Overview

Teaching: 15 min
Exercises: 0 min

Questions

• What other Nodebooks are there that could be useful for me to know as a Node Manager?

Objectives

• Learn about Nodebooks that are useful for Node Managers outside the core data loading notebooks

OTN maintains several additional Nodebooks that fall outside the core tag, deployment and detection tools. These may be useful to Node managers who also deal with these particular scenarios.

Check Environment

This Nodebook checks your system Python environment against our environment.yml. This is to see if the Python packages and libraries you have installed are in line with what is required to run the Nodebooks. This will assist you with updating your packages if they become out-of-date, or if OTN develops and publishes new tools which rely on new packages.

scientific_name_check

This Nodebook uses WoRMS to check animal common and scientific names. It is used to add new species names to obis.scientificnames table for use each project. The instructions for using this Nodebook are the same as the Adding Scientific Names section in the Create and Update Projects Nodebook.

Occasionally, you may have to add a new species to the WoRMS data system. The specifics of doing so are laid out on the WoRMS Contribution page but they amount to: email info@marinespecies.org with a literature record describing the taxa that needs to be added. Traditionally WoRMS was not a register of freshwater species but in recent years they have extended their scope to account for and track marine, brackish, and fresh habitat designations for their supported taxa. So don’t hesitate to reach out to them and help them add new species!

Add Instrument Models to Database

This Nodebook is used to add an instrument model to the obis.instrument_models table.

insert_vendor_sheet

Used to load manufacturer specifications for tags or receivers into the vendor tables.

convert - Fathom (vdat) Export - VRL to CSV

Convert VRLs or VDATs into CSV files using command-line Fathom software. Can also be done using the Fathom app.

Load Health Report

This notebook will load “health reports” collected by LiquidRobotics WaveGliders while remotely offloading VR4 receivers.

Create and Update Contacts Nodebook

This Nodebook can be used to add new contacts to a project and update existing contacts in the database. Note: you cannot change someone’s email address using this tool.

DB Fix Notebooks

These are a series of notebooks for fixing common issues found in the database. More information can be found in the relevant lesson.

Outdated / old workflows:

Active Tracking

Handles active tracking data - detections collected by using a VR100 hydrophone (or similar) during “mobile” tracking activities. (Superseded by Movers workflow)

Slocum Telemetry Notebook

This notebook will process and load detection data collected by a slocum glider mission. Information required includes glider telemetry, glider metadata, and detection files. (Superceded by Movers workflow)

Telemetry Processing for Wave Gliders and Animals

This notebook will process and load detection data collected by a WaveGlider mission. Information required includes glider telemetry, glider metadata, and detection files. (Superseded by Movers workflow)

Key Points

• ipython-utilities has many useful notebooks for Node Managers to help them