Dataset: Video Plankton Recorder raw data

Name: Video Plankton Recorder (VPR) raw data file collection from R/V Oceanus OC404-01, OC404-04, OC415-01, OC415-03 in the Sargasso Sea, 2004-2005 (EDDIES project)
Published: 2007-10-25
Keywords: oceans

Cite This Dataset

Project:

Eddies Dynamics, Mixing, Export, and Species composition (EDDIES)

Program:

Ocean Carbon and Biogeochemistry (OCB)

Principal Investigator:

Cabell S. Davis (Woods Hole Oceanographic Institution, WHOI)

Co-Principal Investigator:

Dennis J. McGillicuddy (Woods Hole Oceanographic Institution, WHOI)

BCO-DMO Data Manager:

Cynthia L. Chandler (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Version:

25 October 2007

Version Date:

2007-10-25

Validated:

Yes

Current State:

Final no updates expected

Data URL:

https://www.bco-dmo.org/dataset/3033/data

Video Plankton Recorder (VPR) raw data file collection from R/V Oceanus OC404-01, OC404-04, OC415-01, OC415-03 in the Sargasso Sea, 2004-2005 (EDDIES project)

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Description

EDDIES OC404 and OC415 cruises
VPR raw data files

PI: Cabell Davis (WHOI)

25 October 2007: Prepared for OCB data system by Cyndy Chandler, BCO-DMO (MCG Dept, WHOI).

Video Plankton Recorder (VPR) Raw Data File Collection

The WHOI Ocean Instruments Web site has a general description of the VPR.

The VPR data files have not been processed yet for the EDDIES cruises. A complete set of raw data files for each cruise is available from the links below. There are two links for each cruise: (1) a .tar.gz (UNIX compressed file archive) and (2) a text file listing the files in each compressed archive.

Each OC404 (2 cruises in 2004) VPR file set includes these subdirectories:
nnpar/
processed/
rois/

and these zipped file archives:
Autoid.zip
calibration.zip
Nnpar.zip
tefeature.zip
Trrois.zip
Vprlog.zip

Each OC415 (2 cruises in 2005) VPR file set includes:
a VPRstartup_readme.txt file
and these subdirectories:
calibration
processed
rois
trois
vprlog

The raw VPR data file collection organized by cruise

The VPR files for each cruise are packaged into several tar files to keep the size of the individual tar archives below the 2 GB maximum for the data server.

Cruise ID	Listing of Files in Compressed tar	Compressed tar of VPR Data Files
OC404-1 2004 Survey 1 Total size: 16 GB	part 1 listing (< 1 MB) part 2 listing (< 1 MB) part 3 listing (< 1 MB) part 3B listing (< 1 MB) part 4 listing (< 1 MB) part 4B listing (< 1 MB) part 5 listing (< 1 MB) part 5B listing (< 1 MB) part 6 listing (< 1 MB) part 6B listing (< 1 MB) part 7 listing (< 1 MB) part 8 listing (< 1 MB)	data part 1 (1.0 GB) data part 2 (1.6 GB) data part 3 (1.0 GB) data part 3B (1.4 GB) data part 4 (2.0 GB) data part 4B (.8 GB) data part 5 (.7 GB) data part 5B (1.4 GB) data part 6 (.7 GB) data part 6B (1.9 GB) data part 7 (1.9 GB) data part 8 (1.8 GB)
OC404-4 2004 Survey 2 Total size: 4.1 GB	part 1 listing (< 1 MB) part 2 listing (< 1 MB) part 3 listing (2 MB)	data part 1 (291 MB) data part 2 (1.7 GB) data part 3 (1.6 GB)
OC415-1 2005 Survey 1 Total size: 6.2 GB	part 1 listing (15 MB) part 2 listing (7 MB) part 3 listing (7 MB)	data part 1 (1.6 GB) data part 2 (763 MB) data part 3 (748 MB)
OC415-3 2005 Survey 2 Total size: 3.4 GB	archive listing (15 MB)	data files (1.6 GB all in one archive)

Hint: To work with the raw files files, make a separate subdirectory for the cruise and download the compressed data file tar files to that cruise subdirectory. Then decompress and unpack only the .tar.gz files for that cruise into that cruise subdirectory. For example, to work with the VPR data files from OC415-1, the 2005 Survey 1 cruise, on a linux system:

mkdir OC415-1; cd OC415-1
download all the 3 .tar.gz files for cruise OC415-1 . . .
gunzip oc415_1.raw_part1.tar.gz
tar -xvf oc415_1.raw_part1.tar
repeat for each oc415_1.raw_part*.tar file

After all the OC415-1 tar files are unpacked, they will require about 3.4 GB of disk space (the Total size noted in column 1), and you should have a collection of subdirectories similar to those listed above for OC415 VPR file set.

