQUISITION SUITE 6 1 ACQUISITION USER MANUAL 3 5 1 Trace Monitors Tool Bar Bath Temperature 2 052 Cross Sectional 1019 356 Average Wall Thickness 1 700 2 052 Min 233 182 Min 2 052 Max 3926 240 Max 0 374 NE Min Heset Trace Monitors Dialog The Trace Monitors tool bar appears whenever one or more trace monitors have been added in the Trace Monitors Dialog You may hide and show the Trace Monitors tool bar by checking and unchecking the Trace Monitors choice in the middle section of the Collect Menu 3 6 Mark Text Dialog The Mark Text dialog allows you to enter text for the mark shortcut keys that are entered using the Mark group of the Experiment Status tool bar or by pressing the corresponding function key The mark will be added when you click the but ton or press the function key and will have a description that was entered for the key in the Mark Text dialog To access the Mark Text dialog select Marks from the Co
36. etes the current task after confirmation Cancel Undoes ALL changes and closes dialog Clicking the X in the upperright corner is the same as Cancel OK Saves ALL changes and closes dialog Each installed copy of DMT Vessel Acquisition Suite manages its own list of tasks Creating a New Task When you click the Add button a list of all available task types that are in stalled on your system will be displayed When you select a task type you will be shown the corresponding Task dialog The exact information that will need to be entered in the Task dialog depends on the task type selected refer to recording source bypes the specific task documentation for details Analog input Analog Output While the exact task parameters list by task type every task has Ext Hardware Ctri field The name is displayed in the Task Manager dialog and is used when se Event Recording Source SoftEdge Length Measurement Dual Emission Trace Dual Excitation Trace Single WaveLength Trace Sarcomere Length lecting a task for use in an experiment If you define multiple tasks of the same task type you should attempt to name each task differently so you know which task is which Details for the parameters are located in the Task Settings section of Cancel each task type of the Acquisition Tasks section Some task types are doc umented separately OK Add Recording Source List Edit
37. ey occur and do not have any settings in an experiment epoch Events are displayed as marks along the time axis 24 DMT VESSEL ACQUISITION SUITE 6 1 ACQUISITION USER MANUAL 4 1 1 Trace Recording Task A trace recording task records raw data values from the device selected in the Trace Recording Task dialog using the rate and averaging parameters defined in the current epoch settings simple multiply offset scaling calculation entered in the Trace Recording Task dialog is used to allow the raw data to be con verted to the real world units of the connected device ie temperature pressure etc A trace recording task uses data entered in three separate places e Task settings Settings that apply to all experiments using this task Entered in the Task Manager dialog e Experiment settings Settings for this task that apply to all epochs in an experiment Entered in the Parameters dialog e Epoch settings Settings for this task for a specific epoch in an experiment Entered in the Parameters dialog Task Output The trace recording task produces the following output in DMT Vessel Acquisition Suite where is the description entered in the Cell length recording task dialog Name Raw trace Displays the actual data collected from the selected device in the appropriate units usually volts Name Scaled trace Displays data that has been scaled using the multiplier and offset values entered in Trace Record
38. he DMT Pressure Myograph device must be connected to a Serial Port device in the Hardware Tree Provided Connections The DMT Pressure Myograph device does not provide any connections for other devices 5 1 1 2 Task Connections DMT Myograph controller pi ya l m DMT Pressure Myograph Hardware Tree Prolific USB to Serial Comm Port COME Serial Connection DMT Delete DMT Pressure Myograph Connections The DMT Pressure Myograph device provides both sensors and inputs that can be selected in acquisition tasks In the following list Name is the description entered in the Specification dialog Device Sensors The following sensors can be selected in any acquisition task that monitors or records analog values Name temperature Current temperature C Name inlet pressure Current inlet pressure mm Hg Name outlet pres Current outlet pressure mm Hg sure Name Current force mN Name pH Current pH if Has pH probe connection is selected in the Specification dialog Name target tempera Target temperature C ture Name target inlet Target inlet pressure C pressure Name target outlet Target outlet pressure C pressure Chapter 5 49 Device Inputs The following inputs can be selected in acquisition tasks that output analog values Name temperature Set target temperature C Name
39. hted will display the task settings dialog It has the following fields Name Name this task Trace Data Source Select the source for the data to be output General Available choices are Mame Analog Output Trace Output A single choice that allows you to choose Trace Data Source any trace in the current experiment The specific trace on CFA PMT 400 300 is selected is selected in Experiment Settings column of the Parameters Dialog Data Receiving Device Analog sensors All analog sensors in the hardware Chart Recorder Analog Sink tree are individually listed Data Receiving Device List of all devices in the Hardware Tree that can re ceive and then output analog data Notes Enter any notes to yourself about this recording task Trace Output Task dialog Chapter 4 41 4 2 1 2 Experiment Settings Selecting the first column of a trace output task row in the Parameters dialog will display the experiment settings group in the edit area The following values can be edited Trace Rec Task If Output was selected as the Trace Data Sarc Analog Output Options Source in the Task Settings dialog this drop down list will show all combinations of trace channel zones Trace Rec Task M from all available tasks in the experiment If a hard Sarc Length Sarc Length Y ware source was selected this box will be grayed out Minumum Output Value 1000 Minimum Output Value Device or trace v
40. ick Start from the Collect menu or click the Start button in the Experiment Status tool bar Once an experiment has started it will run all the epochs defined in the Parameters dialog unless it 15 stopped paused To stop an experiment either pick Stop from Collect menu or click on the Stop button in the Experiment Status tool bar Resume Once an experiment has been stopped it can NOT be restarted only Skip Trig Gen saved Collect menu Start 8 Stop Pause Resume While an experiment is running you can pause the experiment by either picking Pause from the Collect menu or clicking on the Pause button in the Experiment Status tool bar Once an experiment is paused you can resume the experiment by picking Resume from the Collect menu or clicking on the Resume button in the Experi ment Status tool bar Pause Resume Changing epochs will also resume data collection Collect menu Pause amp Resume Changing Epochs Normally an experiment will run epochs from left to right You may restart any epoch by selecting it from the Epoch group in the Experiment Status tool bar Experiment Status Tool bar Epoch group Adding Marks To enter a mark along with its accompanying text see the Mark Text dialog you either click on the corresponding button in the Mark group in the Experiment Status tool bar or press the indicated function key Mark F2 F3 F4 5 5 F7 rero Experiment Status
