*
* Customized tests for PhProt peptide and modified peptide
* @author Robert Schmidt <*****@*****.**>
* @version 0.1
* @package mpimp.phprot
*/
include_once '../PhProt.php';
$pp = new PhProt();
$pp->using('base');
$pp->using('peptide');
$pep = new Peptide();
// ###### VALIDATION ######
print '<h1>Testing validation</h1>';
$seq = 'HGYIGEFEYVDDHR';
print 'Peptide: ' . $seq . '<br />';
if ($pep->validateSequence($seq) === true) {
print 'TRUE<br />';
} else {
print 'FALSE<br />';
}
$seq = 'HXGYIGEFEYVDDHR';
print 'Peptide: ' . $seq . '<br />';
if ($pep->validateSequence($seq) === true) {
print 'TRUE<br />';
} else {
print 'FALSE<br />';
}
$seq = 'HGYIGEF4EYVDDHR';
print 'Peptide: ' . $seq . '<br />';
if ($pep->validateSequence($seq) === true) {
print 'TRUE<br />';
$mod5acc = array_key_exists('mod5acc', $_POST) ? $_POST['mod5acc'] : '';
$mod1pos = array_key_exists('mod1pos', $_POST) ? $_POST['mod1pos'] : '';
$mod2pos = array_key_exists('mod2pos', $_POST) ? $_POST['mod2pos'] : '';
$mod3pos = array_key_exists('mod3pos', $_POST) ? $_POST['mod3pos'] : '';
$mod4pos = array_key_exists('mod4pos', $_POST) ? $_POST['mod4pos'] : '';
$mod5pos = array_key_exists('mod5pos', $_POST) ? $_POST['mod5pos'] : '';
$arrIons = array_key_exists('ioncalc', $_POST) ? $_POST['ioncalc'] : '';
$iccharge = array_key_exists('iccharge', $_POST) ? $_POST['iccharge'] : '';
$spectrum = array_key_exists('spectrum', $_POST) ? $_POST['spectrum'] : '';
if ($ismodified === 'true') {
$pep = new ModifiedPeptide();
$pepvalid = $pep->setModifiedSequence($sequence) ? 'true' : 'false';
} else {
$pep = new Peptide();
$pep->Sequence = $sequence;
$pepvalid = $pep->validateSequence($sequence) ? 'true' : 'false';
}
if ($nterminus !== '') {
$pep->NTerminus = $nterminus;
}
if ($cterminus !== '') {
$pep->CTerminus = $cterminus;
}
if ($pepvalid === 'true') {
if ($cterminus !== '') {
$ctermmass = strval($pep->getCTerminusMass('monoisotopic'));
}
if ($nterminus !== '') {
$ntermmass = strval($pep->getNTerminusMass('monoisotopic'));
}
$mec = $pep->getMec();
