Fatal Error
Error:
Allowed memory size of 402653184 bytes exhausted (tried to allocate 16777224 bytes)
File:
/www/bioinformatics01_ro/plaza/_dev_instances/feedback/lib/Cake/Utility/Hash.php
Line:
132
Notice: If you want to customize this error message, create app/View/Errors/fatal_error.ctp
( ! ) Xdebug: user triggered in /www/bioinformatics01_ro/plaza/_dev_instances/feedback/lib/Cake/View/Errors/fatal_error.ctp on line 37 | ||||
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Call Stack | ||||
# | Time | Memory | Function | Location |
1 | 0.0012 | 434592 | {main}( ) | .../index.php:0 |
2 | 0.0423 | 1903776 | Dispatcher->dispatch( $request = class CakeRequest { public $params = ['plugin' => NULL, 'controller' => 'orthologs', 'action' => 'explore', 'named' => [...], 'pass' => [...], 'models' => [...]]; public $data = []; public $query = []; public $url = 'orthologs/explore/Sopen11g020100/stu'; public $base = '/plaza.dev/_dev_instances/feedback'; public $webroot = '/plaza.dev/_dev_instances/feedback/'; public $here = '/plaza.dev/_dev_instances/feedback/orthologs/explore/Sopen11g020100/stu'; protected $_detectors = ['get' => [...], 'patch' => [...], 'post' => [...], 'put' => [...], 'delete' => [...], 'head' => [...], 'options' => [...], 'ssl' => [...], 'ajax' => [...], 'flash' => [...], 'mobile' => [...], 'requested' => [...], 'json' => [...], 'xml' => [...]]; protected $_input = '' }, $response = class CakeResponse { protected $_statusCodes = [100 => 'Continue', 101 => 'Switching Protocols', 200 => 'OK', 201 => 'Created', 202 => 'Accepted', 203 => 'Non-Authoritative Information', 204 => 'No Content', 205 => 'Reset Content', 206 => 'Partial Content', 300 => 'Multiple Choices', 301 => 'Moved Permanently', 302 => 'Found', 303 => 'See Other', 304 => 'Not Modified', 305 => 'Use Proxy', 307 => 'Temporary Redirect', 400 => 'Bad Request', 401 => 'Unauthorized', 402 => 'Payment Required', 403 => 'Forbidden', 404 => 'Not Found', 405 => 'Method Not Allowed', 406 => 'Not Acceptable', 407 => 'Proxy Authentication Required', 408 => 'Request Time-out', 409 => 'Conflict', 410 => 'Gone', 411 => 'Length Required', 412 => 'Precondition Failed', 413 => 'Request Entity Too Large', 414 => 'Request-URI Too Large', 415 => 'Unsupported Media Type', 416 => 'Requested range not satisfiable', 417 => 'Expectation Failed', 429 => 'Too Many Requests', 500 => 'Internal Server Error', 501 => 'Not Implemented', 502 => 'Bad Gateway', 503 => 'Service Unavailable', 504 => 'Gateway Time-out', 505 => 'Unsupported Version']; protected $_mimeTypes = ['html' => [...], 'json' => 'application/json', 'xml' => [...], 'rss' => 'application/rss+xml', 'ai' => 'application/postscript', 'bcpio' => 'application/x-bcpio', 'bin' => 'application/octet-stream', 'ccad' => 'application/clariscad', 'cdf' => 'application/x-netcdf', 'class' => 'application/octet-stream', 'cpio' => 'application/x-cpio', 'cpt' => 'application/mac-compactpro', 'csh' => 'application/x-csh', 'csv' => [...], 'dcr' => 'application/x-director', 'dir' => 'application/x-director', 'dms' => 'application/octet-stream', 'doc' => 'application/msword', 'docx' => 'application/vnd.openxmlformats-officedocument.wordprocessingml.document', 'drw' => 'application/drafting', 'dvi' => 'application/x-dvi', 'dwg' => 'application/acad', 'dxf' => 'application/dxf', 'dxr' => 'application/x-director', 'eot' => 'application/vnd.ms-fontobject', 