In lifewatch/lwdataexplorer: Access to data from the LifeWatch Data Explorer

knitr::opts_chunk$set(
  collapse = TRUE,
  comment = "#>",
  warning = FALSE,
  message = FALSE
)

Data collected by the MIDAS underway continuous sampling system on the RV Zeeleeuw and RV Simon Stevin:

• Partners: Flanders Marine Institute (VLIZ)
• Period: since January 2001
• Geographical coverage: Belgian Exclusive Economic Zone (EEZ), United Kingdom EEZ, French EEZ and Dutch EEZ
• Taxonomic coverage: Abiotic data only
• Moratorium: None
• Data quality: use for exploratory testing only

How to interpret this dataset

Query options

• Timeframe: Starting and stopping date for the query.
• Sample period: Counts aggregated. One of 1 day, 60 min, 10 min or 1 min.

Available columns

• Time: .Time in UTC, beginning of sample time period.
• Latitude: Center latitude in decimal degrees, WGS84.
• Longitude: Center longitude in decimal degrees, WGS84.
• Temperature: Temperature of the water body, expressed in degrees Celcius.
• Salinity: Salinity of the water body, expressed in PSU.
• Conductivity: Conductivity of the water body, expressed in ms/cm.
• Depth: Depth between the echosounder and the bottom, measured by echosounder 200 kHz, expressed in m.
• ChlorophylA: Concentration of Chlorophyll A, based on fluoresence, measured by SBE21, expressed in µg/L.
• SpeedMadeGood: Average speed of the research vessel between a time interval of 5 seconds, expressed in knots.
• Speedlog: Speed of water, relative to the hull of the RV Simon Stevin, expressed in knots.
• TrueWindDir: Direction of the wind in deg.
• TrueWindSpeed: Speed of the wind in m/s.
• CourseMadeGood: Average heading of the research vessel between a time interval of 5 seconds, expressed in degrees.
• Gyro: Exact heading of the research vessel, measured by Gyro, expressed in degrees.
• AirTemperature: Temperature of air, expressed in degrees Celcius.
• AirPressure: Atmospheric pressure of the air, expressed in mBar.
• AirHumidity: Relative humidity of the air, expressed in %.

Abstract

# Get the abstract and/or description from IMIS and print here
library(jsonlite)

dasid <- fromJSON("https://www.vliz.be/en/imis?module=dataset&dasid=57&show=json")

abstract <- dasid[["datasetrec"]][["EngAbstract"]]
description <- dasid[["datasetrec"]][["EngDescr"]]

if (is.null(abstract) & is.null(description)){

} else if(is.null(abstract) & !is.null(description)){
  out <- description
} else if(!is.null(abstract) & is.null(description)){
  out <- abstract
} else if(!is.null(abstract) & !is.null(description)){
  out <- paste0(abstract, "</br>", description)
}

cat(out)

How to cite these data

library(jsonlite)

# Set base url 5251 4688
url <- "https://www.vliz.be/en/imis?module=dataset&dasid=57"
dasid <- fromJSON(paste0(url, "&show=json"))

# Build citation. Get active DOI.
doi <- dasid[["dois"]]
doi <- subset(doi, doi$CurrentDOI == 1)$DOI
doi <- paste0("https://doi.org/", doi)
citation <- dasid[["datasetrec"]][["Citation"]]
citation <- paste0("> ", citation, " ", doi, 
                   ". Accessed through the LifeWatch Data Explorer / lwdataexplorer R package."
                   )

# Get license
license <- dasid[["datasetrec"]][["AccessConstraint"]]
extra <- dasid[["datasetrec"]][["AccConstrDescription"]]

cat(citation)

cat(paste0("<b>Availability: </b>", license))
cat(paste0("</br><small>", extra ,"</small></br>"))

Please acknowledge as: This work makes use of the LifeWatch observation data and infrastructure (provided by VLIZ) funded by Research Foundation - Flanders (FWO) as part of the Belgian contribution to LifeWatch.

These data are also available in the R language with the lwdataxplorer package.

lifewatch/lwdataexplorer documentation built on Aug. 24, 2024, 12:35 a.m.