Shallow ATRIS Seafloor Images - West Turtle Shoal Patch Reef, Rawa PatchReef, Dustan Rocks Patch Reef, and Thor Patch Reef, Florida, 2011

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Metadata:

Identification_Information
Data_Quality_Information
Spatial_Data_Organization_Information
Spatial_Reference_Information
Entity_and_Attribute_Information
Distribution_Information
Metadata_Reference_Information

Identification_Information:

Citation:

Citation_Information:

Originator: U.S. Geological Survey
Publication_Date: 20161215
Title:

Shallow ATRIS Seafloor Images - West Turtle Shoal Patch Reef, Rawa PatchReef, Dustan Rocks Patch Reef, and Thor Patch Reef, Florida, 2011

Edition: first
Geospatial_Data_Presentation_Form: remote-sensing image
Series_Information:

Series_Name: U.S. Geological Survey Data Release
Issue_Identification: doi:10.5066/F73N21H0

Publication_Information:

Publication_Place: St. Petersburg, FL
Publisher: U.S. Geological Survey

Online_Linkage: https://doi.org/10.5066/F73N21H0

Description:

Abstract:

Underwater digital images, single-beam bathymetry, and global-positioning system (GPS) data were collected September 29-30, 2011 around Dustan Rocks Patch Reef, Thor Patch Reef, West Turtle Shoal Patch Reef, and Rawa Patch Reef in the Florida Keys. A total of 101,734 images were collected, covering 4672 square meteres (m2) of reef habitat. This data release contains a subset of 1,420 images, organized into four sets: Track1, Track2, Track3, and Track4. These images were used for coral bleaching assessments, contain GPS data and also include additional, survey-specific Exchangable Image File format (EXIF) header information. The data were collected using the USGS shallow Along-Track Reef-Imaging System (sATRIS), a boat-based, pole-mounted sensor package for mapping shallow-water benthic environments. Two other implementations exist: A towed system called Deep ATRIS and a profiling system called Drift ATRIS. All three ATRIS implementations incorporate a digital still camera, a video camera, and an acoustic depth sounder. In this study, sATRIS images were collected at a rate of 10 hertz (Hz), the single-beam depth soundings at 10 Hz, and the GPS data at 1 Hz. The survey was conducted using the USGS research vessel (R/V) Halimeda, running at a nominal speed of 2 knots.

Purpose:

These data were collected to support a collaborative project between the U.S. Geological Survey, St. Petersburg Costal and Marine Science Center and the Coral Reef Evaluation and Monitoring Project (CREMP) of the Florida Fish and Wildlife Research Institute. The purpose of this study, was to evaluate the effectiveness of the Along-Track Reef Imaging System (ATRIS), an automated image-acquisition technology, for assessing a moderate bleaching event that occurred in the summer of 2011 in the Florida Keys. Data obtained from ATRIS were compared to diver-based bleaching assessments conducted contemporaneously by the Florida Reef Resilience Program (FRRP). More than 100,000 images were collected over 2.7 km of transects spanning four patch reefs in a 3-hour period. Corals were assigned to one of four categories: not bleached, pale, partially bleached, and bleached. This dataset was acquired during USGS field activity number 11CRE05, additional survey and data details are available at http://cmgds.marine.usgs.gov/fan_info.php?fan=11CRE05.

Supplemental_Information:

ATRIS images are saved in the Joint Photographic Experts Group (JPEG) format using a quality factor of 1000 (highest quality/minimal compression). Since the camera and depth sounder are co-located, sounding data corresponds to the distance of the camera above the seafloor. Because the camera and depth sounder are separated from the GPS antenna (Ashtech Geodetic IV antenna, Part Number 701975-01) by a fixed distance (521.5 cm), water depth can be estimated from these distance measurements. GPS position, collection date and time, and camera distance-above-seafloor are stored in the EXIF header of each image. Note: the cited cross reference primarily discusses Deep ATRIS, however, the same camera and control software are used for sATRIS. More information on ATRIS can be found in Lidz and Zawada 2013, and Zawada 2003.

