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Photometrics Prime sCMOS User Manual

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Summary of Contents for Photometrics Prime sCMOS

  • Page 1 U S E R M A N U A L...
  • Page 2 All other brand and product names are the trademarks of their respective owners and manufacturers. The information in this publication is believed to be accurate as of the publication release date. However, Photometrics does not assume any responsibility for any consequences including any damages resulting from the use thereof. The information contained herein is subject to change without notice.

  • Page 3: Limited Warranty

    Photometrics warrants this product against substantial defects in materials and/or workmanship for a period of up to two (2) years after shipment. During this period, Photometrics will repair the product or, at its sole option, repair or replace any defective part without charge to you. You must deliver the entire product to the Photometrics factory or, at our option, to a factory-authorized service center.
  • Page 4 Photometrics. You must notify the Photometrics factory service center within thirty (30) days after you have taken delivery of a product or part that you believe to be defective. With the exception of customers who claim a “technical issue” with the operation of the product or part, all invoices must be paid in full in accordance with the terms of sale.
  • Page 5 In no event shall Photometrics’ liability exceed the cost of the repair or replacement of the defective product or part.
  • Page 6 Prime™ sCMOS User Manual 58-621-004 Rev A1 ©2016 Photometrics. All rights reserved.

  • Page 7: Table Of Contents

    Clearing Mode Selection ....................... 18 Single and Multiple Regions Of Interest ..................19 Device Synchronization (Triggering) ....................21 Trigger Modes ..........................21 Expose Out Behaviors ........................22 Multiple Output Triggers ....................... 25 58-621-004 Rev A1 ©2016 Photometrics. All rights reserved.
  • Page 8 PVCAM Error Message Appears ....................30 Lengthy Pauses During Imaging ....................30 Basic Specifications ....................... 31 Prime sCMOS: Front, Side And Rear Views ................... 31 Camera Weight ..........................31 Power Supply Specifications ......................32 Liquid Cooling Setup Instructions ................. 33 INDEX ..........................

  • Page 9: Overview

    The Manual chapter contents are briefly described below. Note: The information in these chapters applies only to the Prime sCMOS camera and is currently not applicable to any other Photometrics camera. •...

  • Page 10: Environmental Requirements

    Requirements humidity, non-condensing. Storage Store the Prime sCMOS camera system in its original containers. To protect the system from excessive heat, cold and moisture, store at an ambient temperature between Requirements -20°C and 60°C with a relative humidity of 0% to 90%, noncondensing.

  • Page 11: System Installation

    Carefully review the Precautions section in the previous chapter before performing any of the procedures outlined in this chapter. Again, use only a Prime sCMOS PCI Express data cable and Prime PCI Express interface card with the camera. Using a different cable or interface card may result in permanent damage to the system.

  • Page 12: Getting To Know Prime

    Prime™ sCMOS User Manual Highlights of the Prime sCMOS camera are shown below: The Prime package includes Getting to Know the PVCAM drivers designed to allow you to use this camera with a variety of third Prime party imaging software - To see a list of supported software, visit the Photometrics website.

  • Page 13: Software Compatibility Requirements

    Installation Windows-based computers. Additional instructions are included for installing a PCI Express interface card in the computer. The Photometrics USB memory device contains the following files: • Manuals Directory — contains user manuals in PDF format. •...

  • Page 14: Installing The Pci Express Interface Card

    Note: The model of PCIe card shipped with the camera may differ from the one shown in the photo. Warning: Do not use the PCIe interface supplied with the QImaging optiMOS sCMOS camera with the Photometrics Prime sCMOS camera. While they have a common cable and connector, they are not compatible. 58-621-004 Rev A1...
  • Page 15 5. Holding the Prime PCIe card and (being careful not to touch the board components or PCIe bridge pins) insert it with the proper orientation into the open slot. The card should slide into place with minimal resistance and snap when fully inserted. 58-621-004 Rev A1 ©2016 Photometrics. All rights reserved.

