Code Context $parenttemptext = ">".$parentaccession."\n".$parentsequence;
$myfile = fopen("/var/www/jifsanit-comparedb-2025/_fastatempfiles/parentaccession-".$parentaccession.".faa", "w") or die("Unable to write temporary parent .faa file.");
fwrite($myfile, $parenttemptext);
$viewFile = '/var/www/jifsanit-comparedb-2025/src/Template/Allergens/view.ctp'
$dataForView = [
'allergen' => object(App\Model\Entity\Allergen) {
'id' => (int) 3657,
'species' => 'Papaver somniferum',
'common_name' => 'opium poppy',
'definition' => '11S globulin, cupin, partial from RZC68862.1',
'iuis_name' => 'Pap s 2',
'gi' => null,
'accession' => 'COMPARE00922',
'url_accession' => 'COMPARE00922',
'length' => (int) 37,
'reference' => '21169',
'year_adopted' => '2025',
'sequence' => 'AMPVNVLMNAYQISREEANRLKYNREQETMILTPGSR',
'header' => '>COMPARE00922 Pap s 2; 11S globulin, cupin, partial from RZC68862.1 [Papaver somniferum]',
'parent_accession' => 'RZC68862.1',
'data_source' => 'Manual',
'ncbi_taxoncode' => '3469',
'notes' => null,
'retired_by' => null,
'is_removed' => (int) 0,
'iuis_url' => 'http://www.allergen.org/viewallergen.php?aid=1129',
'articles' => [
[maximum depth reached]
],
'[new]' => false,
'[accessible]' => [
[maximum depth reached]
],
'[dirty]' => [[maximum depth reached]],
'[original]' => [[maximum depth reached]],
'[virtual]' => [[maximum depth reached]],
'[errors]' => [[maximum depth reached]],
'[invalid]' => [[maximum depth reached]],
'[repository]' => 'Allergens'
}
]
$allergen = object(App\Model\Entity\Allergen) {
'id' => (int) 3657,
'species' => 'Papaver somniferum',
'common_name' => 'opium poppy',
'definition' => '11S globulin, cupin, partial from RZC68862.1',
'iuis_name' => 'Pap s 2',
'gi' => null,
'accession' => 'COMPARE00922',
'url_accession' => 'COMPARE00922',
'length' => (int) 37,
'reference' => '21169',
'year_adopted' => '2025',
'sequence' => 'AMPVNVLMNAYQISREEANRLKYNREQETMILTPGSR',
'header' => '>COMPARE00922 Pap s 2; 11S globulin, cupin, partial from RZC68862.1 [Papaver somniferum]',
'parent_accession' => 'RZC68862.1',
'data_source' => 'Manual',
'ncbi_taxoncode' => '3469',
'notes' => null,
'retired_by' => null,
'is_removed' => (int) 0,
'iuis_url' => 'http://www.allergen.org/viewallergen.php?aid=1129',
'articles' => [
(int) 0 => object(App\Model\Entity\Article) {}
],
'[new]' => false,
'[accessible]' => [
'species' => true,
'common_name' => true,
'definition' => true,
'gi' => true,
'accession' => true,
'url_accession' => true,
'length' => true,
'reference' => true,
'year_adopted' => true,
'sequence' => true,
'header' => true,
'notes' => true,
'retired_by' => true,
'articles' => true,
'iuis_name' => true,
'parent_accession' => true,
'iuis_url' => true
],
'[dirty]' => [],
'[original]' => [],
'[virtual]' => [],
'[errors]' => [],
'[invalid]' => [],
'[repository]' => 'Allergens'
}
$currentaccession = 'COMPARE00922'
$conn = object(mysqli) {
affected_rows => null
client_info => null
client_version => null
connect_errno => null
connect_error => null
errno => null
error => null
error_list => null
field_count => null
host_info => null
info => null
insert_id => null
server_info => null
server_version => null
stat => null
sqlstate => null
protocol_version => null
thread_id => null
warning_count => null
}
$con = object(mysqli) {
affected_rows => null
client_info => null
client_version => null
connect_errno => null
connect_error => null
errno => null
error => null
error_list => null
field_count => null
host_info => null
info => null
insert_id => null
server_info => null
server_version => null
stat => null
sqlstate => null
protocol_version => null
thread_id => null
warning_count => null
}
$childquery = 'SELECT id,definition,species FROM allergens WHERE accession='COMPARE00922' LIMIT 1'