Time_Period_of_Content:

Time_Period_Information:

Multiple_Dates/Times:

Single_Date/Time:

Calendar_Date: 20110929

Single_Date/Time:

Calendar_Date: 20110930

Currentness_Reference: ground condition

Status:

Progress: Complete
Maintenance_and_Update_Frequency: None planned

Spatial_Domain:

Bounding_Coordinates:

West_Bounding_Coordinate: -81.05149124
East_Bounding_Coordinate: -80.93480663
North_Bounding_Coordinate: 24.7181095
South_Bounding_Coordinate: 24.67076243

Keywords:

Theme:

Theme_Keyword_Thesaurus: USGS Metadata Identifier
Theme_Keyword: USGS:3e3e046e-060e-499a-a75b-fd2d637fd031

Theme:

Theme_Keyword_Thesaurus: ISO 19115 Topic Category
Theme_Keyword: oceans
Theme_Keyword: geoscientificInformation
Theme_Keyword: imageryBaseMapsEarthCover

Theme:

Theme_Keyword_Thesaurus: USGS Thesaurus
Theme_Keyword: aquatic biology
Theme_Keyword: marine geology
Theme_Keyword: remote sensing

Theme:

Theme_Keyword_Thesaurus: None
Theme_Keyword: sATRIS
Theme_Keyword: shallow Along-Track Reef Imaging System
Theme_Keyword: remote sensing
Theme_Keyword: seafloor imagery
Theme_Keyword: habitat mapping
Theme_Keyword: benthic surveys
Theme_Keyword: digital imagery
Theme_Keyword: shallow-marine habitat mapping
Theme_Keyword: bleaching assessment
Theme_Keyword: coral bleaching
Theme_Keyword: coral reef monitoring

Theme:

Theme_Keyword_Thesaurus: Global Change Master Science Directory
Theme_Keyword: OCEAN > BATHYMETRY/SEAFLOOR TOPOGRAPHY > BATHYMETRY
Theme_Keyword: OCEAN > COASTAL PROCESSES > CORAL REEFS
Theme_Keyword:

DOI/USGS/CMG > COASTAL AND MARINE GEOLOGY, U.S. GEOLOGICAL SURVEY, U.S. DEPARTMENT OF INTERIOR

Theme:

Theme_Keyword_Thesaurus: GCMD Instrument
Theme_Keyword:

EARTH REMOTE SENSING INSTRUMENTS > PASSIVE REMOTE SENSING > PHOTON/OPTICAL DETECTORS > CAMERAS > CAMERAS

Place:

Place_Keyword_Thesaurus: Geographic Names Information System
Place_Keyword: West Turtle Shoal Patch Reef
Place_Keyword: Rawa Patch Reef
Place_Keyword: Dustan Rocks Patch Reef
Place_Keyword: Thor Patch Reef
Place_Keyword: Florida Keys
Place_Keyword: Florida

Stratum:

Stratum_Keyword_Thesaurus: Oregan Geospatial Enterprise Office (GEO) Stratum Keyword
Stratum_Keyword: epipelagic

Temporal:

Temporal_Keyword_Thesaurus: none
Temporal_Keyword: 2011

Access_Constraints: None
Use_Constraints:

Public domain data from the U.S. Government are freely redistributable with proper metadata and source attribution. The U.S. Geological Survey requests to be acknowledged as originator of these data in future products or derivative research.

