Dataset: Clownfish Photos

Name: Clownfish photos from the West coast of Leyte, the Philippines in the municipalities of Albuera and Bay Bay City between 2015 and 2018
Published: 2022-11-21
Keywords: oceans

Cite This Dataset

DOI:10.26008/1912/bco-dmo.862334.1

Spatial Extent: N:11.0165 E:124.8083 S:10.6299 W:124.555

Temporal Extent: 2015-05-28 - 2018-04-10

Project:

RAPID: Mega-typhoon impacts on the metapopulation resilience of coral reef fishes (Reef Fish Resilience)

Principal Investigator:

Malin Pinsky (Rutgers University)

Co-Principal Investigator:

Michelle Stuart (Rutgers University)

BCO-DMO Data Manager:

Amber D. York (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Version:

Version Date:

2022-11-21

Restricted:

Validated:

Yes

Current State:

Final no updates expected

Clownfish photos from the West coast of Leyte, the Philippines in the municipalities of Albuera and Bay Bay City between 2015 and 2018

Abstract:

Clownfish photos taken in association with the clownfish log dataset (https://www.bco-dmo.org/dataset/781917) from the West coast of Leyte, the Philippines in the municipalities of Albuera (10.91667, 124.69667) and Bay Bay City (11.07611, 124.87525), 2015-2018.

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Archival Copy

Version Date	Archive	Persistent Identifier	Date Assigned
2022-11-21	Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)	10.26008/1912/bco-dmo.862334.1	2022-11-22

Description

Clownfish image zip files by year can be downloaded from the "Data Files" section of this page. This is an example clownfish image included in this dataset:

See Related Datasets and Supplemental Files sections for other data collected as part of the same transect and quadrant surveys.

Methods & Sampling

Photos taken of clownfish collected in the clownfish log dataset (https://www.bco-dmo.org/dataset/781917). Photo file numbers (e.g., img_XXX) are indicated in the clownfish log.

Location: West coast of Leyte, Philippines in the municipalities of Albuera (10.91667, 124.69667) and Bay Bay City (10.676940, 124.799170). Field seasons (SCUBA) in Leyte, Philippines to study coral reef fish resilience.

See the Supplemental Files section for species codes and tail codes used in this dataset along with the clownfish scientific names.

2015-2017 methods:

identified fish photos

- download fish photos from drive to laptop
- match photos with data sheet using time stamp and description of tail color
- Type in photo filename under column “file_name”
- use images to open identified photos
- in imagej, use caliper or paper lines (.45cm space between each line) to set scale
- using scale, measure fish from tip of nose to longest point on tail
- record measured length under column "imagej size"
- measure same fish from tip of nose to the crease or fold in tail
- record measured length under column "imagej forklength"
- repeat with each photo

2018 methods:

- download fish photos from drive to laptop
- match photos with data sheet using time stamp and description of tail color
- Type in photo filename under column “file_name”
- use images to open identified photos
- in imagej, use caliper or paper lines (.35cm space between each line) to set scale
- Using straight line tool, measured nose to point and nose to fork length
- Used freehand tool to draw around whole tail and measure function to calculate area
- If needed, measured small orange regions
- record measured length under column "imagej size"
- measure same fish from tip of nose to the crease or fold in tail
- record measured length under column "imagej forklength"
- repeat with each photo

Data Processing Description

BCO-DMO Data Manager Processing Notes:
* tables contained in the following excel files imported into the BCO-DMO data system and combined into one table served from this page. clownfish_photo_data_2015-2016.xlsx,clownfish_photo_data_2017.xlsx,clownfish_photo_data_2018.xlsx
* jpg extension added to filename data column.
* added image_folder column to indicate which folder within the .zip files the image is contained in.
* date format changed to ISO 8601 format yyyy-mm-dd
* replaced commas with semicolons within values
* column "greyed_out" removed upon submiter request as it was only useful to project management.

Data Files

File
Clownfish images 2015-05 filename: 2015_05_clownfish_images.zip (ZIP Archive (ZIP), 1.64 GB) MD5:e8dade78c37662ff738f07b69c725580 Clownfish photographs from May of 2015.
Clownfish images 2016 filename: 2016_clownfish_images.zip (ZIP Archive (ZIP), 2.11 GB) MD5:e7f77a1779c668079e8dd13f6593c4d9 Clownfish photographs from 2016. Note that all are unique images. For example, "MICR0001 (1).JPG" and "MICR0001 (2).JPG" are unique images not duplicate images.
Clownfish images 2017 filename: 2017_clownfish_images.zip (ZIP Archive (ZIP), 1.20 GB) MD5:6a3af15b017e7abc45591fa3494eb056 Clownfish photographs from May of 2017.
Clownfish images 2018 filename: 2018_clownfish_photos.zip (ZIP Archive (ZIP), 3.04 GB) MD5:c9c302afcd0cf23f831d368ed88049e2 Clownfish photographs from 2018. Note that all images are unique. For example "MICR0007 (1).jpg" and "MICR0007 (2).jpg" are not duplicates.
clownfish_photo_data.csv (Comma Separated Values (.csv), 651.19 KB) MD5:1e47bfcb12f0ea239785a6623f110fbc Primary data file for dataset ID 862334

