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Cyclosquamata

Taxonomic Serial No.: 553122

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Cyclosquamata

TSN 553122

Taxonomy and Nomenclature


	Kingdom:	Animalia
	Taxonomic Rank:	Superorder
	Synonym(s):
	Common Name(s):

	Taxonomic Status:
	Current Standing:	valid

	Data Quality Indicators:
	Record Credibility Rating:	verified - standards met
	Global Species Completeness:	complete
	Latest Record Review:	2004

Taxonomic Hierarchy


	Kingdom	Animalia – Animal, animaux, animals
	Subkingdom	Bilateria
	Infrakingdom	Deuterostomia
	Phylum	Chordata – cords, cordado, chordates
	Subphylum	Vertebrata – vertebrado, vertbrs, vertebrates
	Infraphylum	Gnathostomata
	Superclass	Actinopterygii – ray-finned fishes, spiny rayed fishes, poisson pineux, poissons nageoires rayonnes
	Class	Teleostei
	Superorder	Cyclosquamata
		Direct Children:
	Order	Aulopiformes – salmons, aulopiforms

References


	Expert(s):
	Expert:
	Notes:
	Reference for:

	Other Source(s):
	Source:
	Acquired:
	Notes:
	Reference for:

	Publication(s):
	Author(s)/Editor(s):	Nelson, Joseph S.
	Publication Date:	1994
	Article/Chapter Title:
	Journal/Book Name, Vol. No.:	Fishes of the World, Third Edition
	Page(s):	xvii + 600
	Publisher:	John Wiley and Sons
	Publication Place:	New York, New York, USA
	ISBN/ISSN:	0-471-54713-1
	Notes:
	Reference for:	Cyclosquamata

Geographic Information


	Geographic Division:

	Jurisdiction/Origin:

Comments


	Comment:

//Array variable to store data returned from SOLR server
var dataArray=[];

/**
* @description: javascript callback function which will be called after asynchronous call to SOLR
* @param: SOLR Data
**/
function on_SubordinateTaxaReturn(data)

$('#results').empty();
var docs = data.facet_counts.facet_pivot.product;
var groupDoc = data.grouped.rankID.groups;
var suboradinateTaxa = 0;
var rank = "";
var verifiedStandardsMet =0;
var verifiedMinStandardsMet = 0;
var unverified = 0;
var unverifiedReview = 0;
var credibility="";
var outTable = "";
var rankName="";
var totalVerifiedStandardsMet=0;
var totalVerifiedMinStandardsMet=0;
var totalUnverified=0;
var arrayIndex=0;
var percentStandardsMet="";
var offSiteSources=[];
//the number of rank objects returned from the solr query
var totalNumberOfRanks = docs.length;
//The rank of the item for which the subordinate taxa is being calculated
var searchTermRank = "90";
var pieChartConfig = [];

dataArray=[];
var dataExists = false;

//HTML Table header
outTable += "";
outTable += "";
outTable += "";
outTable += "

"
outTable += " ";
outTable += " ";
outTable += "";
rank = docs[rankIndex].value;
searchTermRank="90";

//Make sure not to include the results for the rank of the search term in the generated results.
if(Number(rank) > Number(searchTermRank))
unverified=0;
verifiedStandardsMet=0;
verifiedMinStandardsMet=0;
unverifiedReview=0;
for(j=0; j 0)
dataExists=true;

//keep a running tally of verifiedMinStandardsMet and totalVerifiedMinStandardsMet
if(docs[rankIndex].pivot[j].value.trim().toUpperCase() ==="Minimum taxonomic/nomenclature review".toUpperCase())
verifiedMinStandardsMet = docs[rankIndex].pivot[j].count;
totalVerifiedMinStandardsMet+=verifiedMinStandardsMet;

//keep a running tally of verifiedStandardsMet and totalVerifiedStandardsMet
if(docs[rankIndex].pivot[j].value.trim().toUpperCase() ==="TWG standards met".toUpperCase())
verifiedStandardsMet = docs[rankIndex].pivot[j].count;
totalVerifiedStandardsMet+=verifiedStandardsMet;

