Vemco HR2 User manual

Table of Contents
What's New in this Release
New Features for version 2.3 vii
Support for VR2Tx, VR2AR, and VR4-UWM receiver log files vii
Sensor values in live detections display vii
Updated/Enhanced Features vii
1 Introduction
1.1 HR2 Receiver - Overview 2
1.1.1 HR2 Receiver Quick Specifications 3
1.2 HR2 Case and Parts 4
1.2.1 HR2 Case Parts 5
1.3 VEMCO High Speed Offload Cable (HSOC) 7
1.3.1 Communication cable information 7
1.4 Operation Modes 8
1.4.1 Suspend Mode 8
1.4.2 Record Mode 8
1.5 Fathom Software - Overview 9
1.5.1 Fathom software requirements 9
1.5.2 What can Fathom do? 9
1.6 Tour of the Fathom User Interface 10
1.7 Hardware Tabs 11
1.7.1 The Device Scanner tab 11
1.7.2 the Receiver tab (s) 11
1.8 Software Tabs 12
1.9 Getting Help 13
2 Getting Started
2.1 Installing the Fathom Software 16
2.2 HR2 Dummy Plug and Locking Collar 17
2.3 Connecting an HR2 Receiver to a computer 18
2.4 Launch Fathom 20
2.4.1 The Fathom Launcher 21
2.4.2 The About Fathom Window 21
i

2.5 Device Scanner Tab 23
2.6 Establishing Communication 24
2.7 Receiver Tab 28
2.8 Testing the Receiver 29
2.8.1 In-Air Test 29
2.8.2 In-Water Test 30
3 Using Fathom with an HR2 Receiver
3.1 Status Tab 34
3.2 Live Detections Tab 36
3.2.1 Time Display Options 37
3.2.2 Live Tiles and Live Detection Filter Options 38
3.3 Live Tiles Tab 39
3.3.1 Understanding the Live Tiles Display 39
3.3.2 Live Tiles Display Settings 40
3.4 HR2 Transmitter Tab 44
3.4.1 Transmitter Settings 44
3.4.2 Transmitter IDs 44
3.4.3 Configure Transmitter 44
3.5 Sensor Logging Tab 49
3.6 Watch Table Tab 51
3.6.1 Adding Tag IDs 51
3.6.2 Selecting Tags 52
3.6.3 Managing Entries 52
3.7 Advanced Tab 55
3.7.1 Hardware Configuration 55
3.7.2 Serial Communication Options 58
3.7.3 Hardware Status 60
4 Conducting a Study with an HR2 Receiver
4.1 Record Mode 66
4.2 Starting a Study 67
4.3 Offloading Data 70
4.4 Disconnecting Communication with Receiver 72
4.5 Suspend Mode (not recording) 73
HR2 Receiver User Guide
ii

5 Deploying an HR2 Receiver
5.1 Case External Dimensions 76
5.2 Deployment Facts and Tips 77
5.2.1 Mooring 77
5.2.2 Spacing 77
5.2.3 Biofouling 77
5.3 Mooring Line Attachment 78
5.4 External Cable 81
6 Viewing and Managing Receiver Data
6.1 Visualizing Data 84
6.1.1 Data Visualizer main window features 86
6.1.2 ALLDATA section features 87
6.1.3 SELECTION section features 88
6.1.4 Data Visualizer Filter Options 91
6.1.5 Using the Range Selector Tool 91
6.1.6 Noise Samples, Tilt, and Temperature (HR2, VR2Tx, VR2AR, and VR4-UWM receivers
only) 93
6.2 Exporting Data 95
6.2.1 Record Types included in each export option 98
6.2.2 Record Types by receiver model 102
6.2.3 Field Descriptions by Record Type 107
7 Maintaining an HR2 Receiver
7.1 Replacing the Main Battery 144
7.1.1 Opening the HR2 Case 144
7.1.2 Disconnecting and Removing the Battery 148
7.1.3 Installing and Connecting a Battery 152
7.1.4 Closing the HR2 Case 155
7.2 O-Ring Care 158
7.2.1 Removing O-Rings 158
7.2.2 Cleaning O-Ring Surfaces 158
7.2.3 Installing O-Rings 160
7.3 Storing a receiver 161
7.4 Cleaning Instructions 162
Contents
iii

8 Additional Information
8.1 Flash Memory 164
8.2 Status Light Flashes 165
8.3 Batteries 166
8.4 Updating the Fathom Software 167
Automatic Software Update notifications 167
8.5 Automatic Firmware Updates and Notifications 168
8.6 Installing the Communication Cable Drivers 169
9 Common Questions
9.1 HR2 Receiver Related Questions 172
9.1.1 How Long Will My HR2 Battery Last 172
9.1.2 What is considered a Quality Score for Detections? 172
9.2 Fathom Related Questions 173
9.2.1 What is Initialization? 173
9.2.2 What Date/Time Format is my Data Stored in the Receiver? 173
9.2.3 Why Do I see a discrepancy between detections in my HR2 Live views and detections
in the exported CSV file? 173
9.2.4 Where do I find the Fathom software version number? 173
10 Troubleshooting
10.1 HR2 Receiver Related Troubleshooting 176
10.1.1 The Threads Have Been Damaged 176
10.1.2 I Think The Case Might Be Pressurized 176
10.2 Fathom Related Troubleshooting 177
10.2.1 I cannot connect to my HR2 Receiver 177
10.2.2 These Detected IDs Don't Belong to me 177
Appendices 179
A Quick Start Checklist 181
B HR2 Specifications 183
C HR2 Factory Settings 185
D HR2 Data Export Detection Filters
D.1 Quality Score Filter 187
D.2 HR Residency Filter 187
HR2 Receiver User Guide
iv