41. ing an Existing Task When you highlight an existing task and click the Edit button the appropriate Task dialog will be displayed When you edit the parameters of an existing task you will affect any new data collected using an experiment with this task Previously saved experi ments are NOT affected by changes to a task Chapter 3 11 Q If you change the name of an existing task all saved user limits and templates will be reset Details for the parameters are located in the Task Settings section of each task type of the Acquisition Tasks section Some task types are documented separately Deleting a Task To remove a task from the system highlight the desired task then click the Delete button Note you can only remove a task if it is not used in any experiment 3 3 Experiment Manager Dialog The Experiment Manager is used to create a system wide list of experiments and to select the current experiment The current experiment can be edited in the Parameters dialog and run with the Start function in the Collect menu The main area of the Experiment Manager dialog shows a list of all experiments currently defined in the system The blue back ground bar shows the highlighted experiment while the checked experiment is the current experiment that will be edited in the Parameters dialog or run with Start Select Marks the currently highlighted experiment as current moves the check box to the highlighted line Experiment Manager
42. ings fexperimentinfo ES Preparation Info eg Cell Name pa ooo Other Storage Location Video T ape Additional Into Experiment Info Dialog AERE e m DA Delay mS 20 417 m lt 3 Analog Output Delay Editor 20 417 lt 500mS S M Cancel Help DA Delay editor The minimum DA Delay amount is determined by the delay characteristics of the sensors selected in all trace output tasks in the current experiment For instance with a video camera the minimum delay is the a combination of the integration time AND the frame grabber acquisition time Chapter 3 17 3 4 2 Epoch Settings Start immediately m then acquire For exactly Epoch Settings fixed duration r Multi display Epoch 1 Settings Start Jimmediately vi a then acquire unti Digital Source MyoPacer gate out fires not exceeding vi 10 000 Secs 10 000 secs Y www Epoch Settings until event duration The Epoch Settings group appears as the top group in the Edit Area of the Parameters dialog when an Epoch Settings column or any cell within it is selected The controls in this group let you select options that control how the selected epoch is started and when it ends Start Immediately After a key press After a hardware event Then Acquire Delay For Duration For exactly Until Not exceeding Determines when data collection starts after
43. inlet pressure Set target inlet pressure C Name outlet pres Set target outlet pressure C sure 5 1 1 3 Specification Dialog Dmt Pmi ix Specification The DMT 11 Specification dialog provides the mechanism to set basic information about the connected device Description Enter friendly name used to identify this specific pressure myograph Baudrate Select baudrate used to communicate with pressure myograph Has pH Probe Connec Enable display of readings from attached pH probe tion DMT Pressure Myograph Specification Dialog 5 1 1 4 Test Dialog DMT Pressure Myograph 11x Test Pressure Myograph Test Dialog 50 DMT VESSEL ACQUISITION SUITE 6 1 ACQUISITION USER MANUAL The DMT 11 Test dialog provides real time display and control of the attached pressure myograph device Device Information Display information about the attached device Temperature deg C Display current temperature and set temperature control options Current actual temperature Target the current target temperature New Enter new target temperature between displayed range then press Set button to send to device Control Temperature Check to enable heater control Pressure mmHg Display current inlet and output pressure and set target pressure options Current actual pressure Target the current target pressure New Enter new target pressure with indicated range then press the Set button to make send
44. isition DOVIGCC See k iii tk po man ie n lo ka NOU a n e e a an n on NE REM a a e SKK VEN CU HE to ues siecaasninscuneoccsiwussinenavananveneebsrecerenaneea 48 5 1 Danish Myo T al1610E Y c IL titak ks ia ea tr a pe e Ek kai 48 5 2 IL KOLON Sotware TIMET A ant an a aa a a ta ti ak a a a a a tak AD a ot a 55 Chapter 6 Acquisition program data 1 56 pil ott etcetera ecco M ka v 57 4 VESSEL ACQUISITION SUITE 6 1 ACQUISITION USER MANUAL Chapter 1 What is Acquisition The DMT Vessel Acquisition Suite acquisition module provides support for data collection in DMT Vessel Acquisition Suite There are four separate but related functions that are handled by the acquisition module 1 One time configuration of the physical devices attached to the computer their attachment to each other and the options that are installed Some examples of physical devices are computer interface cards excitation light sources system inter faces and PMT tubes 2 Definition of tasks that can be performed Tasks fall into two groups recording tasks such as dual excitation flu
45. ith one to four zone controls The exact number of zones that are available is set in the task Experiment Settings Each zone consists of a cyan box that indicates the area of the image that is being used to calculate the ves sel dimensions In addition to the zone border there are the following addition elements Zone controls Zone control elements Sizing corners For the current zone only there are small boxes drawn on each corner of the zone border These indicate that the zone can be resized by grabbing those boxes or the actual border lines of the zone When you move the cursor over a sizing element the cursor will change into a twoheaded arrow Zone number The zone number is displayed in a solid cyan box in anchored to the upper left corner of the control If the height of the zone is small the box may extend below the border of the zone so that the entire number can be read Detected wall positions The current inner and outer wall positions are indicated by red and green vertical lines that move within the zone rectangle The green lines show the position of the outer walls and the red lines show the inner walls You can select whether the inner outer or both inner and outer positions are calculate in the task Experiment Settings When plot is selected in the Display Options group a oscilloscope like plot of the all wall positions in the current zone This function allows the user to pre view trace data and ensure that i
46. ition of how one or more devices are used to acquire or output data or to control another device Task Type General categorization which defines the overall function of a task The task type is selected when a new task is created and it determines the values you must enter to create the task DMT Vessel Acquisition Suite Supports general purpose acquisition task types such as Trace Recording as well as special pur pose task types such as Dual Excitation Epoch A specified duration of time during which a specified set of task parameters will be used to run a task Experiment A list of one or more tasks and one or more epochs plus general options that define how an experiment is run Chapter 1 5 Chapter 2 Manual Convention A note icon indicates an important point that you should know Q An idea icon shows some ideas on how you can use a device or function gt Q A stop icon indicates a potential for personal injury equipment damage or data loss 6 DMT VESSEL ACQUISITION SUITE 6 1 ACQUISITION USER MANUAL Chapter 3 Acquisition Tools All DMT Vessel Acquisition Suite acquisition functions are accessed from the Collect menu which is divided into three sections The top section of the Collect menu provides access to the acquisition configuration tools Hardware Tasks Manager Experiments Parameters Trace Monitors Mark Text Opens the Hardware Manager dialog which creates and manages the hardwar
