4Deep HoloSea S7 User manual

HoloSea Microscope User Guide
Model S7

Notices
Copyright © 4Deep inwater imaging 2018
No part of this document may be reproduced
in any format without prior agreement or writ-
ten consent from 4 Deep inwater imaging.
This software/hardware is proprietary to
4Deep inwater imaging and the company
hereby grants the customer a nonexclusive li-
cense for its use. The Customer will not mod-
ify, adapt, translate, create derivative works,
disassemble, decompile or reverse engineer
the software/hardware provided. No title to
or ownership of the software/hardware or in-
tellectual property rights are transferred to the
customer.
This software/hardware is provided “as is”,
and is subject to change, without further no-
tice in future editions.
Edition
HoloSea Microscope User Guide - Model S7
4Deep inwater imaging
6589 Chebucto Road
Halifax Nova Scotia
Canada B3L 1L9
Safety and Information Notices
An “Important” signifies helpful information in
using the software/hardware. It identifies an
important piece of information to guide the
user in their workflow, and if not followed could
result in time wasted.
A “Caution” signifies a hazard. It identifies an
operating procedure, or step, that if not fol-
lowed precisely, could result in damage to the
product or loss of information. Do not continue
beyond a “Caution” sign until the procedure is
fully understood.
A “Warning” signifies a hazard. It identifies
an operating procedure, or step, that if not fol-
lowed precisely, could result in personal injury.
Do not continue beyond a “Warning” sign until
the procedure is fully understood.
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HoloSea Microscope
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CONTENTS
Contents
1 Overview 1
1.1 Purpose .......................................... 1
1.2 Benefits........................................... 1
2 Introduction 2
2.1 SafetyInformation ..................................... 2
2.2 Compatibility ........................................ 2
2.3 ComponentsoftheSystem ................................ 3
2.4 Recommended Extras (not included) . . . . . . . . . . . . . . . . . . . . . . . . . . . 6
2.5 The Microscope and its Components . . . . . . . . . . . . . . . . . . . . . . . . . . . 6
2.5.1 Chamber1 ..................................... 7
2.5.2 Chamber2 ..................................... 8
2.5.3 SampleSpacer .................................. 8
2.5.4 Crown........................................ 9
2.5.5 PurgeValves .................................... 9
3 Installation and Use 10
3.1 ConnecttheHoloSeacable ................................ 10
3.2 Screwonlockingsleeve.................................. 11
3.3 EthernetConnection.................................... 11
3.4 TestingandDeployment.................................. 13
3.5 CollectingHolograms ................................... 13
3.5.1 Acquisition setup for Octopus and the microscope . . . . . . . . . . . . . . . 14
3.5.2 Tips for Optimal Hologram Acquisition . . . . . . . . . . . . . . . . . . . . . . 16
4 Care and Maintenance 16
5 Troubleshooting 18
6 Appendix 18
6.1 PrincipleofOperation ................................... 18
6.2 Software........................................... 19
7 Specifications 20
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LIST OF FIGURES
List of Figures
1 The preassembled HoloSea Microscope (vertical view in left panel and horizontal
viewinrightpanel). .................................... 4
2 10mCable ......................................... 4
3 PowerSupply(12VDC) .................................. 5
4 Carrying case, with the microscope inside . . . . . . . . . . . . . . . . . . . . . . . . 5
5 HoloSeacomponents ................................... 7
6 Protective sapphire camera window and copper ring. . . . . . . . . . . . . . . . . . . 8
7 Samplespace ....................................... 9
8 The two purge valves on the bottom of the microscope. . . . . . . . . . . . . . . . . 9
9 Mating the underwater connectors for a wet mating (Photo from MacArtney Under-
waterTechnologies) .................................... 10
10 HoloSea bulkhead with 13 pin connector. The male connector is in the left panel,
and is attached to the underwater cable. The female is shown in the right panel and
is attached to the microscope. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 11
11 Locking sleeve on both the cable (left panel), the microscope (center panel) and
connected(rightpanel) .................................. 11
12 Use of female to female Ethernet connector. In the right panel, the black cord is
the rigid Ethernet cable from the underwater cable, and the blue cable is the flexible
Ethernet cable to the computer. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 12
13 Connectingtothecomputer................................ 12
14 Connecting the power. In the left panel connecting the microscope power to the in-
cluded 12VDC power cord. The right panel shows a close-up of the power connector
fromthemicroscope..................................... 12
15 Deployment of the HoloSea from a wharf . . . . . . . . . . . . . . . . . . . . . . . . 13
16 Dimensions of the Submersible, reported in inches . . . . . . . . . . . . . . . . . . . 13
17 Camera tab view (left panel) and the camera options (right panel) . . . . . . . . . . . 14
18 Select instrument preset dialog . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 15
19 The Octopus software at start-up . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 15
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HoloSea S7 1 OVERVIEW
1 Overview
The HoloSea has been developed to operate in conjunction with 4Deep’s software (Octopus,
Swordfish or Stingray). Note that hologram collection cannot be completed without the use of
4Deep software.