$children = object(mysqli_result) {
current_field => null
field_count => null
lengths => null
num_rows => null
type => null
}
$i = (int) 0
$child = [
'id' => '3657',
'definition' => '11S globulin, cupin, partial from RZC68862.1',
'species' => 'Papaver somniferum'
]
$childid = '3657'
$childdefinition = '11S globulin, cupin, partial from RZC68862.1'
$childspecies = 'Papaver somniferum'
$parentmatches = object(mysqli_result) {
current_field => null
field_count => null
lengths => null
num_rows => null
type => null
}
$parentmatch = [
'parent_id' => '154'
]
$parentid = '154'
$parent = object(mysqli_result) {
current_field => null
field_count => null
lengths => null
num_rows => null
type => null
}
$parentaccession = 'RZC68862.1'
$row = [
(int) 0 => '154',
(int) 1 => 'RZC68862.1',
(int) 2 => 'MKSSSLVCLGFCFVFVLNGCLGQIEQQGGGWQTQQQQQQPRHYQGQSQCRIENINAQEPNRRVESEAGVTEFWDQNNEQFECAGVAPARYIIQPNGLLLPFFVNAPRLVYIVQGRGMSGALIPGCPETFHSIRQSVQQLRGRSQQQGGARDQHQKIRSIRQGDILALPAGVTHWLYNEGETPLIAVSLHDTSSSANQLDRQLRKFQLAGSQQTQTTSYQQRQQQQRQQARGQQQDVPENNIFNGFNVETLAEAFGVSTETARRLQGQDDQRGNIVFVEGGLHAIRPQQGEEEEEQEQRYRTTNGLEETICSMRLKQNIANPTRADIYSEKGGRITTLNSQKLPILNNLQMSAERGVLYQNALLAPHWNLNAHSVMYVTRGSCRCQIVGNQGRQVFDGQLNQGQMLVVPQNFAVVKQAGNEGFEWVSFKTNDNAMTSPLVGKTSVLRAMPVNVLMNAYQISREEANRLKYNREQETMILTPGSRSQVRASA',
(int) 3 => '490'
]
$parentsequence = 'MKSSSLVCLGFCFVFVLNGCLGQIEQQGGGWQTQQQQQQPRHYQGQSQCRIENINAQEPNRRVESEAGVTEFWDQNNEQFECAGVAPARYIIQPNGLLLPFFVNAPRLVYIVQGRGMSGALIPGCPETFHSIRQSVQQLRGRSQQQGGARDQHQKIRSIRQGDILALPAGVTHWLYNEGETPLIAVSLHDTSSSANQLDRQLRKFQLAGSQQTQTTSYQQRQQQQRQQARGQQQDVPENNIFNGFNVETLAEAFGVSTETARRLQGQDDQRGNIVFVEGGLHAIRPQQGEEEEEQEQRYRTTNGLEETICSMRLKQNIANPTRADIYSEKGGRITTLNSQKLPILNNLQMSAERGVLYQNALLAPHWNLNAHSVMYVTRGSCRCQIVGNQGRQVFDGQLNQGQMLVVPQNFAVVKQAGNEGFEWVSFKTNDNAMTSPLVGKTSVLRAMPVNVLMNAYQISREEANRLKYNREQETMILTPGSRSQVRASA'
$parenttemptext = '>RZC68862.1
MKSSSLVCLGFCFVFVLNGCLGQIEQQGGGWQTQQQQQQPRHYQGQSQCRIENINAQEPNRRVESEAGVTEFWDQNNEQFECAGVAPARYIIQPNGLLLPFFVNAPRLVYIVQGRGMSGALIPGCPETFHSIRQSVQQLRGRSQQQGGARDQHQKIRSIRQGDILALPAGVTHWLYNEGETPLIAVSLHDTSSSANQLDRQLRKFQLAGSQQTQTTSYQQRQQQQRQQARGQQQDVPENNIFNGFNVETLAEAFGVSTETARRLQGQDDQRGNIVFVEGGLHAIRPQQGEEEEEQEQRYRTTNGLEETICSMRLKQNIANPTRADIYSEKGGRITTLNSQKLPILNNLQMSAERGVLYQNALLAPHWNLNAHSVMYVTRGSCRCQIVGNQGRQVFDGQLNQGQMLVVPQNFAVVKQAGNEGFEWVSFKTNDNAMTSPLVGKTSVLRAMPVNVLMNAYQISREEANRLKYNREQETMILTPGSRSQVRASA'
fopen - [internal], line ??
include - APP/Template/Allergens/view.ctp, line 138
Cake\View\View::_evaluate() - CORE/src/View/View.php, line 1240
Cake\View\View::_render() - CORE/src/View/View.php, line 1201
Cake\View\View::render() - CORE/src/View/View.php, line 803
Cake\Controller\Controller::render() - CORE/src/Controller/Controller.php, line 790
Cake\Http\ActionDispatcher::_invoke() - CORE/src/Http/ActionDispatcher.php, line 126
Cake\Http\ActionDispatcher::dispatch() - CORE/src/Http/ActionDispatcher.php, line 94
Cake\Http\BaseApplication::__invoke() - CORE/src/Http/BaseApplication.php, line 235
Cake\Http\Runner::__invoke() - CORE/src/Http/Runner.php, line 65
Cake\Http\Middleware\CsrfProtectionMiddleware::__invoke() - CORE/src/Http/Middleware/CsrfProtectionMiddleware.php, line 103
Cake\Http\Runner::__invoke() - CORE/src/Http/Runner.php, line 65
Cake\Routing\Middleware\RoutingMiddleware::__invoke() - CORE/src/Routing/Middleware/RoutingMiddleware.php, line 156
Cake\Http\Runner::__invoke() - CORE/src/Http/Runner.php, line 65
Cake\Routing\Middleware\AssetMiddleware::__invoke() - CORE/src/Routing/Middleware/AssetMiddleware.php, line 88
Cake\Http\Runner::__invoke() - CORE/src/Http/Runner.php, line 65
Cake\Error\Middleware\ErrorHandlerMiddleware::__invoke() - CORE/src/Error/Middleware/ErrorHandlerMiddleware.php, line 98