47. izingthe image that is being analyzed to set dynamic detection options and to visually verify the detection results It has the following main areas 1 Display options Determines what is displayed in main area 3 of the Vessel Dimension Recording Task tool bar 2 Zone control Select current zone or set specific height of current zone 3 Video plot area Display live video with zone controls or a live plot of current zone 4 Zone graphs thresholds Displays graphs of video data in each zone and control for inside and or outside thresholds 5 Video options Adjust parameters for current camera device selected in task settings if any Display Options Video Display live images and zone position controls in the video plot area 3 Plot Display the position of all edges for the current zone in the video plot area 3 Zones Options Current Use the plus and minus buttons to move between zones if there are more than one Height Select a specific height for the current zone Display Video Zones Plot Display options Current 1 of 3 EA Height w Zones lines in a zone are averaged to create the intensity trace used to scan for the wall locations More lines will lessen the effect of artifacts such as blood anad fat within the zone Chapter 4 31 Video Plot Area When video is selected in the Display Options group a live video image will be displayed w
48. k dialog You can select Rising Falling or both for each threshold 4 1 3 Vessel Dimension Recording Task The vessel dimension recording task analyzes video images to find the the characteristics of a vessel wall at up to four separate locations in the video image The task collects raw pixel position of the left and right inner and or outer wall positions In addition to the raw data display the task provides the ability to view the data in calibrated units using a user supplied scaling factor and to perform addition calculations such as wall thickness cross sectional area and media lumen ratio The vessel dimension recording task uses information entered in the following places e Task settings Settings that apply to all experiments using this task entered in the Task Manager dialog e Experiment settings Settings for this task that apply to all epochs in an experiment entered in the Parameters dialog e Epoch settings Settings for this task for a specific epoch in an experiment entered in the Parameters dialog e Global Sensor Settings Area Experiment configuration of camera parameters for some cameras see documentation for selected camera for details entered in the Parameters dialog e Tool bar Real time display of images and control of cell length detection settings such as video line to analyze and the detection threshold entered in the tool bar Task Options The vessel dimension recording task experiment settings al
49. lete button You will be asked to confirm that you want to delete the device The Hardware Manager will NOT let you save your changes if you delete a device that is used in ANY task The delete will work but when you click OK you will get an error message Your only option will be to pick Cancel which will discard the deletes then delete the task s and try again Specifying Device Options Some devices have options that must be configured for the specific device To specify the options highlight the corresponding device in the Hardware Tree and then click the Specify button If the highlighted device does not have any options the Specify button will be disabled The Specification dialog will also pop up automatically when adding a new device For details on the specify options for a specific device refer to the Specification Dialog section for that device in the Acquisition Devices section Testing Devices Some devices provide a test dialog that allows you to interact with the physical hardware directly from the Hardware Manager To test the physical hardware highlight the corresponding device in the Hardware Tree and then click the Test button If the highlighted device does not have a test function the Test button will be disabled For details on the test function for a specific device please refer to the Test Dialog section for that device in the Acquisi tion Devices section Chapter3 9 Configure System
50. ling value all added calibration points and the new scaling value is displayed here These values are continuously updated to reflect the current video image and position of the calibration markers 3 Video Options Provides control of input gain and Calibration Data offset If supported by the current sensor MA CLIC LO Ce Origina ane lt NOTE you may resize the Video Display dialog by p cpu clicking and dragging the edge and corner of the dialog box EE e Add Point Restat Video Display Area Post delay 3213581520 Frame rate 60 883 When you first open the Video Calibration dialog you will see live video displayed from the sensor currently selected in the recording task that you were editing when you pressed Collect to start the dialog Video Calibration Initial Video Display area When you add a new calibration point a calibration ruler control will be displayed Post delay 3550800526 Frame rate 58 092 in the Video Display area You use this control to indicate the position of an object that is the physical distance specified when you added the point Video Calibration Video Display area with 3 points Chapter 4 45 Calibration Data The Calibration Data area of the Video Display dialog displays all of the information used to calculate the new scaling value The first row shows you the original value for the scaling factor and is not used in the new calcula
51. llect menu Mark F2 Fal Fa ES Fe F7 rol FOI Experiment Status tool bar mark group 3 7 Experiment Tool Bars Display Left Options Video Derivative C Plot Smoothness Raw data 2 2 Calculated Edge option normal vi above vi Help Pause 277 Ep Poe eS Go Co Mark Text x Key F2 m F3 F4 F5 F6 Fr F8 F 9 Cell Length amp Experiment Status Tool bars Mark Text Dialog Right Options n Video Options Derivative Gain Offset Smoothness 100 100 2 Edge option 0 0 above 6 7 Default The Experiment Tool Bar area at the bottom of the main DMT Vessel Acquisition Suite window displays one or more tool bars based on the tasks that are part of the current experiment Every experiment will have an Experiment Status tool bar and certain tasks such as Edge Detection will have additional tool bars as shown in the figure above Chapter 3 21 Tool bars can be hidden by un checking them in the second group of controls in the Collect menu show at right When a tool bar is checked it will be displayed at the bottom of the screen Otherwise it will be hidden Collect menu Tool bars All available tool bars are automatically displayed when you exit the Parameters dialog or change experiments in the Ex periment Manager dialog 3 7 1 Experiment Status Tool Bar Experiment Status