  • Page 16: Connecting Prime To The Pcie Bus

    Prime™ sCMOS User Manual Connecting The Prime sCMOS camera data cable is a quick insertion, quick release cable that works with the interface card and camera. Either end of the cable can be plugged into either Prime to the device, and in any order.

  • Page 17: Connecting Prime With Usb3.0

    USB3.0 Tip: USB devices sharing the same bus as Prime contend for available bandwidth, potentially causing the camera to drop frame rate. For this reason, Photometrics recommends isolating the camera to its own USB3.0 root hub as shown in the Windows Device Manager.

  • Page 18: Theory Of Operation

    On a CMOS device – the entire 2048 voltage conversions needed to digitize a row happen in parallel. The sensor in the Prime sCMOS camera takes parallelism even 58-621-004 Rev A1...

  • Page 19: Gain Combining

    This is inherent on all current sCMOS generation sCMOS cameras. While impacting image quality, these cannot be addressed without negatively impacting image photometry and wait for further improvements to the on-sensor ADC conversion. 58-621-004 Rev A1 ©2016 Photometrics. All rights reserved.

  • Page 20: Rolling And Global Shutter Readout

    The graphic below depicts the time delay between each row of pixels in a rolling shutter readout mode with a CMOS camera. Figure 1: Rolling Shutter Exposure Row by Row Exposure Start/End Offset 58-621-004 Rev A1 ©2016 Photometrics. All rights reserved.

  • Page 21: Digital Binning

    Digital Binning Highlights of the Prime sCMOS camera are shown below: CCD image sensors are capable of charge binning (combining adjacent pixels into one super pixel). This is accomplished as part of the charge transfer process and has the advantage of increasing signal to noise in read-noise limited situations, at the expense of spatial resolution.

  • Page 22: Bias Offset

    Pixel Noise Note: The Prime sCMOS camera ships with an optimized default setting for Real Time Pixel Noise Filtering. Normally these values do not need to be adjusted. Additionally,...
  • Page 23 This allows viewing the histogram’s tail, where the effect of the filters can be seen. Adjust the filters to trim the non-Gaussian tails from the distribution. 58-621-004 Rev A1 ©2016 Photometrics. All rights reserved.
  • Page 24 Programmable Gate Arrays) provide new opportunities for extracting the best information from acquired images. Photometrics leveraged the revolution in computational imaging with two new capabilities, PrimeEnhance™ and PrimeLocate™. Prime’s computational power matches the latest generation of GP GPU’s while making the technology easy to deploy and accessible by embedding computational power inside the camera.
  • Page 25 Fig 3f +(1320,492) in print). In this case, PrimeLocate finds three emitters – and transfers their surrounding ROI’s +(1460,625) to the host, along with metadata indicating +(1400,700) where the ROI was taken from. 58-621-004 Rev A1 ©2016 Photometrics. All rights reserved.

  • Page 26: Operating Features

    The following waveforms show how the overlap behavior of “Clear Pre-Sequence” functions for the Prime camera. 58-621-004 Rev A1 ©2016 Photometrics. All rights reserved.

  • Page 27: Single And Multiple Regions Of Interest

    Reducing the number of columns in the ROI does not improve the frame rate of the camera, but it does reduce the amount of data acquired, saving computer resources and processing time. 58-621-004 Rev A1 ©2016 Photometrics. All rights reserved.
  • Page 28 To use this feature, it must be supported in the third party imaging application being used. For programmers, an example application is included in the PVCAM SDK, available from Photometrics at no additional cost. Few Rows skipped Many Rows skipped...

  • Page 29: Device Synchronization (Triggering)

    Similar to Timed Mode but requires a hardware trigger from the I/O connector. Hardware triggers enable a higher precision of acquisition timing than software triggers. Rising edge of an external trigger initiates the start of a sequence of acquisitions. 58-621-004 Rev A1 ©2016 Photometrics. All rights reserved.