Point_of_Contact:

Contact_Information:

Contact_Person_Primary:

Contact_Person: David Zawada
Contact_Organization:

U.S. Geological Survey, St. Petersburg Coastal and Marine Science Center, St. Petersburg, FL

Contact_Position: Research Oceanographer
Contact_Address:

Address_Type: mailing and physical address
Address: 600 4th Street South
City: St. Petersburg
State_or_Province: FL
Postal_Code: 33701
Country: USA

Contact_Voice_Telephone: 727 502-8132
Contact_Facsimile_Telephone: 727 502-8181
Contact_Electronic_Mail_Address: dzawada@usgs.gov
Hours_of_Service: M-F, 9:00-5:00 ET

Data_Set_Credit:

Acknowledgment of the U.S. Geological Survey, St. Petersburg Coastal and Marine Science Center, as a data source would be appreciated in products developed from these data, and such acknowledgment as is standard for citation and legal practices for data source is expected. Sharing of new data layers developed directly from these data would also be appreciated by the U.S. Geological Survey staff. Users should be aware that comparisons with other datasets for the same area from other periods may be inaccurate because of inconsistencies resulting from changes in photointerpretation, mapping conventions, and digital processes over time. These data are not legal documents and are not to be used as such.

Security_Information:

Security_Classification_System: Unclassified
Security_Classification: Unclassified
Security_Handling_Description: None

Native_Data_Set_Environment:

Microsoft Windows 7 Enterprise Service Pack 1; Esri ArcCatalog 10.4.1

Cross_Reference:

Citation_Information:

Originator: Lidz, BH and Zawada DG
Publication_Date: 2013
Title:

Possible Return of Acropora cervicornis at Pulaski Shoal, Dry Tortugas National Park, Florida

Series_Information:

Series_Name: Journal of Coastal Research
Issue_Identification: v. 29, p. 256-271

Online_Linkage: https://doi.org/10.2112/JCOASTRES-D-12-00078.1

Cross_Reference:

Citation_Information:

Originator: Zawada D.G.
Publication_Date: 2003
Title: Image processing of underwater multispectral imagery
Series_Information:

Series_Name: IEEE Journal. of Oceanic Engineering
Issue_Identification: v. 28 (4), p. 583-594

Online_Linkage: 10.1109/JOE.2003.819157

Cross_Reference:

Citation_Information:

Originator: Zawada, D.G., Ruzicka, R., and Colella, M.A.
Publication_Date: 2015
Title:

A comparison between boat-based and diver-based methods for quantifying coral bleeching

Series_Information:

Series_Name: Journal of Experimental Marine Biology and Ecology
Issue_Identification: v. 30, p. 39-44

Data_Quality_Information:

Attribute_Accuracy:

Attribute_Accuracy_Report:

All soundings were collected with an Airmar EchoRange SS510 Smart Sonar Depth Sensor. Manufacturer specifications state a 9° beam angle; a depth reading range of 0.4m to 200m; a depth resolution of 0.01m; a depth precision of 0.25% at full range; and a frequency of 200 kHz.

Logical_Consistency_Report:

Data cover area specified for this project without known issues.

Completeness_Report:

Some of the sATRIS images collected during this survey did not have GPS and/or depth sounder data, due to drop-outs or recording errors. Images without GPS data could not be differentially corrected, and no water depths were computed for them, so they were excluded from this data release.

Positional_Accuracy:

Horizontal_Positional_Accuracy:

Horizontal_Positional_Accuracy_Report: Sub-decimeter in horizontal accuracy.

Vertical_Positional_Accuracy:

Vertical_Positional_Accuracy_Report:

Typically, sub-decimeter vertical elevation accuracies for these data are based on analysis of survey-line crossings. Vertical accuracies may differ based on the type of terrain and the accuracy of the GPS measurements.

Lineage:

Process_Step:

Process_Description:

High-resolution, geo-located images of the seafloor were captured between September 29-30, to characterize the seafloor and ground truth benthic habitat mapping efforts. The sATRIS was deployed from the USGS R/V Halimeda following pre-determined survey tracklines. GPS data were simultaneously collected at a fixed land-based location (24° 43' 2.85569", -81° 05' 2.36802") and on the R/V Halimeda during image and bathymetry acquisition using Ashtech Z-Xtreme GPS receivers. In this study, sATRIS images were collected at a rate of 10 hertz (Hz), the single-beam depth soundings at 10 Hz, and the GPS data at 1 Hz. The GPS data were differentially corrected using GrafNav Version 8.40.5121, converted to the North American Datum of 1983(CORS96) and the North American Vertical Datum of 1988 (using the GEOID12A model) using in-house software, and have sub-decimeter accuracy. Please note that these data are not suitable for navigational use, nor for determining absolute elevation measurements.