52. llowing values Inlet Pressure Rates Level 1 0000 Volts 3 Level Voltage level that is output to the Data Receiving De vice during this epoch 5 0000 Signal Generator Epoch Settings Values set by epoch may be by the Manual Controls if they have been enabled the Experiment Settings Chapter 4 43 4 2 2 4 Manual Control Inlet Pressure Manual Control Level 1 0000 Valts 5 0000 lt 1 0000 5 0000 Enable button Activate button Lock button 21 Signal Generator Manual Control The Signal Generator task has a manual control group that appears in the Manual Control Tool Bar displayed in the Experiment Tool Bar area at the bottom of the DMT Vessel Acquisition Suite window It allows you to see and override the setting set by acquisition tasks The following controls in the top right section of the tool bar allows can to enter new set values send them to the hardware and control how the long the stay activated Level Enter new value for the output voltage within the specified range that will be set when Activate button is clicked Enable button When pressed enables editing and activating of new set values When released acquisition task s control of the device if any will be enabled Lock button When pressed previously activated values will remain in effect as long as manual override is enabled When released as shown acquisition task s control of the
53. low you to select which raw traces are collected and configure which optional calculated traces will be shown Task Output The vessel dimension recording task produces the following output in DMT Vessel Acquisition Suite where Name is the descrip tion entered in the Vessel Dimension Recording Task dialog Name Pixels traces Raw data traces collected from the selected camera device Inside Left inside left edge pixel position Inside Right inside right edge pixel position Outside Left outside left edge pixel position Outside Right outside right edge pixel position 28 DMT VESSEL ACQUISITION SUITE 6 1 ACQUISITION USER MANUAL Name Calc traces Traces Calculated from raw data above Inside Left inside left edge position in scaled units Inside Right inside right edge position in scaled units Outside Left outside left edge position in scaled units Outside Right outside right edge position in scaled units Lumen Diameter inside diameter in scaled units Vessel Diameter outside diameter in scaled units Left Wall Thickness left wall thickness in scaled units Right Wall Thickness right wall thickness in scaled units Average Wall Thickness average wall thickness in scaled units Cross Sectitonal Area T B D Media Lumen Ratio T B D Actual traces that you will see depend on options selected in the experiment settings See DMT Vessel Acquisition Suite documentation for details on viewi
54. lp Pulls up this help dialog 16 DMT VESSEL ACQUISITION SUITE 6 1 ACQUISITION USER MANUAL 3 4 1 Experiment Global Settings The Experiment Global Settings group appears as the top group in the Edit Area of the Parameters dialog when the Experiment Settings column or a cell within it is selected The controls in this group let you select options that affect the entire experiment View The View window shows the number of seconas dis played in the DMT Vessel Acquisition Suite trace viewer when the experiment is started Info The Info button pulls up the Experiment Info dialog see below DA Delay If one or more trace output tasks are part of the current experiment the Experiment Global Settings area will in clude a display of the current DA delay followed by a button that will display the DA Delay dialog see below Experiment Info The Experiment Info dialog allows you to enter general information about the experiment The information is intended to be used to help you document the conditions of the experiment for easy review at a later time DA Delay Editor When you click on the button after DA Delay in the Experiment Global set tings area you will open the DA Delay Editor dialog This dialog allows you to set the delay between when data started acquiring and when the value will be output to the analog output Edit Area Experiment Settings View fi 0 000 Info Experiment Global Sett
55. lt All Inputs iunit traces interpolated to the same times as the master hidden by default All Inputs iunit zones traces interpolated to the same times as the master hidden by default Results of calculations for all traces without zones selected in the Experiment Settings Traces To Collect group in intermediate units Flow Velocity flow rate divided by lumen area Wall Shear Stress calculation of frictional drag exerted on arterial walls during flow Vascular Resistance calculation of force opposing the movement of solution through a vessel Reynolds Number calculation that describes whether the flow is either turbulent or laminar Mean Pressure average inlet and outlet pressure Pressure Differential difference between inlet and outlet pressure hidden by default Results of calculations for all traces with zones selected in the Experiment Settings Traces To Collect group in intermediate units Wall Shear Stress calculation of frictional drag exerted on arterial walls during flow Vascular Resistance calculation of force opposing the movement of solution through a vessel Reynolds Number calculation that describes whether the flow is either turbulent or laminar Reynolds Number Name Output iunit traces converted to output units specified in the Task Settings Unit Conversions sub dialog All Name Output iunit zones traces converted to output units specified in the Task Settings Unit C
56. ng emission brightness Single excitation dual excitation and dual emission are supported Cell Length Detects left and right edge of cell image from video camera and calculates resulting cell length Sarcomere Spacing Calculates average inter sarcomere spacing from an area of a camera image Vessel Dimension Detects vessel wall characteristics from up to four areas of a camera image Vessel Flow Character Multiple high level vessel specific calculations derived from other vessel measurements istics These tasks are extra cost options and may not be present on your system Output Control Task Types Here is a list of common output control task types Additional output control task types may be documented separately Trace Output Outputs an analog signal reflecting data recorded by one device to another device Signal Generator Provides the ability output specific values for each epoch and to optionally provide manual control 4 1 Recording Tasks Recording tasks are tasks that record data from one or more devices They may also control additional devices needed for the production of the data Recording tasks will produce one or both of the following types of data Trace Data A list of values sampled over time at a fixed rate The exact rate as well as any averaging is defined in each experiment epoch Trace data is displayed as Value vs time graphs Event Data A table of times that an event was detected Events are recorded whenever th
57. ng on the button in the Epoch Settings group of the Parameters dialog Trigger Type Raw Digital Sensor Raw Trace Sensor Trigger Source Trigger Properties Trigger Type Upper Threshhold amp Lower Threshold Rising Falling Selects the trigger type that you are defining Trigger occurs when a digital event coming from the Trigger Source is detected Our System Interfaces define a digital event as the rising edge of a TTL pulse Trigger occurs when the value of the raw trace selected in Trigger Source matches the level s set in the Trigger Properties group Selects the device producing the digital event or raw trace that is used in the trigger DMT Vessel Acqui sition Suite will scan through the hardware tree and will list all possible hardware triggers in the drop down list If appropriate for the trigger type displays options to determine how trace sensor generates triggers Level will test the signal against a single value and Range will test the signal against two values Enter the test value in the raw units for the device selected in Trigger Source When the input value crosses this value a trigger will be generated if the corresponding rising falling option is selected see next Select to generate a trigger when input value goes from below to above the level entered above Select to generate a trigger when input value goes from above to below the level entered above Chapter 3 19 3 5 T