'eps' => 'application/postscript', 'exe' => 'application/octet-stream', 'ez' => 'application/andrew-inset', 'flv' => 'video/x-flv', 'gtar' => 'application/x-gtar', 'gz' => 'application/x-gzip', 'bz2' => 'application/x-bzip', '7z' => 'application/x-7z-compressed', 'hdf' => 'application/x-hdf', 'hqx' => 'application/mac-binhex40', 'ico' => 'image/x-icon', 'ips' => 'application/x-ipscript', 'ipx' => 'application/x-ipix', 'js' => 'application/javascript', 'jsonapi' => 'application/vnd.api+json', 'latex' => 'application/x-latex', 'lha' => 'application/octet-stream', 'lsp' => 'application/x-lisp', 'lzh' => 'application/octet-stream', 'man' => 'application/x-troff-man', 'me' => 'application/x-troff-me', 'mif' => 'application/vnd.mif', 'ms' => 'application/x-troff-ms', 'nc' => 'application/x-netcdf', 'oda' => 'application/oda', 'otf' => 'font/otf', 'pdf' => 'application/pdf', 'pgn' => 'application/x-chess-pgn', 'pot' => 'application/vnd.ms-powerpoint', 'pps' => 'application/vnd.ms-powerpoint', 'ppt' => 'application/vnd.ms-powerpoint', 'pptx' => 'application/vnd.openxmlformats-officedocument.presentationml.presentation', 'ppz' => 'application/vnd.ms-powerpoint', 'pre' => 'application/x-freelance', 'prt' => 'application/pro_eng', 'ps' => 'application/postscript', 'roff' => 'application/x-troff', 'scm' => 'application/x-lotusscreencam', 'set' => 'application/set', 'sh' => 'application/x-sh', 'shar' => 'application/x-shar', 'sit' => 'application/x-stuffit', 'skd' => 'application/x-koan', 'skm' => 'application/x-koan', 'skp' => 'application/x-koan', 'skt' => 'application/x-koan', 'smi' => 'application/smil', 'smil' => 'application/smil', 'sol' => 'application/solids', 'spl' => 'application/x-futuresplash', 'src' => 'application/x-wais-source', 'step' => 'application/STEP', 'stl' => 'application/SLA', 'stp' => 'application/STEP', 'sv4cpio' => 'application/x-sv4cpio', 'sv4crc' => 'application/x-sv4crc', 'svg' => 'image/svg+xml', 'svgz' => 'image/svg+xml', 'swf' => 'application/x-shockwave-flash', 't' => 'application/x-troff', 'tar' => 'application/x-tar', 'tcl' => 'application/x-tcl', 'tex' => 'application/x-tex', 'texi' => 'application/x-texinfo', 'texinfo' => 'application/x-texinfo', 'tr' => 'application/x-troff', 'tsp' => 'application/dsptype', 'ttc' => 'font/ttf', 'ttf' => 'font/ttf', 'unv' => 'application/i-deas', 'ustar' => 'application/x-ustar', 'vcd' => 'application/x-cdlink', 'vda' => 'application/vda', 'xlc' => 'application/vnd.ms-excel', 'xll' => 'application/vnd.ms-excel', 'xlm' => 'application/vnd.ms-excel', 'xls' => 'application/vnd.ms-excel', 'xlsx' => 'application/vnd.openxmlformats-officedocument.spreadsheetml.sheet', 'xlw' => 'application/vnd.ms-excel', 'zip' => 'application/zip', 'aif' => 'audio/x-aiff', 'aifc' => 'audio/x-aiff', 'aiff' => 'audio/x-aiff', 'au' => 'audio/basic', 'kar' => 'audio/midi', 'mid' => 'audio/midi', 'midi' => 'audio/midi', 'mp2' => 'audio/mpeg', 'mp3' => 'audio/mpeg', 'mpga' => 'audio/mpeg', 'ogg' => 'audio/ogg', 'oga' => 'audio/ogg', 'spx' => 'audio/ogg', 'ra' => 'audio/x-realaudio', 'ram' => 'audio/x-pn-realaudio', 'rm' => 'audio/x-pn-realaudio', 'rpm' => 'audio/x-pn-realaudio-plugin', 'snd' => 'audio/basic', 'tsi' => 'audio/TSP-audio', 'wav' => 'audio/x-wav', 'aac' => 'audio/aac', 'asc' => 'text/plain', 'c' => 'text/plain', ...]; protected $_protocol = 'HTTP/1.1'; protected $_status = 200; protected $_contentType = 'text/html'; protected $_headers = []; protected $_body = NULL; protected $_file = NULL; protected $_fileRange = NULL; protected $_charset = 'UTF-8'; protected $_cacheDirectives = []; protected $_cookies = [] }, $additionalParams = ??? ) | .../index.php:151 |