Process_Date: 20111005
Process_Contact:

Contact_Information:

Contact_Person_Primary:

Contact_Person: BJ Reynolds
Contact_Organization:

U.S. Geological Survey, St. Petersburg Coastal and Marine Science Center, St. Petersburg, FL

Contact_Position: Engineering Technician
Contact_Address:

Address_Type: mailing and physical address
Address: 600 4th Street South
City: St. Petersburg
State_or_Province: FL
Postal_Code: 33701
Country: USA

Contact_Voice_Telephone: 727 502-8067
Contact_Electronic_Mail_Address: breynolds@usgs.gov
Hours_of_Service: M-F, 8:00-4:00 ET

Process_Step:

Process_Description:

Raw sATRIS images exhibit barrel distortion due to the wide-angle camera lens. Images were corrected using an in-house image de-warping algorithm (see Zawada, D.G. 2003). These data are stored on hard drives and archived at the U.S. Geological Survey office in St. Petersburg, Florida.

Process_Date: 20160808
Process_Contact:

Contact_Information:

Contact_Person_Primary:

Contact_Person: David Zawada
Contact_Organization:

U.S. Geological Survey, St. Petersburg Coastal and Marine Science Center, St. Petersburg, FL

Contact_Position: Research Oceanographer
Contact_Address:

Address_Type: mailing and physical address
Address: 600 4th Street South
City: St. Petersburg
State_or_Province: FL
Postal_Code: 33701
Country: USA

Contact_Voice_Telephone: 727 502-8132
Contact_Electronic_Mail_Address: dzawada@usgs.gov
Hours_of_Service: M-F, 9-5 ET

Process_Step:

Process_Description:

Water depths were computed for each sATRIS image with valid, differentially-corrected GPS and depth-sounder data using in-house-developed software. Not all images have valid GPS and/or sounder data. These images could not be differentially-corrected, and no water depths were computed for them. These data are stored on hard drives and archived at the U.S. Geological Survey office in St. Petersburg, Florida.

Process_Date: 20111118
Process_Contact:

Contact_Information:

Contact_Person_Primary:

Contact_Person: Dave Zawada
Contact_Organization:

U.S. Geological Survey, St. Petersburg Coastal and Marine Science Center, St. Petersburg, FL

Contact_Position: Research Oceanographer
Contact_Address:

Address_Type: mailing and physical address
Address: 600 4th Street South
City: St. Petersburg
State_or_Province: FL
Postal_Code: 33701
Country: USA

Contact_Voice_Telephone: 727 502-8132
Contact_Electronic_Mail_Address: dzawada@usgs.gov
Hours_of_Service: M-F, 9-5 ET

Process_Step:

Process_Description:

Additional Exif headers information was added to images using ExifTool by Phil Harvey (http://www.sno.phy.queensu.ca/~phil.exiftool). A Java program was developed by USGS staff to make the Exif header editing process faster and more automated. The tags we populated in the headers are: Caption, Artist, Credit, Copyright, CopyrightNotice, Comment, Keywords, Contact, Caption-Abstract, GPSLatitude, GPSLatitudeRef, GPSLongitude, GPSLongitudeRef, GPSAltitude, GPSAltitudeRef, SubjectDistance, GPSTimeStamp, GPSDateStamp.