58. ng traces 4 1 3 1 Task Settings Clicking the Edit button in the Task Manager when a Cell Length Recording Task is highlighted will display the task settings dialog It has the following fields Name Camera Full Description Abbreviation Units Units Pixel Collect Notes Name for this specific instance of the task Also used as part of the string in the first yellow box type in the Trace Viewer for data acquired using this task Select the source device for the transmitted light im ages to be analyzed Describe the parameter being recorded eg Length Used as the vertical axis label for data displayed in scaled units Provide short hand notation for Full Description for ex ported table headings Provide name of units for scaled length traces Provide Scale factor used to convert from pixels to units Run the Video Calibration dialog to automatically cal culate the Units Pixels from live video Enter any notes to yourself about this recording task Vessel Measurement Task Xx MYOCO lenOptis MyoCam Full Description Abbreviation width width Calibration Units Piwel Units um fi 0000 Collect Vessel dimension recording task settings dialog Depending on the camera type selected additional camera options for this task may be selected in the Global Sensor Settings Area of the Parameters Dialog Q If you change the name of an existing task
59. ngs section of the Parameters dialog e Epoch settings Settings for this task that apply to all epochs in an experiment Entered in the Parameters dialog 42 DMT VESSEL ACQUISITION SUITE 6 1 ACQUISITION USER MANUAL 4 2 2 1 Task Settings Clicking the Edit button in the Task Manager when a Signal Generator Task is highlighted will display the task settings dialog It has the following fields Name Name for this specific instance of the task Also used as the title for the Manual Control Tool Bar Signal Generator Task gt enerator las Data Receiving Device Select the device that will receive the output from the signal generator Data Receiving Device Notes Enter any notes to yourself about this recording task Inlet Pressure Analog Sink Signal Generator Parameters 4 2 2 2 Experiment Settings Selecting the first column of a Signal Generator Task row in the Parameters dialog will display the experiment settings group in the edit area The following values can be edited Enable Manual Control If checked a Signal Generator Manual Control will be Inlet Pressure Options added to Manual Control Tool Bar v Enable Manual Control Signal Generator experiment settings 4 2 2 3 Epoch Settings Selecting any epoch column of a Signal Generator Task row in the Parameters dialog will display the epoch settings group in the edit area for the selected epoch The edit area will let you select the fo
60. nt settings for each task 4 Epoch Settings The remaining white columns show settings for one or more epochs The first unlabeled row displays the epoch parameters that are consistent for all tasks The following rows display epoch settings specific to each task 5 Edit Area The group to the far right displays editing controls to allow you to change details associated with the currently selected column in the spread sheet 6 Global Sensor Settings The group just below the white columns allows you to set the sensor option to use for this experi ment if required by the current tasks Chapter 13 7 Control functions The group at bottom left contains buttons used to add delete tasks rows add delete move epochs columns close the Parameters dialog cancel changes or display help The Parameters dialog can be resized by dragging the lower right corner or the borders If there are more rows and or columns than can be displayed scrollbars will appear to allow for scrolling through the main grid areas 3 and 4 while the row and column headings 1 and 2 remain to help you keep track of your position The Control Functions area 7 contains buttons that allow you to add and remove rows tasks and columns epochs while the Edit area 5 is used to edit values for the currently selected column see below The exact contents of the Parameters dialog will vary depending on the options purchased with your sy
61. ons that can be selected in the Experiment Settings to define the density and viscosity parameters required for the flow calculations Name drop down Add Delete Name edit Density Dyn Viscosity The name drop down allows you to select from the list of previously created solution presets When you se lect a new value the remaining fields in the Presets group are loaded with values that were previous en tered Makes a copy of the current solution which you can then edit using the remaining controls in the Presets group Deletes the current solution and selects the previous one for editing Disabled if there is only one preset de fined Edit the name of the current solution Changes made here automatically appear in the Name drop down field as well Enter the density for the named solution Enter the Dynamic Viscosity for the named solution Solution Presets Some Solution vi Add Delete 5 ome Solution Density rho 2 000 kg m3 un Viscosity eta 1 000 kadim si Vessel Flow Solution Presets The units for the solution values are set in the Intermediate Calculation Units group in the General group 36 DMT VESSEL ACQUISITION SUITE 6 1 ACQUISITION USER MANUAL Data Sources Units Units paw Fan Flow Meter DMT Fm161 Controller B rmt Fan Task Output 8 10 HI Task Output H Units Jnitsz Haw
62. onversions sub dialog Refer to Showing and Hiding Trace Bars in the DMT Vessel Acquisition Suite documentation for details on viewing hidden traces 34 DMT VESSEL ACQUISITION SUITE 6 1 ACQUISITION USER MANUAL Vessel Characteristics The vessel flow characteristics recording task produces the following traces in DMT Vessel Acquisition Suite where Name is the description entered in the 4 1 4 1 Task Settings U nits Jnitsz Haw Fay Flow Meter Fm161 Conde f ncs Units LI ANSYA ay ay Task Outpt Task Output Units Jnitsz Haw Fan Pressure MyoGraph PM11x Inlet Pressur 7 ANS Jnitsz Haw Haw Pressure MyoGraph PM 1x Outlet Press Vessel Flow recording task settings Clicking the Edit button in the Task Manager when a Vessel Flow Characteristics Recording Task is highlighted will display the task settings dialog There are three major sections in the task settings dialog that are detailed below In addition there is a Unit Conversions sub dialog accessed from the Units button Each Trace lists the formula used to calculate the value based on the symbols defined in parenthesis after the coorespond ing trace preset or data source name General I I I I Vessel Flow General Settings Chapter 4 35 The general section has the following fields Name Notes Intermediate Calcula tion Units Available Traces
