functions.php

<?php

//This function parses an XML result for a trial. Two inputs are needed, first an XML object, and second the STRING of the outcome being measured
function trialParser ($xmlObject, $userDefinedOutcome, $condition, $intervention)
{
        //Process: a) Searching outcomes for first occurence of of the outcomes word
	//For the sake of sanity, convert the XML object to an array:
	$input = json_decode(json_encode($xmlObject), TRUE);

	//$outcome contains the matched outcome

	//The outcomes list is stored in: $input['clinical_results']['outcome_list']
	//Cycle through the outcomes list, and try to identify the first 
	foreach ($input['clinical_results']['outcome_list']['outcome'] as $key=>$value)
	{
		//So explode the subobject by the user defined outcome.
		$tempArray = explode($userDefinedOutcome, strtolower($value['title']));
		//rint_r($tempArray);
		//Now we count the number of array elements. If >1, then the term is found
		if (count($tempArray) >= 2)
		{
			//Set the $outcome variable [i.e. the one we are meeting]
			$outcome = $value; 
			break;
		}
	}	 

	//$outcome contains the matched outcome
	/*echo "<pre>"; 
	print_r($outcome);
	echo "</pre>";*/

        //Next we need to pull the desired figures from $outcome, i.e Treated VS untreated out from this
        //Take the outcome, and convert to a 2D Array
        //In 1 direction: group ID, in the other: value

	//First populate an array with groupdata
        if(isset($outcome)) {
        	$groupData = array();
        	$counter = 0;
        
        	foreach ($outcome['group_list']['group'] as $key=>$value)
        	{	
        		$groupData[$counter]['id'] = $value['@attributes']['group_id'];
        		$groupData[$counter]['title'] = $value['title'];
                        if(isset($value['description'])) {
        		        $groupData[$counter]['description'] = $value['description'];
                        }
        		$counter++;
        	}
        
                //Set a value for units
                foreach ($outcome['measure_list']['measure'] as $key=>$value)
                {
                	$globalUnits=$value['units'];
                }
        
                //Now populate it with the POPULATION SIZE data
        	foreach ($outcome['measure_list']['measure'][0]['category_list']['category']['measurement_list']['measurement'] as $key=>$value)
        	{
        		//Lookup $value['@attributes']['group_id'] in [$groupData][$counter]['id'] and set $value['@attributes']['value']
        		//Cycle through the group data
        		foreach ($groupData as $key => $groupValue) {
        
        			if ($groupData[$key]['id'] == $value['@attributes']['group_id'])
        			{
        				$groupData[$key]['datasetSize'] = $value['@attributes']['value'];
        				$groupData[$key]['units'] = $globalUnits;
        			}
        		}
        	}
        
                //Now populate it with NUMBER MEETING CONDITION data
                if(isset($outcome['measure_list']['measure'][1]['category_list']['category']['measurement_list']['measurement']) && isset($outcome['population'])) {
        	        foreach ($outcome['measure_list']['measure'][1]['category_list']['category']['measurement_list']['measurement'] as $key=>$value)
        	        {
        	        	//Lookup $value['@attributes']['group_id'] in [$groupData][$counter]['id'] and set $value['@attributes']['value']
        	        	//Cycle through the group data
        	        	foreach ($groupData as $key => $groupValue) {
        
        	        		if ($groupData[$key]['id'] == $value['@attributes']['group_id'])
        	        		{
        	        			$groupData[$key]['numberMeetingCondition'] = $value['@attributes']['value'];
        	        		}
        	        	}
        	        }
        
                        //Now we do the stastical analysis
        
        
        
        	        /*echo "<pre>";
        	        print_r($groupData);
        	        echo "</pre>";*/
        
        	        $outputArray = array();
        	        $outputArray['trialID'] = $input['id_info']['nct_id'];
        	        $outputArray['studyDesignText'] = $input['study_design'];
        	        $outputArray['eligibilityText'] = $input['eligibility']['criteria']['textblock'];
        	        $outputArray['eligibilityGender'] = $input['eligibility']['gender'];
        	        $outputArray['eligibilityMinAge'] = $input['eligibility']['minimum_age'];
        	        $outputArray['eligibilityMaxAge'] = $input['eligibility']['maximum_age'];

                        // Check blinding of trial.
                        if(strpos(strtolower($outputArray['studyDesignText']), "double blind") || strpos(strtolower($outputArray['studyDesignText']), "double-blind")) {
                            $outputArray['studyDesignBlind'] = "double";
                        } elseif(strpos(strtolower($outputArray['studyDesignText']), "single blind") || strpos(strtolower($outputArray['studyDesignText']), "single-blind")) {
                            $outputArray['studyDesignBlind'] = "single";
                        } else {
                            $outputArray['studyDesignBlind'] = "not";
                        }

                        // Pass query terms -- TODO: pass these better, only once.
                        $outputArray['conditionTerms'] = $condition;
                        $outputArray['interventionTerms'] = $intervention;
                        $outputArray['outcomeTerms'] = $userDefinedOutcome;

        	        $outputArray['outcome']=array('type'=>$outcome['type'], 'title'=>$outcome['title'], 'description'=>$outcome['description'],'time_frame'=>$outcome['time_frame'],'population'=>$outcome['population']);
        	        $outputArray['trialResults'] = $groupData;
        	        
        	        return $outputArray;
                }
        }

        //Next we need to run stats on this to work out relative risk
	//To do this, we define the group with index $group


        //Now we output the relative risk however Ali wants it.

	//This function identifies 
	//print_r($xmlObject);
	//matchOutcomeMeasures($xmlObject, $outcome);
	
	//For this, we pull in the data for the results
	//Do Statistics
	//Offer an option for user exclusion
	//Output in JSON for a forrest plot.
}

?>