3 | 0.0632 | 2712280 | Dispatcher->_invoke( $controller = class OrthologsController { public $name = 'Orthologs'; public $helpers = ['Session' => NULL, 'Html' => NULL, 'Form' => NULL, 'Cache' => NULL]; public $uses = [0 => 'Annotation', 1 => 'AnnotSource', 2 => 'Configuration', 3 => 'DnaMotifsCns', 4 => 'GfDatum', 5 => 'Msa', 6 => 'Orthologs', 7 => 'Similarities', 8 => 'Trees', 9 => 'AdExperiments', 10 => 'FunctionalClustersExperiments']; public $components = ['Session' => NULL, 'DataUtils' => NULL, 'FunctionalAnnotationUtils' => NULL, 'GeneFamilies' => NULL, 'Organism' => NULL, 'WorkbenchUtils' => NULL, 'Orthology' => NULL]; public $request = class CakeRequest { public $params = [...]; public $data = [...]; public $query = [...]; public $url = 'orthologs/explore/Sopen11g020100/stu'; public $base = '/plaza.dev/_dev_instances/feedback'; public $webroot = '/plaza.dev/_dev_instances/feedback/'; public $here = '/plaza.dev/_dev_instances/feedback/orthologs/explore/Sopen11g020100/stu'; protected $_detectors = [...]; protected $_input = '' }; public $response = class CakeResponse { protected $_statusCodes = [...]; protected $_mimeTypes = [...]; protected $_protocol = 'HTTP/1.1'; protected $_status = 200; protected $_contentType = 'text/html'; protected $_headers = [...]; protected $_body = NULL; protected $_file = NULL; protected $_fileRange = NULL; protected $_charset = 'UTF-8'; protected $_cacheDirectives = [...]; protected $_cookies = [...] }; protected $_responseClass = 'CakeResponse'; public $viewPath = 'Orthologs'; public $layoutPath = NULL; public $viewVars = ['num_paralogs' => 1463, 'supporting_types' => [...], 'ortholog_types' => [...], 'all_organisms' => [...], 'target_species' => 'stu', 'query_species' => 'spe', 'query_gene' => 'Sopen11g020100', 'title_for_layout' => 'Dicots PLAZA 5.0 : Integrative Orthology']; public $view = 'explore'; public $layout = 'default'; public $autoRender = TRUE; public $autoLayout = TRUE; public $Components = class ComponentCollection { protected $_Controller = ...; protected $_enabled = [...]; protected $_loaded = [...]; public $defaultPriority = 10 }; public $viewClass = 'View'; public $View = NULL; public $ext = '.ctp'; public $plugin = NULL; public $cacheAction = FALSE; public $passedArgs = [0 => 'Sopen11g020100', 1 => 'stu']; public $scaffold = FALSE; public $methods = [1 => 'overview', 2 => 'explore', 3 => 'get_orthologs_type_data', 4 => 'get_supporting_data', 5 => 'get_supporting_type_data', 6 => 'get_orthologs_data']; public $modelClass = 'Annotation'; public $modelKey = 'ortholog'; public $validationErrors = NULL; protected $_mergeParent = 'AppController'; protected $_eventManager = class CakeEventManager { protected $_listeners = [...]; protected $_isGlobal = FALSE }; public $Session = class SessionComponent { protected $_Collection = class ComponentCollection { ... }; public $settings = [...]; public $components = [...]; protected $_componentMap = [...] }; public $DataUtils = class DataUtilsComponent { public $name = 'DataUtils'; public $controller = ...; public $components = [...]; protected $_Collection = class