Luca Matteis lmatteis

Luca's TODO

Activity 1.1

a) Make sure the three main features for uploading traits are working properly. These being the OBO upload, the online web interface for creating Ontologies and finally the Trait Template excel upload functionality. Provide assistance and fix bugs in case users are unable to use the upload functionality.

Activity 1.2

a) Closely work with the ICIS developers to provide assistance with the synchronization of the data using the Crop Ontology API. In case more features are needed to programmatically retrieve this data, implement them.

Here's the JSON I'm trying to parse:

`{"Name of submitting scientist":" Eva Weltzien","Institution":"ICRISAT Bamako","Language of submission (only in ISO 2 letter codes)":{"english":"En","french":"Fr"},"Date of submission":"11/23/2011","Crop":"Sorghum","Name of Trait":{"english":"Grain covering","french":"Couverture du Grain"},"Abbreviated name ":{"english":"GRNCOV","french":"CvGr"},"Trait ID for modification, Blank for New":{"english":"CO_324:0000043","french":""},"Description of Trait":{"english":"Amount of grain covered by glumes","french":"Observation Visuelle du degr\u00e9 de couverture du grain par les glumes \u00e0 la maturit\u00e9"},"How is this trait routinely used?":{"english":"Nursery","french":"P\u00e9pini\u00e8re"},"Trait Class":"Morphological","Name of method":{"english":"Grain Covering","french":"Ouverture des glumes"},"Describe how measured (method)":{"english":"Visual observation of the recovery level of grain by the glumes at maturity to give a score","french":"Observation visuelle du niv

	<?php
	class traits {
	var $url = 'http://www.cropontology-curationtool.org';

	function get_children($parent_id) {
	$children = json_decode(file_get_contents($this->url. '/get-children/' . $parent_id));
	foreach($children as $child) {
	if($child->has_children > 0) {
	$child->children = $this->get_children($child->id);
	}

	<?php
	// Make a MySQL Connection
	mysql_connect("localhost", "root", "") or die(mysql_error());
	mysql_select_db("singer_dec_21") or die(mysql_error());


	$origcodes = array(
	'AFG',
	'DZA',
	'BHR',

	#!/bin/bash
	read request # this will read the first line of input


	#while /bin/true; do
	# read header
	# [ "$header" == $'\r' ] && break;
	#done
	#

	* { margin:0; padding:0; }


	/* - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - */
	/* generic */

	body {
	background: #ffffff;
	font: 13px "Optima", "Helvetica", "Arial", sans-serif;
	font-weight: normal;

	<?php

	require_once('../csv_parser.php');

	function do_post_request($url, $fields)
	{
	//url-ify the data for the POST
	foreach($fields as $key=>$value) { $fields_string .= $key.'='.$value.'&'; }
	rtrim($fields_string,'&');

	<?php
	/**
	* This returns the amount of times
	* a $word is found in a string ($str)
	*/
	function wordsInString($word, $str) {
	// \b is for a word boundary,
	// the i modifier is for case-insensitive matching
	// g is for global
	$regex = "/\b$word\b/i";

	<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN" "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
	<html xmlns="http://www.w3.org/1999/xhtml" xml:lang="en" lang="en">
	<head>

	<meta name="viewport" content="width=device-width,initial-scale=1, maximum-scale=1,user-scalable=no">

	<title>{block:SearchPage}{lang:Search results for SearchQuery} - {/block:SearchPage}{block:PostSummary}{PostSummary} - {/block:PostSummary}{Title}</title>
	<link rel="alternate" type="application/rss+xml" href="{RSS}">
	<link rel="shortcut icon" href="{Favicon}" />
	{block:Description}<meta name="description" content="{MetaDescription}" />{/block:Description}