This user guide is strictly related to the installation, use, care of and functionality of the HoloSea.
For a detailed description of the setup and operation of the 4Deep software, please refer to the
respective user guides.
The HoloSea is a submersible holographic microscope; for the benchtop microscope, see the
Desktop Microscope.
The HoloSea can be used to collect images from the fields of:
• Marine research: water profiling, algae, plankton, phytoplankton
• Oil & gas
• Water quality and monitoring: microorganism imaging
• Ocean research
• Algae production: algae profiling
• Counting, data and morphological analysis, quantitative phase analysis: many other applica-
tions
1.1 Purpose
The HoloSea comes from a suite of instruments that all operate under proprietary digital inline
holography technology platform, developed by 4Deep. With its new and unique method of data
acquisition and analysis, this system is designed to optimize your research of the microscopic
world. The microscope is able to capture dynamic movement and is useful for time-dependent
experiments. The HoloSea allows you to quickly and easily observe micro-organisms and particles
up to a depth of 5 kilometres (in custom models).
The measurement technique used is digital inline holographic microscopy in transmission. The
light source is a single source of 405 nm.
1.2 Benefits
Compared to a traditional microscope, the holographic microscope has many benefits:
• Real-time, in-situ capability to observe of particles and micro-organisms in all aquatic envi-
ronments
• Portable and lightweight, making it easy to deploy, yet rugged
• High-flow capabilities; an be towed at 8 knots (4 m/s), or stationed in rivers
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2 INTRODUCTION HoloSea S7
• Low maintenance and easy to clean, as there is no pumps or tubing, making fouling less of
an issue
• Fast-tracking: up to 22 images per second to capture tracking dynamics of fast moving ob-
jects
• Save time using the fastest hologram image reconstruction available
• Go deeper, as it is pressure rated from 0-500m, with a cable depth of 100m, and Up to 6000
meters in custom models
• Instant: live imaging of samples without any manipulation.
• Simple: no need to focus.
2 Introduction
2.1 Safety Information
The user should read this user guide and any other additional information supplied by 4Deep before
operating the instrument.
This microscope contains a class IIIB Laser. A 405 nm wavelength is emitted from the
laser housing itself. If properly assembled, the light emitted from the laser should not pose any
threat of long term damage to an exposed eye. There are no user serviceable parts inside
the light source. If problems are encountered regarding the light source, please return it im-
mediately for service. Allow only a qualified technician to disassemble the point source. Do not
attempt to remedy any problems with the light source on your own!
Always make sure that the proper 12 VDC power supply is used with the microscope.
Failure to do so could result in critical damage to the microscope.
2.2 Compatibility
As mentioned above, the HoloSea needs to be used in conjunction with the Octopus software. The
computer requirements are:
• CPU Core i5 or i7
• 8 GB of RAM
• 256 GB or larger SSD Drive
–The microscope can record at 22 images per second, and each image is 4 MB
• NVIDIA GeForce or Quadro GPU with at least 2 GB of graphics RAM, Kepler architecture or
later
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HoloSea S7 2 INTRODUCTION
–For fast hologram reconstructions, 4Deep software requires a CUDA-enabled NVIDIA
graphics card to be installed in the computer
–For the list of CUDA-enabled graphics chips, refer to https://developer.nvidia.com/cuda-
gpus
• Gigabit Ethernet port (for data connection)
• 1 USB port for the HASP key -Full versions of the software require a valid HASP key (dongle)
to run
–Demo versions can be used without a HASP key
• Windows 7 or 10, 64-bit
–Windows 10 Pro is preferred over other versions (such as Home)
2.3 Components of the System
Be careful when unpacking the contents of the package. As the 4Deep microscope
images at the micron level, foreign objects (dust, dirt, fingerprints, smudges, perspiration, saliva
etc.) on the camera window and/or the point source can greatly affect the quality of the captured
holograms. Take care not to touch the sapphire panes encasing the camera and the point source.
For further Care and Cleaning information, see Section 4.
The following is the list of parts of the HoloSea.
• HoloSea, pre-assembled. For full details, see the microscope description in Section 2.5.
–There are two purge valves on the bottom of the microscope, as shown in the right panel
of Figure 1
– DO NOT REMOVE THE PURGE VALVES. Using the purge valve without
the advice of 4Deep WILL NEGATE ANY WARRANTY on the microscope. Purging of
the microscope MAY only be needed in one specific issue, thus in most cases, your
microscope will NOT need to be purged.
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2 INTRODUCTION HoloSea S7
Figure 1: The preassembled HoloSea Microscope (vertical view in left panel and horizontal view in
right panel).
• Long (10m) cable with 13 pin connector to power laser, camera, and transmit data from the
camera to the host computer.
Figure 2: 10m Cable
• Power supply (12 VDC)
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HoloSea S7 2 INTRODUCTION
Figure 3: Power Supply (12 VDC)
• Carrying case
Figure 4: Carrying case, with the microscope inside
Please ensure all components listed above were shipped to you. If not, please contact
a 4Deep representative immediately.
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