63. orescence and video edge detection and output control tasks such as analog output 3 Creation of experiments including selection of tasks and entering of specific duration and rate epoch information 4 Execution of current experiment to produce data including real time control of some experiment parameters Acquisition Terms The following terms will be used to describe hardware and software that are used in the acquisition module Interface Card A card that plugs into a slot inside the computer Computer Port One of the standard ports that are usually built in to the computer such as serial parallel or USB ports Physical Device A generic term for a box that is connected to an interface card a built in computer port or an other physical device by at least one cable Device DMT Vessel Acquisition Suite s representation of an interface card or a physical device The acquisition module uses devices to perform three main functions Show how the interface cards and physical devices are connected to the computer and therefore DMT Vessel Acquisition Suite Specify the options that are installed in the specific physical device or the configuration options to use For example in a MuStep you specify the names of the filters that are installed Access test functions for the interface cards or physical devices Hardware Tree A hierarchical list of the devices that are used by the acquisition module Task Defin
64. our current hardware tree that are capable of being the system timer source Generally you should select the devices with the fastest Base Clock Rate as the system timer which is the default selected value In some cases notably the System Interfaces you must select a specific device in order for the device to function properly Please refer to the Requirements section of the specific device in the Acquisition Devices section for any device specific restrictions that may exist Once you select a timer the Base Clock Rate and Pacing Rate section of the dialog will change based on the characteristics of the selected device Root Device Selector E3 Available Devices Show All Devices Cancel Type of Device MCC 010 24 Cards VIBOU YFA Camera Generic KS Camera Misc Microscope Light Source MuTech MY510 Instance of Device ana Prot cupa P mm ap Add Root Device Dialog Select device Instance of Device Add Root Device Dialog Select instance Timer Configuration Timer FSIC1 X Base Clock Rate 10000000 Pacing Rate Countdown Value 200 lt fi 0000 lt 65535 Pacing Frequency 1000 000 Timer Configuration Dialog When you change between devices the dialog will try to adjust the countdown value so that the resulting Pacing Frequency is the same Be sure to check that the Pacing Frequency is correct after changing the timer
65. ow Meter in the Hardware Manager dialog s Hardware Tree section The name can be changed in the Specification Dialog Requirements The DMT Flow Meter device requires an available serial port port in the hardware tree 5 1 2 1 Device Connections Required connections The Flow Meter device must be connected to a Serial Connection port Provided Connections The DMT FlowMeter device does not provide any connections for other devices Hardware Tree Serial Connection Flow Meter DMT Flow Meter Device Connections Prolific LISB to Serial Comm Port COM 2 DMT FlowMeter 161FM Chapter 5 53 5 1 2 2 Task Connections The DMT FlowMeter device provides an analog sensor that can be selected as an input in acquisition tasks such as the Trace Recording Task In the following list Name is the description entered in the Specification dialog Device Sensor The following sensor can be selected in any acquisition task that monitors or records analog values Name DMT Fm161 Controller Current flow reading from device Device Inputs The DMT FlowMeter device does not provide any device inputs 5 1 2 3 Specification Dialog Dmt FM161 Specification Flow Meter DMT Flow Meter Specification Dialog The DMT FlowMeter Specification dialog provides the mechanism to set basic information about the connected device Description Enter friendly name used to identify this specifi
66. race Monitors Dialog My Experiment Trace Monitors Bath Temperature Cross Sectional Are Bath Temperature Average Wall Thickness Trace Sensor Mi Bath Temperature Analog Source Trace Monitors Dialog The Trace Monitors dialog allows you to define one or more trace monitors that will display the current value from either a hard ware trace sensor or from the output of any recording task in the current experiment All trace monitors appear in a single Trace Monitors Tool Bar in the Experiment Tool Bars area at the bottom of the DMT Vessel Acquisition Suite window The Monitors in experiment group shows the list of monitors for the current experiment allows you to select a monitor for editing in the Edit selected monitor group and add or delete monitors Monitors in experiment group Select an existing trace monitor name from the list will load the current definition into the Edit selected Add a new trace monitor to the list that is a copy of the currently selected trace monitor Add will be disa bled if there are no trace sensors in the hardware tree and no tasks in the current experiment List monitor group so that you can edit its definition Add Delete Delete the currently selected trace monitor from the list Edit selected monitor group Name Source Type Source This is the name that will be used to label this trace monitor in the list and when it is displayed in the Experiment Tool Bars area The syst
67. rol Trace Monitors w Vessel Measurement Collect Menu Tool Bar Additional recording task tool bars will be individually displayed for each recording task in the current experiment that has a experiment tool bar Refer to individual recording tasks documentation for details on the 100 bar functionality provided by each task Chapter3 7 The bottom section of the Collect menu provides tools for running the experiment Interactive If checked any visible experiment tools bars will update in real time Start Starts the current experiment disabled once started Stop Stops the current experiment disabled unless experiment is running UG HAUSE Pause Pause a running experiment disabled unless experiment is running KESUTIE Migger Resume paused experiment disabled unless paused Skip Trigger Skip wait for external trigger disabled if not waiting aka a SOR Hn 3 1 Hardware Manager Dialog The Hardware Manager is used to define the hardware setup and provide hardware test functions Setup of the Hardware Man ager is the first step that should be done after software installation as it is used by the software to determine available options for tasks and triggers Generally the Hardware Manager dialog will not need to be changed after the initial setup The Hardware Manager will generally only be edited during the initial software installation While it is relatively easy to add devices it can
68. settings for each task depends on the task type of the task Refer to the appropriate Acquisition Tasks section for more information Chapter 3 15 Global Sensor Settings Area The Global Sensor Options area of the Parameters dialog contains controls for sensor options that are selected for the entire experiment Controls will only appear in this area if one or more of the sensors selected in the task settings for any task in the cur rent experiment have options that can be selected on an experiment by experiment basis For example the picture above shows the camera controls for the lonOptix MyoCam which allow you to select the current camera mode Control functions Task Group The Tasks group has the following functions for working with Task rows Add Task Frequency 240 vi When you click on the Add button in the Tasks group of the Parameters dialog Ems you will see a list of tasks that have been defined in the Task Manager dialog If you select a task it will be added to the next empty row and the Experiment Set tings and Epoch Settings columns will be filled with default values You can edit the default values by selecting the appropriate cell in the main grid then editing the values in the matching Edit Area group Bath Temperature Delete Task Dual Excitation Clicking the Delete button in the Task group will delete the current task row WITHOUT confirmation This button is grayed out if the currently selected row is not a