//keep a running tally of unverified and totalUnverified
if(docs[rankIndex].pivot[j].value.trim().toUpperCase() ==="No review; untreated NODC data".toUpperCase())
unverified=docs[rankIndex].pivot[j].count;
totalUnverified+=unverified;

//keep a running tally of unverified and totalUnverified
if(docs[rankIndex].pivot[j].value.trim().toUpperCase() === "No review; non-peer reviewed source".toUpperCase())
unverifiedReview=docs[rankIndex].pivot[j].count;
totalUnverified+=unverifiedReview;

percentStandardsMet = docs[rankIndex].pivot[j].value;

for(var a=0;a 0)
if(rank==groupDoc[a].doclist.docs[0].rankID)
rankName=groupDoc[a].doclist.docs[0].rank;
break;

dataArray[arrayIndex] = new SubordinateTaxa(rank,rankName,verifiedStandardsMet,verifiedMinStandardsMet,unverified+unverifiedReview,percentStandardsMet);;
arrayIndex++;

}
} //END of SOLR data parsing
if (dataExists)
//SORT DATA based on Rank ID by ascending order
dataArray=sortDataByRankID(dataArray,0);

for(var arrayNewIndex = 0;arrayNewIndex<dataArray.length;arrayNewIndex++)
outTable += generateSubordinateTaxaColumnTD("Subordinate Taxa", dataArray[arrayNewIndex].rankName, dataArray[arrayNewIndex].taxonomicTotal);

outTable += "";
//Subordinate Taxa Column
outTable += generateSubordinateTaxaColumnTD("Subordinate Taxa", "ALL", (totalVerifiedStandardsMet + totalVerifiedMinStandardsMet + totalUnverified));
outTable += "

";
outTable += " ";
outTable += "

Subordinate Taxa";
outTable += "

Rank";
outTable += "

Verified Standards Met ";
outTable += "

Verified Min Standards Met";
outTable += "

Unverified";
outTable += "

Percent Standards Met";

//Parse SOLR document to get the related data to array
for(var rankIndex = 0; rankIndex 0)
outTable += "

" + dataArray[arrayNewIndex].rankName + "";

//hyperlink the data
if(dataArray[arrayNewIndex].standardsMet>0)
outTable += generateSubordinateTaxaColumnTD("TWG standards met", dataArray[arrayNewIndex].rankName, dataArray[arrayNewIndex].standardsMet);
//just display the data
else
outTable += "

" + dataArray[arrayNewIndex].standardsMet + "";
//hyperlink the data
if(dataArray[arrayNewIndex].minStandardsMet>0)
outTable += generateSubordinateTaxaColumnTD("Minimum taxonomic/nomenclature review", dataArray[arrayNewIndex].rankName, dataArray[arrayNewIndex].minStandardsMet)
//just display the data
else
outTable += "

" + dataArray[arrayNewIndex].minStandardsMet + "";
//hyperlink the data
if(dataArray[arrayNewIndex].unverified>0)
outTable += generateSubordinateTaxaColumnTD("Unverified", dataArray[arrayNewIndex].rankName, dataArray[arrayNewIndex].unverified)
//just display the data
else
outTable += "

" + dataArray[arrayNewIndex].unverified + "";

//Chart should appear in this column
outTable += "

";
outTable += "";
var configuration =
id: 'percentStandardsMet' + dataArray[arrayNewIndex].rankName,
data: [["Verified Standards Met", dataArray[arrayNewIndex].standardsMet],
["Verified Min. Standards Met", dataArray[arrayNewIndex].minStandardsMet],
["Unverified", dataArray[arrayNewIndex].unverified]
]
;

pieChartConfig.push (configuration);

//Generate and Display "All" row of the table:
if( (totalVerifiedStandardsMet + totalVerifiedMinStandardsMet + totalUnverified) > 0)
outTable += "

ALL ";

//Verified Standards Met Column
if(totalVerifiedStandardsMet>0)
outTable += generateSubordinateTaxaColumnTD("TWG standards met", "ALL", totalVerifiedStandardsMet);
else
outTable += "