Supplemental Files

File
Clownfish species codes filename: clownCodes.csv (Comma Separated Values (.csv), 310 bytes) MD5:09dd506d8c9a32ba238cbdb86b0cc90f A table containing clownfish species code, species name, and AphiaID (taxonomic identifier at the World Register of Marine Species (WoRMS, marinespecies.org). Column name and description: ClownCode, Clownfish species code Clownfish, Scientific name (Genus species) AphiaID, Taxonomic identifier for species (see World Register of Marine Species for more on Aphia IDs).
Clownfish Tail Codes filename: tailCodes.csv (Comma Separated Values (.csv), 327 bytes) MD5:72bb6046dac715e496cd32cc1de38345 A table containing clownfish tail codes and meanings. Column name and description: TailCode, Tail code Tail color, Description of tail including shape and color
Example clownfish image filename: MICR3381.JPG (JPEG Image (.jpg), 2.73 MB) MD5:3d22fb629d97fd38db2049ea9e9687eb This is an example image of a clownfish. This image is included in the image bundle 2015_05_clownfish_images.zip

More Information about this dataset

Funding Sources

Funding Source	Award Number
NSF Division of Ocean Sciences	OCE-1430218

Deployments

None available yet

Instruments

Underwater Camera

Supplied Name: Sealife Micro HD

Supplied Description:

Sealife Micro HD (13 megapixel photos, 1080p video, 140 degree super-wide photos)

Instrument Type

Generic Name: Underwater Camera

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/180/

Generic Description:

All types of photographic equipment that may be deployed underwater including stills, video, film and digital systems.

Parameters

Date and time formats are described in python strftime() syntax.

Supplied Name	Supplied description	Supplied Units	Standard Name
date	Date of observation (local time zone, UTC+8) in ISO 8601 format YYYY-MM-DD Format: %Y-%m-%d	unitless	date_local
obs_time	Time of observation (local time zone, UTC+8) in ISO 8601 format hh:mm:ss Format: %H:%M:%S	unitless	time_local
ISO_DateTime_UTC	Date and time of observation (UTC) in ISO 8601 format YYYY-MM-DDThh:mm:ssZ Format: %Y-%m-%dT%H:%M:%SZ	unitless	ISO_DateTime_UTC
sample_id	sample id number for fin-clip (if taken)	unitless	sample
tag_id	PIT tag number	unitless	sample_descrip
size	size measured in field	centimeters	sample_descrip
col	tail color noted in field (see supplemental files for tail codes)	unitless	sample_descrip
image_time	time photo was taken (local time zone, UTC+8) in ISO 8601 format hh:mm:ss Format: %H:%M:%S	unitless	time_local
image_name	photo file name	unitless	file_name
image_folder	Name of folder the image is contained in within the .zip file bundles (e.g. folder "2015_05_clownfish_images" is contained in zip file bundle 2015_05_clownfish_images.zip)	unitless	sample_descrip
fish_table_id	Identifier for fish table. This fish_table_id is also in the "clownfish log" dataset https://www.bco-dmo.org/dataset/781917.	unitless	sample_descrip
gen_id	genotype identification number	unitless	sample_descrip
color	tail color noted in field	unitless	sample_descrip
site	Site name	unitless	site
fish_notes	Fish notes	unitless	comment
dive_notes	Dive notes	unitless	comment
notes	additional notes	unitless	comment
unprocessed_images	Other images for fish that were not processed	unitless	sample_descrip
imagej_size	total length measured from the image using imageJ	centimeters	fish_len
imagej_forklength	fork length measured from the image using imageJ	centimeters	length
tail_spread	is the tail spread out so that it is all visible	unitless	sample_descrip
tail_area	area of the tail calculated using imageJ	square cm (cm2)	sample_descrip
orange_area	area of the tail that is orange calculated using imageJ	square cm (cm2)	sample_descrip
file_analyzer	Initials of the person who examined the photo	unitless	person
imageJ_collector	initials of the person who ran the imageJ script	unitless	person
color_disagreement	A flag to indicate if the tail color listed on the field datasheet does not match the color interpreted from the photo. If there is disagreement, further review would be required to A) make sure the photo is actually of that fish B) discover why there would be a difference between the field collector's interpretation and the photo reviewer's interpretation (sometimes fish size or other fish present on the anemone influence the field collector's interpretation; for example, we do not expect two large females on one anemone). A "Y", "N", or a photo reviewer's initials indicate a disagreement.	unitless	sample_descrip
photo_color	The clownfish tail color interpreted from the photo	unitless	sample_descrip
Example_Photo	The image selected by the photo reviewer as the best of this particular fish	unitless	sample_descrip

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Dataset: Clownfish Photos