69. sion factors used to process the raw sources and provide the results in the desired output units Intermediate Units This section shows the values entered in the main task settings dialog for reference Input Units to Intermed Specify the conversion factor slope need to convert the specified input units to the specified ite Units Conversions intermediate units Inter Units If the input units are listed as Task Out you will need determine the actual input units yourself from the task that you select in the Experiment Settings Intermediate Units to This section allows you to convert the calculation results from intermediate units to any other unit Output Unit Conversions desired Enter the scale factor Slope and the name for the Ouptut Units for each output trace T If you want use the intermediate units as the output units enter a slope of 1 and type the inter units values into the output units field 38 DMT VESSEL ACQUISITION SUITE 6 1 ACQUISITION USER MANUAL 4 1 4 2 Experiment Settings Selecting the first column of a Vessel Flow Characteristics Recording Task row in the Parameters dialog will display the experiment settings group in the edit area The following fields can be edited Sampling Units Traces To Collect Master Rate Solution Preset Task Data Sources Chose how you want to enter sampling rates in the Ep och Settings dialog Frequency Enter as Hertz Period Enter as seconds Check any optional
70. stem as well as the values you enter when adding and editing tasks using the task manager The screen shots shown should be considered examples only The mini button in the Edit area groups will display specific help for the controls in that group Edit Area The Edit area is used to change any value in either the Experiment Settings or Epoch Settings columns When you click on a column heading or a specific cell the Edit area will display editing controls for the selected cells For each selected cell there will be a matching group in the Edit area which contains the input controls needed to change the values Each group is labeled with the row heading unless it is the first row in which case it is labeled with the column heading In the example to the right the group name shown by the green arrow Edge Options matches the task name displayed in the row heading Edge Experiment Settings Ex ample Parameters Edge Options Modes 5 ling ders ng Frequency Hz Rath Temnarah me iii Edit Area Group Label Ench Experiment Sian mmediale View 10 000 Minimize excitation Frequency Hz Average 1 Frequency Hz 1 000 000 Hz Bath Temperature Average 1 Interpolated 1 000 000 Hz Edge Options Pa Average 1 Dual Excitation Frequency Hz Sampling Came Controls Frequency 240 xpermert Settings Trials 1 then acquire for 1
71. t looks good before starting the experiment The vertical indicates the current data location and moves left to right every 5 seconds The number of plots displayed is dependent on Raw Data option selected in the task Experiment Settings Two plots will be displayed for inside or outside only and four plots will be displayed for inside outside The order of the plots from top to bottom is left outside left inside right inside right outside Plot display Zone Graph Threshold Area The Zone Graph Threshold area displays a graph of the average intensity of all lines in each zone along with inner and outer threshold levels controls The threshold controls allow you to tune where the vessel walls are found by the detection algorithm The current zone as set in the Zone Control area is drawn with a white background while the others are drawn in gray Graph display 32 DMT VESSEL ACQUISITION SUITE 6 1 ACQUISITION USER MANUAL The results of the detection algorithm are displayed on corresponding threshold lines For the outer wall the outside parts of the lines are drawn in green and for the inside wall the inside of the line is drawn in red In addition there are small arrow heads that point in the direction the line was scanned The tips of the arrows will point to the video intensity trace at the point where it crosses the threshold where the edge was found Threshold control elements Video Options Group
72. t set sampling duration rates and average parameters for each task Clicking the OK button saves the parameters to the selected experiment They will be recalled the next time the experiment is selected To access the Parameters dialog select Parameters from the Collect menu or click the Edit button in the Experiment Manager dialog Example Parameters E Global Settings Experiment Start immediate Trials 1 then acquire for 10 000 s View 10 000 Minimize excitation Outside in 240 000 Hz Options Minimize excitation Frequency Hz Average 1 Frequency Hz 1000 000 Hz Info Average 1 tu interpoh i 1000 000 ii Edge Options Average 1 Modes ELT pwenn Frequency Hz Bath Temperature Options Sampling Units Frequency Hz a Controls Dual Excitation ptions Frequency 240 X Frequency Hz Bath Temperature pom ronn en ru Method Interpolated Duration 10 100 Euer En e j Jrrequency Hz E Parameters Dialog Areas The Parameters dialog has the following main areas 1 Column Headings The top gray row describes column contents 2 Row Headings The leftmost gray column shows the names of tasks that have been added to this experiment 3 Experiment Settings The first white column shows the experiment global settings in the first unlabeled row followed by the experime
73. the analog signal to find this value Raw QO Units Provide the voltage at which the measurement should be zero for example the voltage corresponding to a temperature of O degrees a pressure of O etc Notes Enter any notes to yourself about this recording task Q If you change the name of an existing task all saved user limits and templates will be reset Chapter 4 25 4 1 1 2 Experiment Settings Selecting the first column of a trace recording task row in the Parameters dialog will display the experiment settings group in the edit area The following values can be edited Sampling Units Choose how you want to enter sampling rates in the Bath temperature Options epoch settings dialog Sampling Units Frequency Enter as Hertz Period Enter as seconds Frequency Hz Trace Recording Task experiment settings edit area 4 1 1 3 Epoch Settings Selecting any epoch column of a trace recording task row in the Parameters dialog will display the epoch settings group in the edit area for the selected epoch The edit area will let you select the following values Frequency or Period Data sampling rate Frequency vs Period selection is made in the experiment settings column This is the Bath temperature Rates Frequency rate at which a data point is added to the data set This doesn t set the rate at which data is sampled from 0 200 lt fi 000 0 lt 1000 000 the hardware Average of Trac