" + totalVerifiedStandardsMet + ""

//Verified Minimum Standards Met Column
if(totalVerifiedMinStandardsMet>0)
outTable += generateSubordinateTaxaColumnTD("Minimum taxonomic/nomenclature review", "ALL", totalVerifiedMinStandardsMet);
else
outTable += "

" + totalVerifiedMinStandardsMet + ""

//Unverified Column
if(totalUnverified>0)
outTable += generateSubordinateTaxaColumnTD("Unverified", "ALL", totalUnverified);
else
outTable += "

" + totalUnverified + ""

//Chart should appear in this column
outTable += "

percentStandardsMetAll";
outTable += "";
var configuration =
id: 'percentStandardsMetAll',
data: [
["Verified Standards Met", totalVerifiedStandardsMet],
["Verified Min. Standards Met", totalVerifiedMinStandardsMet],
["Unverified", totalUnverified]
]
;
pieChartConfig.push (configuration);

//Data doesn't exist
else
outTable += "

";
outTable += "

";

outTable += "";
outTable += "";
outTable += "";
outTable += "";
outTable += "";

$('#results').prepend("

" + outTable + "");
generateSubordinateTaxaTblHeader();

if (dataExists)

generatePieChart(pieChartConfig);

}

/**
* Description: generates a C3 pie chart for a given container and dataset.
* @param: configurations: A javascript array that contains objects cotainerName, an array of[data to plot]
* @returns none
**/
function generatePieChart(pieChartConfig)
//generate a chart for each configuration:
for (var configIndex = 0; configIndex < pieChartConfig.length; configIndex++)
var chartConfiguration = createPieChartConfig("#" + pieChartConfig[configIndex].id, pieChartConfig[configIndex].data);
c3.generate(chartConfiguration);

/**
* Description: builds the column for the subordinate taxa table. This includes building the hyperlink to generate the valid taxa list for the rank.
* @param: percentStandardsMet
* @param: rankName
* @param: column (string) data that is visible to the user as the clickable hyperlink.
* @returns a string which defines a table cell in the subordinate taxa table.
**/
function generateSubordinateTaxaColumnTD(percentStandardsMet, rankName, columnData)
return "

" + columnData + "";

/**
* @description: function to create SOLR query and return data to be processed
**/
function on_searchSubordinateTaxa()

var url = ITIS_SOLR+'/?q=hierarchyTSN:(*$553122$*)&group=true&group.field=rankID&rows=-1&fl=rankID,rank&fq=usage:(valid or accepted)&wt=json&facet=true&facet.pivot=!key=productrankID,credibilityRating&facet.pivot.mincount=0&facet.limit=-1&callback=?&json.wrf=on_SubordinateTaxaReturn';
$.getJSON(url);

/**
* @description: Dynamically generates the Subordinate Taxa Table header.
* @param : none
* @return: none
**/
function generateSubordinateTaxaTblHeader()
url = ITIS_SOLR +'/?q=tsn:(553122)&wt=json';

//Generate The Results Header and get the data for the header if
$.get(url).done(function(data)
var taxaHeading = " " + data.response.docs[0].rank + " " + formatRankName(data.response.docs[0].nameWOInd,data.response.docs[0].rankID);
if (hasTaxonAuthor(data.response.docs[0].taxonAuthor) > 0)
taxaHeading += " " + formatTaxonAuthor(data.response.docs[0].taxonAuthor) + " contains:";
else
taxaHeading += " contains:";

$('#subordinateTaxaTableHeader').html(taxaHeading);

).fail(function()
console.error("houston we have a problem generating the initial Subordinate Taxa Table Header.");
).always(function()
console.log("always executes. put clean up code in here");
);

$(document).ready(function()
//initially generate the table header for the given search
generateSubordinateTaxaTblHeader();
//issue a solr query to generate the subordinate taxa table.
on_searchSubordinateTaxa();
);

Subordinate Taxa	Rank	Verified Standards Met	Verified Min Standards Met	Unverified	Percent Standards Met


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