Process_Date: 20160825
Process_Contact:

Contact_Information:

Contact_Person_Primary:

Contact_Person: Dave Zawada
Contact_Organization:

U.S. Geological Survey, St. Petersburg Coastal and Marine Science Center, St. Petersburg, FL

Contact_Position: Research Oceanographer
Contact_Address:

Address_Type: mailing and physical address
Address: 600 4th Street South
City: St. Petersburg
State_or_Province: FL
Postal_Code: 33701
Country: USA

Contact_Voice_Telephone: 727 502-8132
Contact_Electronic_Mail_Address: dzawada@usgs.gov
Hours_of_Service: M-F, 9:00-5:00 ET

Process_Step:

Process_Description:

A Java program was developed to extract only the images that were both used for the coral bleaching assessment, and contained valid GPS and depth data. This subset of images is all that is available in this data release.

Process_Date: 20161012
Process_Contact:

Contact_Information:

Contact_Person_Primary:

Contact_Person: Dave Zawada
Contact_Organization:

U.S. Geological Survey, St. Petersburg Coastal and Marine Science Center, St. Petersburg, FL

Contact_Position: Research Oceanographer
Contact_Address:

Address_Type: mailing and physical address
Address: 600 4th Street South
City: St. Petersburg
State_or_Province: FL
Postal_Code: 33701
Country: USA

Contact_Voice_Telephone: 727 502-8132
Contact_Electronic_Mail_Address: dzawada@usgs.gov
Hours_of_Service: M-F, 9:00-5:00 ET

Process_Step:

Process_Description: Metadata created in Notepad++
Process_Date: 20161027
Process_Contact:

Contact_Information:

Contact_Person_Primary:

Contact_Person: David Zawada
Contact_Organization:

U.S. Geological Survey, St. Petersburg Coastal and Marine Science Center, St. Petersburg, FL

Contact_Position: Research Oceanographer
Contact_Address:

Address_Type: mailing and physical address
Address: 600 4th Street South
City: St. Petersburg
State_or_Province: FL
Postal_Code: 33701
Country: USA

Contact_Voice_Telephone: 727 502-8132
Contact_Electronic_Mail_Address: dzawada@usgs.gov
Hours_of_Service: M-F, 9:00-5:00 ET

Process_Step:

Process_Description:

Added keywords section with USGS persistent identifier as theme keyword.

Process_Date: 20201013
Process_Contact:

Contact_Information:

Contact_Organization_Primary:

Contact_Organization: U.S. Geological Survey
Contact_Person: VeeAnn A. Cross

Contact_Position: Marine Geologist
Contact_Address:

Address_Type: Mailing and Physical
Address: 384 Woods Hole Road
City: Woods Hole
State_or_Province: MA
Postal_Code: 02543-1598

Contact_Voice_Telephone: 508-548-8700 x2251
Contact_Facsimile_Telephone: 508-457-2310
Contact_Electronic_Mail_Address: vatnipp@usgs.gov

Spatial_Data_Organization_Information:

Indirect_Spatial_Reference: Image
Direct_Spatial_Reference_Method: Raster

Spatial_Reference_Information:

Horizontal_Coordinate_System_Definition:

Geographic:

Latitude_Resolution: .0000001
Longitude_Resolution: .0000001
Geographic_Coordinate_Units: Decimal degrees

Geodetic_Model:

Horizontal_Datum_Name: North American Datum of 1983 (CORS96)
Ellipsoid_Name: Geodetic Reference System 80
Semi-major_Axis: 6378137.0
Denominator_of_Flattening_Ratio: 298.257222101

Vertical_Coordinate_System_Definition:

Altitude_System_Definition:

Altitude_Datum_Name: North American Vertical Datum of 1988 (GEOID09)
Altitude_Resolution: 0.20
Altitude_Distance_Units: meters
Altitude_Encoding_Method:

Explicit elevation coordinate included with horizontal coordinates

Entity_and_Attribute_Information:

Overview_Description:

Entity_and_Attribute_Overview:

Each image EXIF header contains: comment, artist, image description, copyright, credit, contact, keywords, caption, GPS latitude, GPS longitude, GPS latitude reference, GPS longitude reference, water depth (labeled as "GPS altitude"), GPS altitude reference, camera distance-to-seafloor (labeled as "subject distance"), GPS image direction, GPS time stamp, and GPS date stamp.