E More About Help
E.1 Tour of the Help Workspace 190
E.1.1 Main areas of the Help Workspace 190
E.2 Help Navigation Pane Tabs 191
E.2.1 Using the Navigation Pane 191
E.2.2 Table Of Contents (TOC)Tab 191
E.2.3 Glossary Tab 191
E.2.4 Quick Start Topics Tab 191
E.3 Help Top Toolbar 192
E.4 Topic Navigation Tools 192
E.4.1 Chapter mini Table Of Content 192
E.4.2 Toggler (Help only, appears inline in PDF) 192
E.4.3 Drop-down text (Help only, appears inline in PDF) 193
E.4.4 Expanding text (Help Only, appears inline in pDF) 193
E.5 Using the Search Tool 193
F Open Source Licenses 195
G Contact Information 197
H Warranty and Disclaimer 199
Glossary 202
For the latest versions of user guides and software, visit our website.
© 2018 AMIRIX Systems Inc. All rights reserved. The information contained herein includes
information which is confidential and proprietary to AMIRIX Systems Inc. and may not be used or
disclosed without prior written consent of AMIRIX Systems Inc.
The Bluetooth® word mark and logos are owned by the Bluetooth SIG, Inc. and any use of such marks
by AMIRIX Systems Inc. is under license.
Other trademarks and trade names are those of their respective owners.
WARNING: If the HR2 is not used in the manner specified in this manual, then the manufacturer's
warranty protection may be voided.
Contents
v

vi
This page intentionally left blank to ensure new
chapters start on right (odd number) pages.

vii
What's New in this Release
Fathom 2.3 provides fixes to known issues in the previous version, along with the following new and
updated features. Topics that are related to new or updated features are marked with a red asterisk in
the Online Help Table of Contents.
New Features for version 2.3
Support For VR2Tx, VR2AR, And VR4-UWM Receiver Log Files
Support has been added for viewing (using the Visualize Data application) and exporting data (using the
Export Data application) from VR2Tx, VR2AR, and VR4-UWM receiver log files. Note that
communication with, and configuration of VR2Tx, VR2AR, and VR4-UWM receivers still requires the
VUEsoftware.
Sensor Values In Live Detections Display
When watching live detection data in the Live Detections tab, sensor tag detections will now be
accompanied by a sensor reading in ADC units.
Updated/Enhanced Features
Status Tab detections breakdown (HR2 receivers only)
The Data box in the receiver Status tab now shows detections broken down into self (detections of the
receiver’s own built-in transmitter) and external (non-self) detections.

viii
This page intentionally left blank to ensure new
chapters start on right (odd number) pages.

1
1
Introduction
The Fathom software has been developed to aid in preparing your HR2 receivers for
deployment, retrieving data from your HR2 receivers, and in visualizing and exporting data from your
HR2, VR2W, VR2AR, VR2Tx, and VR4-UWM receivers when your study is complete.
Fathom software key features
lInitializing, configuring and uploading data from VEMCO HR2 Receivers
lViewing live detection data in real time (great for testing and troubleshooting)
lIntegrated easy-to-search help (for both the Fathom software and the HR2 Receiver)
lExport receiver data to CSV format for inspection and manipulation in a program of your choice
The HR2 Receiver
The new, feature-rich HR2 (High Residence)receiver is an excellent choice for tracking many fish
with higher accuracy than ever before using our smallest fish tags (V4, V5, and V9). The High
Residence telemetry system was designed specifically to allow researchers to monitor or position many
tagged animals with sub-meter accuracy. The HR2 receiver detects both PPM1(VEMCO's traditional
coding system) and HR2(VEMCO's new High Residence coding system) transmissions from 180 kHz
tags (transmitters).
This Section Contains Information On The Following:
1.1 HR2 Receiver - Overview 2
1.2 HR2 Case and Parts 4
1.3 VEMCO High Speed Offload Cable (HSOC) 7
1.4 Operation Modes 8
1.5 Fathom Software - Overview 9
1.6 Tour of the Fathom User Interface 10
1.7 Hardware Tabs 11
1.8 Software Tabs 12
1.9 Getting Help 13
1Pulse Position Modulation (PPM) is a signal modulation technique that allows computers to share data by measuring the time each
data packet takes to reach the computer (transmitter to receiver).
2High Residence (HR) is a VEMCO technology that allows for the reliable detection of hundreds of animals in a particular location
at one time. Each transmitter carries a unique ID and can be programmed to transmit as quickly as once per second while keeping
transmission collision rates to a minimum. HR transmitters can also be programmed with traditional PPM coding, and are thus
compatible with both VEMCO HR2 receivers and 180 kHz VR2Ws.