GET lookup/genome/:name

Query for a named genome and retrieve the gene models

Parameters

Required

NameTypeDescriptionDefaultExample Values
name String The production name of the genome. - brugia_malayi_prjna10729

Optional

NameTypeDescriptionDefaultExample Values
biotypes String Biotype of genes to retrieve. Default is all. NULL ncRNA
callback String Name of the callback subroutine to be returned by the requested JSONP response. Required ONLY when using JSONP as the serialisation method. Please see the user guide. - randomlygeneratedname
level Enum(gene,transcript,translation,protein_feature) Level of objects to retrieve gene -
xrefs Boolean(0,1) Include cross-references NULL -

Example Requests

/rest-13/lookup/genome/brugia_malayi_prjna10729?content-type=application/json;biotypes=ncRNA


use strict;
use warnings;

use HTTP::Tiny;

my $http = HTTP::Tiny->new();

my $server = 'https://parasite.wormbase.org';
my $ext = '/rest-13/lookup/genome/brugia_malayi_prjna10729?biotypes=ncRNA';
my $response = $http->get($server.$ext, {
  headers => { 'Content-type' => 'application/json' }
});

die "Failed!\n" unless $response->{success};


use JSON;
use Data::Dumper;
if(length $response->{content}) {
  my $hash = decode_json($response->{content});
  local $Data::Dumper::Terse = 1;
  local $Data::Dumper::Indent = 1;
  print Dumper $hash;
  print "\n";
}

import requests, sys

server = "https://parasite.wormbase.org"
ext = "/rest-13/lookup/genome/brugia_malayi_prjna10729?biotypes=ncRNA"

r = requests.get(server+ext, headers={ "Content-Type" : "application/json", "Accept" : ""})

if not r.ok:
  r.raise_for_status()
  sys.exit()

decoded = r.json()
print repr(decoded)

import requests, sys

server = "https://parasite.wormbase.org"
ext = "/rest-13/lookup/genome/brugia_malayi_prjna10729?biotypes=ncRNA"

r = requests.get(server+ext, headers={ "Content-Type" : "application/json", "Accept" : ""})

if not r.ok:
  r.raise_for_status()
  sys.exit()

decoded = r.json()
print(repr(decoded))

require 'net/http'
require 'uri'

server='https://parasite.wormbase.org'
path = '/rest-13/lookup/genome/brugia_malayi_prjna10729?biotypes=ncRNA'

url = URI.parse(server)
http = Net::HTTP.new(url.host, url.port)

request = Net::HTTP::Get.new(path, {'Content-Type' => 'application/json'})

response = http.request(request)

if response.code != "200"
  puts "Invalid response: #{response.code}"
  puts response.body
  exit
end


require 'rubygems'
require 'json'
require 'yaml'

result = JSON.parse(response.body)
puts YAML::dump(result)

import java.net.URL;
import java.net.URLConnection;
import java.net.HttpURLConnection;
import java.io.BufferedReader;
import java.io.InputStream;
import java.io.InputStreamReader;
import java.io.IOException;
import java.io.Reader;


public class EnsemblRest {

  public static void main(String[] args) throws Exception {
    String server = "https://parasite.wormbase.org";
    String ext = "/rest-13/lookup/genome/brugia_malayi_prjna10729?biotypes=ncRNA";
    URL url = new URL(server + ext);

    URLConnection connection = url.openConnection();
    HttpURLConnection httpConnection = (HttpURLConnection)connection;
    
    httpConnection.setRequestProperty("Content-Type", "application/json");
    

    InputStream response = connection.getInputStream();
    int responseCode = httpConnection.getResponseCode();

    if(responseCode != 200) {
      throw new RuntimeException("Response code was not 200. Detected response was "+responseCode);
    }

    String output;
    Reader reader = null;
    try {
      reader = new BufferedReader(new InputStreamReader(response, "UTF-8"));
      StringBuilder builder = new StringBuilder();
      char[] buffer = new char[8192];
      int read;
      while ((read = reader.read(buffer, 0, buffer.length)) > 0) {
        builder.append(buffer, 0, read);
      }
      output = builder.toString();
    } 
    finally {
        if (reader != null) try {
          reader.close(); 
        } catch (IOException logOrIgnore) {
          logOrIgnore.printStackTrace();
        }
    }

    System.out.println(output);
  }
}


curl 'https://parasite.wormbase.org/rest-13/lookup/genome/brugia_malayi_prjna10729?biotypes=ncRNA' -H 'Content-type:application/json'

wget -q --header='Content-type:application/json' 'https://parasite.wormbase.org/rest-13/lookup/genome/brugia_malayi_prjna10729?biotypes=ncRNA'  -O -

Resource Information

MethodsGET
Response formatsjson
xml
jsonp