74. the epoch is started Options are Data collection starts immediately Data collection starts after operator clicks Click Ok to start message box that appears when epoch starts Data collection starts based on trigger defined with the button See Trigger Options below Determines what is done during this epoch Options are Data is collected from all tasks No data is collected Set duration of this epoch to the specified number of seconds When selected the epoch will end before the specified not exceeding time if a trigger occurs Click the button to the right on this line to set up a trigger See Trigger Options next page When using one or more until options this determines the maximum duration 18 DMT VESSEL ACQUISITION SUITE 6 1 ACQUISITION USER MANUAL 3 4 2 1 Trigger Options Trigger Options Trigger Trigger Source MyoPacer gate out Cancel Epoch Trigger Options Raw Digital Sensor Haw Digital Sensor Trigger Options ES Trigger Type Haw Trace Sensor Trigger Source Trigger Properties a Type Level C Range Threshold 5 v Rising Falling Cancel Help Epoch Trace Sensor Raw Trace Sensor Trigger options are available to start data collection for an epoch when start Hardware or to end data collection when an until option is selected In either case you access the Trigger Options dialog by clicki
75. the line on the stage micrometer If positioned properly the current position magenta line should be near the middle of the red box as shown here uelay 3 7 To move the ruler horizontally or vertically without changing the length click on the line between the boxes then drag the ruler to a new position When you click on the line to move a white box will be drawn around the entire control as shown 8 you move the calibration ruler control the values in the Calibration data table will change in the highlighted row and the resulting new scaling factor will be displayed in the last row You may added as many calibration points as you think are needed When you are done press the OK button and the new calibration value from the last row will be entered into the Record task settings Chapter4 47 Chapter 5 Acquisition Devices In the context of the Hardware Manager a device is software which provides support for a specific physical device The Hardware Tree uses these devices to model the physical setup Devices can be either root devices or attached devices Root devices are interface cards plugged to a standard computer bus inside the computer or external port see below Attached devices are devices that are attached to root devices or other attached devices Eventually you attach a device that provides connections to the acquisition tasks that are used in an experiment These connections between devices and acquisition t
76. tion The next rows if any show the data for each calibration point that you add If you have one or more calibration points the last row will show you the new value which is the average of all calibration points above The values in the columns for the calibration point rows allow you to see the intermediate values and calculations so you can doublecheck that everything is reasonable There are five columns left pix Location of the left position of the calibration ruler control in pixels leti poo right pid wid wid um umipix oriona z right pix Location of the right edge of the calibration ruler con trol in pixels es en l m wid pix Width in pixels e g right pix left pix al Add Point Restart wid um Width converted to microns using width entered when calibration point was added Video Calibration Data area um pix The resulting scale factor for this calibration point e g wid um wid pix 4 3 1 1 Using The Video Calibration Dialog 1 Place an object with known dimensions the microscope stage lonOptix provides a 10um stage micrometer with each system for this purpose The stage micrometer is a microscope scale ruler mounted on a standard cover slip that has etched marks at precise 10um increments with taller tics ever 5Oum 2 Position the slide and or adjust the camera so that the ruler is parallel to 088 the camera as shown Make sure that the rules are in focus as much as
77. ts Frequency Hz Average 1 Frequency Hz 1000 000 Hz Rates Bath Temperature Frequency interpolated 000 000 0 240 lt 240 00 lt 240 Duration 0 100 sec METEIEPEM Average Dual Exeitation Frequency H2 fi of emperature Rates Frequency 0 200 1000 0 lt Average 1 1000000 1 of i it Dual Encitation Fletes Camera Controls Frequency Frequency 240 E 0200 10000 lt ls Average Sources Epoch Settings Column selected The figure shows the edit area when an Epoch Settings column is selected The indicated areas show L A A e Epoch start and duration settings See Epoch Settings for details the remaining items depend on the tasks in the experi ment Edge Options Epoch options for Edge task See Cell Length Recording Task Epoch Settings for details Bath Temperature Options Epoch options for Bath Temperature task See Trace Recording Task Epoch Settings for de tails Dual Excitation Options Epoch options for Dual Excitation task Dual Excitation Trace Recording Task Epoch Settings If all the the Edit Area groups do not fit in the Parameters dialog a scroll bar will be displayed that will scroll the task items groups only The top group 1 will always display If you click on a specific cell the appropriate editing group will appear in the Edit Area The specific controls available in the Experiment and Epoch
78. tware Timer as the system timer in Hardware Manager Configure Timers Dialog you will be able to adjust the pacing frequency by changing the Countdown Value As the Base Clock Rate is very slow you will probably always use a Countdown Value of one Chapter 5 55 Chapter 6 Acquisition program data files Acquisition support is delivered as a collection of files that are installed in the DMT Vessel Acquisition Suite program directory In addition the acquisition module writes the information that you enter into a series of configuration files that are also stored in the DMT Vessel Acquisition Suite program directory Program Files High level acquisition support is provide by the following files located in the DMT Vessel Acquisition Suite program directory D4 DLL High level acquisition support KW SYS Low level kernel mode acquisition support HWMGR DAMT DLL Hardware manager The software required for each device are provided in additional files Some standard devices are distributed as with the acquisition module that is they are standard while others such as Edge Detection are sold separately The acqusition module scans the DMT Vessel Acquisition Suite program directory for these files IHC Tree component routines For each IHC file there will be a corresponding SYS file RSS Task routines For each RSS file there will be a corresponding SYS file Configuration Files Created The acquisition module stores the
79. ure C pq Current pressure 1 mm po Current pressure 2 mm Hg Current force mN pH Current pH if Has pH probe connection is selected in the Specification dialog T Set Current target temperature C P41 Set Current target pressure 1 mm Hg Set Current target pressure 2 mm Hg Manual Override New T Set 20 5 500 New PI Set o o New P2 Set ocf lt 250 v Pressure On Off Pressure Myograph Manual Group manual override The top right section of the tool bar allows you to enter new set values send them to the hardware and control how the long the stay activated New T Set Enter new value for T Set that will be set when Activate button is clicked New P1 Set Enter new value for P1 Set that will be set when Activate button is clicked New P2 Set Enter new value for P2 Set that will be set when Activate buttonis clicked Enable button When pressed as shown enables editing and activating of new set values When released acquisition task s control of the device if any will be enabled Lock button When pressed previously activated values will remain in effect as long as manual override is enabled When released as shown acquisition task s control of the device if any will return at the end of the current epoch Activate button When clicked all new values will override any

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