(b) BioBase Ambassador, Certified Lake Manager, and President of LakeTech Inc.
The term “Fit for Purpose” has recently become a popular term in our circles in the context of mapping and surveying water bodies, and it refers to utilizing the appropriate equipment, methods, and budget for the task at hand.
This principle acknowledges that one type of equipment and method may not be suitable for every scenario. For instance, whether you’re assessing the storage volume of municipal stormwater ponds or maintaining a river channel for commercial navigation, the required level of accuracy will and should be different. While high accuracy and precision may be crucial for certain projects, it might not be necessary for others.
What kind of sonar hardware should I buy for BioBase Mapping is the most common question we are asked. Admittedly, continual change in technology, products, and features can be intimidating and sometimes confusing. With this blog, we focus on what you need to know to get started with BioBase. We start with the Portable BioBase Kit – an off-the-shelf portable solution that has everything you need
Too commonly we get files uploaded from customers that had either no sonar information or no GPS location in the file. This is typically due to some unit malfunction or user oversight of a disabled setting. If there is no GPS position or no sonar depth in the file, not surprisingly BioBase cannot create a map. Here we show some of the most common troubleshooting tips and tricks that will help you diagnose common issues with newer generation Lowrance and get you back to BioBasing on the water.
What is BioBase? BioBase uses off-the-shelf sonar technology and automatic cloud processing to create professional bathymetry, bottom composition, and aquatic vegetation maps. BioBase removes the labor intensive and high cost elements of acquiring high quality data very quickly so you can focus your efforts on aquatic resource management.
Guest Blog by Robert M. Baker, CPG, PG (a) and Penelope R. Baker (b)
(a) Professional geologist at RMBAKER LLC and Navico BioBase Ambassador
(b) Stanford University student, Ecology and Evolutionary Biology, Wildlife Photographer
BioBase is a cloud software that directly supports the preservation of our aquatic environments. Words like preservation and conservation directly imply things like careful planning, measuring and monitoring, treatment and rehabilitation – actionable strategies for the good of animals, plants and natural resources where BioBase can play an important role. BioBase offers an opportunity to observe natural systems, like seagrasses, not easily seen otherwise and does so effortlessly and affordably.
The waters of Western Port in southeastern Australia are a recreational fishing haven and hidden beneath its turbid waters, a unique fragile seafloor community has been newly described. Here, bryozoans, skeleton-forming filter-feeding organisms also known as ‘lace corals’, form expansive areas of reef that support a high diversity and abundance of macroinvertebrates important to snapper and other prized recreational fish species.
Figure 1: Underwater imagery of the bryozoan reefs revealed remarkable biogenic reef structures with abundant invertebrate life surrounded by large areas of bare sediment.
The rollout of the new BioBase EcoSound vegetation and bottom hardness algorithm required substantial refactoring of our core processing code. Read about the changes here. While we were under the hood, we took the opportunity to implement some enhancements that our frequent BioBase users should appreciate. NOTE: Users still select the unit (Imperial or Metric) in the primary user profile area of their BioBase account (My Account).
BioBase’s primary strength is its power as an automated processing engine delivering high quality geospatial data layers on aquatic habitats with very little user input outside of the physical effort to drive a boat and passively log sonar over an area of interest. In addition to the online analysis tools within BioBase like the polygon tool and automated statistical reports, users can export raw depth, vegetation, and bottom hardness data along their track, in X,Y,Z grid format, Google Earth imagery, Lowrance or Simrad Charts, AND NOW ESRI SHAPEFILES OF DEPTH CONTOURS! This feature has been in high demand for survey companies and governments who require detailed water volume analysis for aquatic habitat and fisheries management. Below we walk you through some helpful tips about the feature and how to use it.
Go To Tools – Export Data and click “Depth Shapefiles”
Example from a big lake:
D_Areas are polygon areas of each contour interval. Depending on your needs, you can calculate water volume by depth with the area of these “disks” or dissolve them to create a custom colored depth chart. D_Contours are contour polylines. NOTE: shapefile exports do not come with a projection and are in the WGS 84 global coordinate system (CRS 4326). If your GIS system doesn’t like you and says it can’t draw because there is no projection, select WGS84.