  • Page 30: Expose Out Behaviors

    Although “First Row” behavior provides the maximum camera frame rates, it does not avoid the overlap due to rolling shutter. This mode is not recommended if trying to alternate between excitation wavelengths. Trigger Ready Trigger Frame Exposure Expose Figure 7 58-621-004 Rev A1 ©2016 Photometrics. All rights reserved.
  • Page 31 (approximately 10ms). Trigger Ready Trigger Frame Exposure Expose n x line time n x line time Figure 9 58-621-004 Rev A1 ©2016 Photometrics. All rights reserved.
  • Page 32 From this comparison, the following conditions can be defined for each expose out behavior: First Row All Row All Row Expose Expose Expose Expose =< Frame Time Expose > Frame Time 100fps (Full Frame) Exposure Overlap Simulated Global Shutter 58-621-004 Rev A1 ©2016 Photometrics. All rights reserved.

  • Page 33: Multiple Output Triggers

    Prime™ sCMOS User Manual Multiple Output The Prime sCMOS camera has four independent trigger output signals. This enables hardware control over light sources that cycle through different excitation wavelengths Triggers during a sequence acquisition. For example, a multi-wavelength LED light source can rapidly switch between two different fluorochromes.

  • Page 34: Fan Speed Control And Liquid Cooling

    In this case the camera is unable to cool the sensor. When setting Prime on a flat surface, be careful to not block the air vents. 58-621-004 Rev A1 ©2016 Photometrics. All rights reserved.

  • Page 35: Advanced Features

    + 1. The smallest ROI is a 3x3 pixel region (radius=1), and the largest ROI is a 31x31 pixel region (radius=15). If it is required to go outside of these ranges, please contact Photometrics customer service. These ranges were chosen based on the specific use case of STORM imaging, but may be changed in future camera updates.

  • Page 36: Time Stamps

    Frame metadata). Note: Prime has timestamps for “Bof” for “Begin of Frame” and “Eof” for “End of Frame” events, which differ by approximately 10 ms, which was the preset exposure time. Figure 13 58-621-004 Rev A1 ©2016 Photometrics. All rights reserved.

  • Page 37: Troubleshooting

    With the computer’s power turned off, remove any previously installed expansion cards that the system does not need to function (If you are unsure which cards can be safely removed, call Photometrics Customer Service.). Then turn the computer back on.

  • Page 38: Images Not Displayed

    If no images appear: Displayed 1. Confirm the camera switch is set to on. 2. Confirm that the Prime sCMOS camera is selected in the imaging software application. 3. Power off the camera and the host computer and check all system connections (particularly the DATA and power cables), then restart.

  • Page 39: Basic Specifications

    Specifications Broadband MgF2 anti-reflective coating on both surfaces sCMOS sensor Array Sensor BAE CIS2020 Sensor Process Microlens array Resolution 2048 x 2048 Pixel Size 6.5µm x 6.5µm Digitalization (Readout) Rate 420 MHz 58-621-004 Rev A1 ©2016 Photometrics. All rights reserved.

  • Page 40: Power Supply Specifications

    CE, UL, CUL, FCC, PSE Efficiency level VI Note: CE certification applies to the Prime camera only when the camera system operates with a CE-approved power supply FIGURE 19. Prime Power Supply Top View 58-621-004 Rev A1 ©2016 Photometrics. All rights reserved.

  • Page 41: Liquid Cooling Setup Instructions

    Prime™ sCMOS User Manual Appendix Liquid Cooling Setup Instructions Warning: Use of equipment not originally provided by Photometrics for use with liquid cooled cameras will void any and all warranty coverage of the product. Unpack the cooler and hose assembly.

  • Page 42: Index

    Tripods, 2 Troubleshooting, 29-30 Imaging Window, 2 I/O Connector, 21- 22, 32 USB3.0, 1, 3-5, 9, 29 Lenses, 2 Liquid Cooling, 4, 26, 25 Localization Microscopy (PrimeLocate), 17 Warranties, iii - iv 58-621-004 Rev A1 ©2016 Photometrics. All rights reserved.
  • Page 43 Prime™ sCMOS User Manual www.photometrics.com Main Phone: +1 520.889.9933 Support: +1 604.530.5800 / +1 800.874.9789 58-621-004 Rev A1 ©2016 Photometrics. All rights reserved.

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