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AssociationRRG.php
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AssociationRRG.php
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<?php
##TESTURL
//http://dendrome.ucdavis.edu/_dev/havasquezgross/cartogratree/AjaxRRG.php?tid=NC000895,NC000887&lat=-45.2,2.13&lng=108,22.3
//http://dendrome.ucdavis.edu/_dev/havasquezgross/cartogratree/AssociationRRG.php?tid=GRI0001,GRI0002,GRI0003,GRI0004,GRI0005,GRI0006,GRI0007
// Error handling.
ini_set('error_reporting', E_ALL);
ini_set('display_errors',1);
/* general settings area */
// require_once('../functions.php');
header('Content-Type: text/plain');
#include_once("includes/incPGSQL.php");
$db = "treegenes_development";
$namespace = "http://sswapmeet.sswap.info/treeGenes/";
$envirospace = "http://dendrome.ucdavis.edu/_dev/cartogratree/GetWorldClim.php";
#$dbtype = $_GET['dbtype'];
#$searchstring = $_GET['searchstring'];
if (!isset($_GET['tid']))
{
}
else
{
$escapedName = pg_escape_string(trim($_GET['tid']));
if (isset($_GET['lat'])) {
$escapedLat = pg_escape_string(trim($_GET['lat']));
} else {
$escapedLat = "";
}
if (isset($_GET['lng'])) {
$escapedLng = pg_escape_string(trim($_GET['lng']));
} else {
$escapedLng = "";
}
$tidarray = explode(',', $escapedName);
$latarray = explode(',', $escapedLat);
$lngarray = explode(',', $escapedLng);
$json = generateJsonTreeById($tidarray, $latarray, $lngarray);
print $json;
}
function stripslashes2($string) {
$string = preg_replace("/\\\\/", "", $string);
$string = preg_replace("/\\\'/", "'", $string);
// $string = preg_replace("/\\\'/", "'", $string);
// $string = preg_replace("/\\\\/", "\\", $string);
return $string;
}
function generateJsonTreeById($array, $latarray, $lngarray) {
global $namespace;
global $envirospace;
$namestring = implode(",", $array);
if(count($latarray) != 0) {
$latstring = implode(",", $latarray);
$lngstring = implode(",", $lngarray);
$worldclimUrl = '"http://dendrome.ucdavis.edu/cartogratree/GetWorldClimData.php?lat='.$latstring.'&lon='.$lngstring.'&id='.$namestring.'&csv"';
}
$phenoUrl= '"http://dendrome.ucdavis.edu/_dev/jjzieve/cartogratree-backbone/GetPhenoData.php?tid='.$namestring.'"';
//$genoUrl= '"http://dendrome.ucdavis.edu/_dev/havasquezgross/cartogratree/GetGenoData.php?tid='.$namestring.'&hapmap"';
$genoUrl= '"http://dendrome.ucdavis.edu/_dev/jjzieve/cartogratree-backbone/GetGenoData.php?tid='.$namestring.'"';
$popstruUrl = NULL;
$kinshipUrl = NULL;
$jsonRRG = '{
"api" : "/makeRRG",
"prefix" : {
"data" : "http://sswapmeet.sswap.info/data/",
"mime" : "http://sswapmeet.sswap.info/mime/",
"tassel" : "http://sswapmeet.sswap.info/iplant/tassel/",
"tasselFile" : "http://sswapmeet.sswap.info/maizegenetics/tassel/file/",
"tassel-args" : "http://sswapmeet.sswap.info/iplant/tassel/args/"
},
"http://sswap.info/iplant/resources/tassel/rrg" : { },
"mapping" : { "sswap:Subject" : "_:gwasData" },
"definitions" : {
"_:gwasData" : {
"rdf:type" : "tassel:requests/TasselRequest",
';
if($genoUrl) {
$jsonRRG = $jsonRRG.' "tassel-args:h" : '.$genoUrl.',
';
}
if($phenoUrl) {
$jsonRRG = $jsonRRG.' "tassel-args:r" : '.$phenoUrl.',
';
}
if($genoUrl) {
$jsonRRG = $jsonRRG.' "tassel:data/hasGenotype" : '.$genoUrl.',
';
}
if($phenoUrl) {
$jsonRRG = $jsonRRG.' "tassel:data/hasTraits" : '.$phenoUrl.'
';
}
$jsonRRG = $jsonRRG.'
},
';
if($genoUrl) {
$jsonRRG = $jsonRRG.' '.$genoUrl.' : {
"rdf:type" : [ "mime:application/X-hapmap" , "tasselFile:Genotype" ]
},
';
}
if($phenoUrl) {
$jsonRRG = $jsonRRG.' '.$phenoUrl.' : {
"rdf:type" : "tasselFile:Trait"
}
';
}
// if($worldclimUrl) {
//
// $jsonRRG = $jsonRRG.' "tassel:data/hasEnviro" : '.$worldclimUrl.',
//';
//
// }
if($popstruUrl) {
$jsonRRG = $jsonRRG.' "tassel:data/hasPopulationStructure" : '.$popstruUrl.',
';
}
if($kinshipUrl) {
$jsonRRG = $jsonRRG.' "tassel:data/hasKinship" : '.$kinshipUrl.',
';
}
$jsonRRG = $jsonRRG.'
}
}';
return $jsonRRG;
}
?>