Entity_and_Attribute_Detail_Citation:

To extract the information from the image headers using ExifTool, the following command can be used (tested with ExifTool version 9.4.6.0): exiftool.exe -csv -f -filename -GPSTimeStamp -GPSDateStamp -GPSLongitude -GPSLongitudeRef -GPSLatitude -GPSLatitudeRef -GPSImageDirection -GPSAltitude -GPSAltitudeRef -n -SubjectDistance -Artist -Credit -Comment -Keywords -Caption -Copyright -CopyrightNotice -Caption -Contact -ImageDescription directoryname/*.jpg > out.csv > The -csv flag writes the information out in a comma-delimited format. The -n option formats the latitude and longitude as signed decimal degrees.

Distribution_Information:

Distributor:

Contact_Information:

Contact_Organization_Primary:

Contact_Organization: U.S. Geological Survey
Contact_Person: David Zawada

Contact_Position: Research Oceanographer
Contact_Address:

Address_Type: mailing and physical address
Address: 600 4th Street South
City: St. Petersburg
State_or_Province: FL
Postal_Code: 33701
Country: USA

Contact_Voice_Telephone: 727 502-8132
Hours_of_Service: M-F, 9:00-5:00 ET

Resource_Description:

FRRP2011_ATRIS_track1, FRRP2011_ATRIS_track2, FRRP2011_ATRIS_track3, FRRP2011_ATRIS_track4

Distribution_Liability:

Although these data have been processed successfully on a computer system at the U.S. Geological Survey (USGS), no warranty expressed or implied is made regarding the display or utility of the data on any other system, or for general or scientific purposes, nor shall the act of distribution constitute any such warranty. The USGS shall not be held liable for improper or incorrect use of the data described or contained herein. Any use of trade, firm, or product names is for descriptive purposes only and does not imply endorsement by the U.S. Government.

Standard_Order_Process:

Digital_Form:

Digital_Transfer_Information:

Format_Name: JPEG
Format_Specification: JPEG
Format_Version_Number: 1

Digital_Transfer_Option:

Online_Option:

Computer_Contact_Information:

Network_Address:

Network_Resource_Name:

http://coastal.er.usgs.gov/data-release/doi-F73N21H0/data/FRRP2011_ATRIS_Track1.zip

Network_Resource_Name:

http://coastal.er.usgs.gov/data-release/doi-F73N21H0/data/FRRP2011_ATRIS_Track2.zip

Network_Resource_Name:

http://coastal.er.usgs.gov/data-release/doi-F73N21H0/data/FRRP2011_ATRIS_Track3.zip

Network_Resource_Name:

http://coastal.er.usgs.gov/data-release/doi-F73N21H0/data/FRRP2011_ATRIS_Track4.zip

Fees: None
Ordering_Instructions: Contact U.S. Geological Survey.
Turnaround: Vary

Custom_Order_Process: Contact U.S. Geological Survey for details.

Metadata_Reference_Information:

Metadata_Date: 20201013
Metadata_Contact:

Contact_Information:

Contact_Person_Primary:

Contact_Person: David Zawada
Contact_Organization:

U.S. Geological Survey, St. Petersburg Coastal and Marine Science Center, St. Petersburg, FL

Contact_Position: Research Oceanographer
Contact_Address:

Address_Type: mailing and physical address
Address: 600 4th Street South
City: St. Petersburg
State_or_Province: FL
Postal_Code: 33701
Country: USA

Contact_Voice_Telephone: 727 502-8132
Contact_Electronic_Mail_Address: dzawada@usgs.gov
Hours_of_Service: M-F, 9:00-5:00 ET

Metadata_Standard_Name: Content Standard for Digital Geospatial Metadata
Metadata_Standard_Version: FGDC-STD-001-1998
Metadata_Time_Convention: local time

This page is <https://cmgds.marine.usgs.gov/catalog/spcmsc/FRRP2011_ATRIS_metadata.html>