Example from a small pond:
5.8 acre (24,281 sq. m) pond as viewed in BioBaseExported 1ft contours. The user can control whether contours are in imperial or metric, but the values are always stored in metric (e.g., for the 1ft contour, the VALUE field in the attribute table will show 0.3048). For metric contours, they come out in 0.25m intervalsDepth Areas as polygons are also bundled into the zipped export. This will allow the user to carry out detailed water volume analysis as a function of depth with fewer post-processing steps than were originally required when data was only exportable as points. The VALUE field in the Attribute table is the Contour value in meters and VALUE2 is the outer range or deeper contour value of the Depth Area polygon.
BioBase continues its mission to deliver water and fisheries resource professionals high value data products in the hopes that you can focus less of your efforts on making maps and more on the important tasks of research and conservation.
At C-MAP, we are excited to announce the release of a new feature that allows users to export exact replicates of their BioBase EcoSound maps as Google Earth images (.kmz and .kml; Figure 1). This YouTube video will walk you through how it’s done.
Figure 1. Image of seagrass cover in Newport Bay, CA USA mapped with Lowrance, processed with BioBase EcoSound and exported as a Google Earth .kmz file. Example can be found in the free demo account on http://www.biobasemaps.com.
BioBase processed raw sonar logs and creates habitat maps with sophisticated algorithms. The outputs you see in BioBase are tiled georectified images (.png) of the outputs. The Google Earth feature converts the .png images to Google Earth’s .kml and .kmz file format. .kml downloads are smaller and reference the images on BioBase servers. .kmz downloads are larger and are exact copies of the images stored on our servers. The .kmz option is best for users who wish to archive local copies of their BioBase maps.
These images allow BioBase users to share spatial files with their stakeholders in a free Google format with which many are familiar and use regularly. Recipients can interact with the output zooming in and out to their desire and also adding custom logos and waypoints as they wish (Figure 2).
Figure 2. Add your own logos and other information to the Google Earth exported BioBase EcoSound image
Further, there are a range of open source tools that will convert .kml and .kmz to GIS files for use in ESRI and QGIS products. Given the popularity and widespread use of .kml and .kmz files, there are a range of other applications that we are eager to hear about. Please feel free to share in the comments below.
Converting EcoSound .kml/.kmz files to ESRI Layers (.lyr)
Special thank you to Kevin Johnson and Jennifer Moran at FL Fish and Wildlife Conservation Commission for sharing a tutorial about how to convert .kml/.kmz files to ESRI Layer (.lyr) files for analysis and overlays in ESRI GIS products:
Open ArcMap
Open ArcToolbox > Conversion Tools > From KML > KML to Layer
Input KML File
Toggle to saved .KML file Lake_Kerr_Biobase.kml (example) > Open
Output Location
Default output location is Documents\ArcGIS > Click the folder icon on right and toggle to appropriate folder
Output Data Name (Optional)
Will typically show the name of the kml, change if preferred
Select Checkbox for Include Ground Overlay (optional)
Only necessary for Raster data. Not necessary for lines/points/polygons
*This will take some time to process/load and will show up in ArcCatalog as “FileName.lyr”. Processing will depend on the file and image size. After it displays in the catalog, drag and drop or select Add Data to display the layer on the map.
**Arc GIS may shut down/disappear. You may not receive a green checkmark for execution completion. Reopen the program and go into your Catalog. Should not need to reconvert from .kml.
Lake Kerr (FL USA) aquatic vegetation heat map as seen in BioBaseLake Kerr (FL USA) aquatic vegetation heat map as seen in Google EarthLake Kerr (FL USA) aquatic vegetation heat map converted to a .lyr file in ArcGIS
Ok, it’s a bit overdue. But better late than never! BioBase customers will now see an updated and enhanced viewer for their EcoSound and EcoSat. No longer will users have to struggle to get their map to fit within the little square box of the old viewer with a Bing zoom level that either zoomed too close and cut off parts of the waterbody, or too far to see detail. Below we show you a few screenshots of the major improvements. You can see for yourself by logging into your own account or clicking the Log into DEMO button on the home page of biobasemaps.com, finding a waterbody of interest, and click on the Analyze/Edit button.