Contact:

Anyone trying to use these raw VPR files is encouraged to contact either Dennis McGillicuddy or Cabell Davis with any questions.

Dennis McGillicuddy
Applied Ocean Physics & Engineering
Woods Hole Oceanographic Institution
MS #11, Bigelow 209A
Woods Hole, Ma. 02543

mcgillic@whoi.edu
Office Phone: +1 508 289 2683
http://www.whoi.edu/profile.do?id=dmcgillicuddy

Cabell S. Davis
Biology Department
Woods Hole Oceanographic Institution
MS #33, Redfield 2-20
Woods Hole, Ma. 02543

cdavis@whoi.edu
Office Phone: +1 508 289 2333
http://www.whoi.edu/profile.do?id=cdavis

More Information about this dataset

Funding Sources

None available yet

Deployments

Deployment	Synonyms	Start Date	Platform	Investigator
OC404-01	EDDIES 2004 Survey 1 OC404-1 OC404_S1	2004-06-11	R/V Oceanus	Dennis J. McGillicuddy (Chief Scientist)	data info
OC404-04	EDDIES 2004 Survey 2 OC404-4 OC404_S2	2004-07-25	R/V Oceanus	Dennis J. McGillicuddy (Chief Scientist)	data info
OC415-01	EDDIES 2005 Survey 1 OC415-1 OC415_S1	2005-06-20	R/V Oceanus	Dennis J. McGillicuddy (Chief Scientist)	data info
OC415-03	EDDIES 2005 Survey 2 OC415-3 OC415_S2	2005-08-07	R/V Oceanus	Dennis J. McGillicuddy (Chief Scientist)	data info

Instruments

Video Plankton Recorder

Supplied Description:

Instrument Type

Generic Name: Video Plankton Recorder

Acronym: VPR

Generic Description:

The Video Plankton Recorder (VPR) is a video-microscope system used for imaging plankton and other particulate matter in the size range from a few micrometers to several centimeters. The VPR is essentially an underwater microscope. It consists of four video cameras (with magnifying optics) synchronized at 60 fields per second (fps) to a red-filtered 80 W xenon strobe (pulse duration = 1 microsecond). The current lens on each camera can be adjusted to provide a field of view between 5 mm and 10 cm. Use of higher magnification lenses is currently being explored for viewing protozoans (less than 1 micrometer resolution). The four cameras are set for concentric viewing fields so that a range of up to four magnifications can be viewed simultaneously, allowing a wide size range of plankton to be sampled. Depth of field is adjusted by the lens aperture setting, and the volume sampled in each video field ranges from about 1 ml to 1 liter, depending on lens settings. The cameras have been configured for stereoscopic viewing as well.A strobe on the other arm illuminates the imaged volume and flashes 60 times per second, producing 60 images per second of the particles and plankton in the water. The images are then saved internally on a computer hard disk and later plotted.

Deployment: Most commonly, the VPR is mounted in a frame and lowered into the water from the stern of the ship. Sometimes, a CTD also is mounted next to the VPR to collect depth, temperature, and salinity information at the same time as each video image. The instrument is lowered down through the water to a maximum depth of 350 meters to generate a profile of plankton/particle abundance and taxon group along with temperature and salinity. In addition to the towed configuration for mapping plankton distributions, it is possible to deploy the VPR in a fixed position (on a mooring) for viewing plankton swimming behaviors in two or three dimensions. The VPR instrument system has been used in both configurations, and deployment on ROVs has been proposed.

This definition was taken from the WHOI Ocean Instruments Web site and from a US GLOBEC Newsletter.

Parameters

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