ComponentCollection { ... }; public $settings = [...]; protected $_componentMap = [...] }; public $FunctionalAnnotationUtils = class FunctionalAnnotationUtilsComponent { public $name = 'FunctionalAnnotationUtils'; public $controller = ...; public $components = [...]; protected $_Collection = class ComponentCollection { ... }; public $settings = [...]; protected $_componentMap = [...] }; public $GeneFamilies = class GeneFamiliesComponent { public $name = 'GeneFamilies'; private $controller = ...; protected $_Collection = class ComponentCollection { ... }; public $settings = [...]; public $components = [...]; protected $_componentMap = [...] }; public $Organism = class OrganismComponent { public $name = 'Organism'; private $controller = ...; public $components = [...]; protected $_Collection = class ComponentCollection { ... }; public $settings = [...]; protected $_componentMap = [...] }; public $WorkbenchUtils = class WorkbenchUtilsComponent { public $name = 'WorkbenchUtils'; private $controller = ...; public $components = [...]; protected $_Collection = class ComponentCollection { ... }; public $settings = [...]; protected $_componentMap = [...] }; public $Orthology = class OrthologyComponent { public $name = 'Orthology'; private $controller = ...; protected $_Collection = class ComponentCollection { ... }; public $settings = [...]; public $components = [...]; protected $_componentMap = [...] }; public $Annotation = class Annotation { public $name = 'Annotation'; public $useTable = 'annotation'; public $primaryKey = 'gene_id'; public $cacheQueries = FALSE; public $cacheSources = FALSE; public $belongsTo = [...]; public $hasMany = [...]; public $useDbConfig = 'default'; public $displayField = *uninitialized*; public $id = FALSE; public $data = [...]; public $schemaName = 'db_plaza_public_dicots_05'; public $table = 'annotation'; protected $_schema = [...]; public $validate = [...]; public $validationErrors = [...]; public $validationDomain = NULL; public $tablePrefix = ''; public $plugin = NULL; public $alias = 'Annotation'; public $tableToModel = [...]; public $hasOne = [...]; public $hasAndBelongsToMany = [...]; public $actsAs = NULL; public $Behaviors = class BehaviorCollection { ... }; public $whitelist = [...]; public $findQueryType = NULL; public $recursive = 1; public $order = NULL; public $virtualFields = [...]; protected $_associationKeys = [...]; protected $_associations = [...]; public $__backAssociation = [...]; public $__backInnerAssociation = [...]; public $__backOriginalAssociation = [...]; public $__backContainableAssociation = [...]; public $__safeUpdateMode = FALSE; public $useConsistentAfterFind = TRUE; protected $_insertID = NULL; protected $_sourceConfigured = TRUE; public $findMethods = [...]; protected $_eventManager = class CakeEventManager { ... }; protected $_validator = NULL }; public $AnnotSource = class AnnotSource { public $name = 'AnnotSource'; public $useTable = 'annot_sources'; public $primaryKey = 'species'; public $displayField = 'common_name'; public $useDbConfig = 'default'; public $id = FALSE; public $data = [...]; public $schemaName = 'db_plaza_public_dicots_05'; public $table = 'annot_sources'; protected $_schema = [...]; public $validate = [...]; public $validationErrors = [...]; public $validationDomain = NULL; public $tablePrefix = ''; public $plugin = NULL; public $alias = 'AnnotSource'; public $tableToModel = [...]; public $cacheQueries = FALSE; public $belongsTo = [...]; public $hasOne = [...]; public $hasMany = [...]; public $hasAndBelongsToMany = [...]; public $actsAs = NULL; public $Behaviors = class BehaviorCollection { ... }; public $whitelist = [...]; public $cacheSources = TRUE; public $findQueryType = NULL; public $recursive = 1; public $order = NULL; public $virtualFields = [...]; protected $_associationKeys = [...]; protected $_associations = [...]; public $__backAssociation = [...]; public $__backInnerAssociation = [...]; public $__backOriginalAssociation = [...]; public $__backContainableAssociation = [...]; public $__safeUpdateMode = FALSE; public $useConsistentAfterFind = TRUE; protected $_insertID = NULL; protected $_sourceConfigured = TRUE; public $findMethods = [...]; protected $_eventManager = class CakeEventManager { ... }; protected $_validator = NULL }; public $Configuration = class Configuration { public $name = 'Configuration'; public $useTable = 'configuration'; public $useDbConfig = 'default'; public $displayField = *uninitialized*; public $id = FALSE; public $data = [...]; public $schemaName = 'db_plaza_public_dicots_05'; public $table = 'configuration'; public $primaryKey = 'id'; protected $_schema = [...]; public $validate = [...]; public $validationErrors = [...]; public $validationDomain = NULL; public $tablePrefix = ''; public $plugin = NULL; public $alias = 'Configuration'; public $tableToModel = [...]; public $cacheQueries = FALSE; public $belongsTo = [...]; public $hasOne = [...]; public $hasMany = [...]; public $hasAndBelongsToMany = [...]; public $actsAs = NULL; public $Behaviors = class BehaviorCollection { ... }; public $whitelist = [...]; public $cacheSources = TRUE; public $findQueryType = NULL; public $recursive = 1; public $order = NULL; public $virtualFields = [...]; protected $_associationKeys = [...]; protected $_associations = [...]; public $__backAssociation = [...]; public $__backInnerAssociation = [...]; public $__backOriginalAssociation = [...]; public $__backContainableAssociation = [...]; public $__safeUpdateMode = FALSE; public $useConsistentAfterFind = TRUE; protected $_insertID = NULL; protected $_sourceConfigured = TRUE; public $findMethods = [...]; protected $_eventManager = class CakeEventManager { ... }; protected $_validator = NULL }; public $Orthologs = class Orthologs { public $name = 'Orthologs'; public $useTable = 'orthologs'; public $useDbConfig = 'default'; public $displayField = *uninitialized*; public $id = FALSE; public $data = [...]; public $schemaName = 'db_plaza_public_dicots_05'; public $table = 'orthologs'; public $primaryKey = 'id'; protected $_schema = [...]; public $validate = [...]; public $validationErrors = [...]; public $validationDomain = NULL; public $tablePrefix = ''; public $plugin = NULL; public $alias = 'Orthologs'; public $tableToModel = [...]; public $cacheQueries = FALSE; public $belongsTo = [...]; public $hasOne = [...]; public $hasMany = [...]; public $hasAndBelongsToMany = [...]; public $actsAs = NULL; public $Behaviors = class BehaviorCollection { ... }; public $whitelist = [...]; public $cacheSources = TRUE; public $findQueryType = NULL; public $recursive = 1; public $order = NULL; public $virtualFields = [...]; protected $_associationKeys = [...]; protected $_associations = [...]; public $__backAssociation = [...]; public $__backInnerAssociation = [...]; public $__backOriginalAssociation = [...]; public $__backContainableAssociation = [...]; public $__safeUpdateMode = FALSE; public $useConsistentAfterFind = TRUE; protected $_insertID = NULL; protected $_sourceConfigured = TRUE; public $findMethods = [...]; protected $_eventManager = class CakeEventManager { ... }; protected $_validator = NULL } }, $request = class CakeRequest { public $params = ['plugin' => NULL, 'controller' => 'orthologs', 'action' => 'explore', 'named' => [...], 'pass' => [...], 'models' => [...]]; public $data = []; public $query = []; public $url = 'orthologs/explore/Sopen11g020100/stu'; public $base = '/plaza.dev/_dev_instances/feedback'; public $webroot = '/plaza.dev/_dev_instances/feedback/'; public $here = '/plaza.dev/_dev_instances/feedback/orthologs/explore/Sopen11g020100/stu'; protected $_detectors = ['get' => [...], 'patch' => [...], 'post' => [...], 'put' => [...], 'delete' => [...], 'head' => [...], 'options' => [...], 'ssl' => [...], 'ajax' => [...], 'flash' => [...], 'mobile' => [...], 'requested' => [...], 'json' => [...], 'xml' => [...]]; protected $_input = '' } ) | .../Dispatcher.php:167 |
4 | 0.0723 | 3124200 | Controller->invokeAction( $request = class CakeRequest { public $params = ['plugin' => NULL, 'controller' => 'orthologs', 'action' => 'explore', 'named' => [...], 'pass' => [...], 'models' => [...]]; public $data = []; public $query = []; public $url = 'orthologs/explore/Sopen11g020100/stu'; public $base = '/plaza.dev/_dev_instances/feedback'; public $webroot = '/plaza.dev/_dev_instances/feedback/'; public $here = '/plaza.dev/_dev_instances/feedback/orthologs/explore/Sopen11g020100/stu'; protected $_detectors = ['get' => [...], 'patch' => [...], 'post' => [...], 'put' => [...], 'delete' => [...], 'head' => [...], 'options' => [...], 'ssl' => [...], 'ajax' => [...], 'flash' => [...], 'mobile' => [...], 'requested' => [...], 'json' => [...], 'xml' => [...]]; protected $_input = '' } ) | .../Dispatcher.php:193 |
5 | 0.0723 | 3124312 | invokeArgs( $object = class OrthologsController { public $name = 'Orthologs'; public $helpers = ['Session' => NULL, 'Html' => NULL, 'Form' => NULL, 'Cache' => NULL]; public $uses = [0 => 'Annotation', 1 => 'AnnotSource', 2 => 'Configuration', 3 => 'DnaMotifsCns', 4 => 'GfDatum', 5 => 'Msa', 6 => 'Orthologs', 7 => 'Similarities', 8 => 'Trees', 9 => 'AdExperiments', 10 => 'FunctionalClustersExperiments']; public $components = ['Session' => NULL, 'DataUtils' => NULL, 'FunctionalAnnotationUtils' => NULL, 'GeneFamilies' => NULL, 'Organism' => NULL, 'WorkbenchUtils' => NULL, 'Orthology' => NULL]; public $request = class CakeRequest { public $params = [...]; public $data = [...]; public $query = [...]; public $url = 'orthologs/explore/Sopen11g020100/stu'; public $base = '/plaza.dev/_dev_instances/feedback'; public $webroot = '/plaza.dev/_dev_instances/feedback/'; public $here = '/plaza.dev/_dev_instances/feedback/orthologs/explore/Sopen11g020100/stu'; protected $_detectors = [...]; protected $_input = '' }; public $response = class CakeResponse { protected $_statusCodes = [...]; protected $_mimeTypes = [...]; protected $_protocol = 'HTTP/1.1'; protected $_status = 200; protected $_contentType = 'text/html'; protected $_headers = [...]; protected $_body = NULL; protected $_file = NULL; protected $_fileRange = NULL; protected $_charset = 'UTF-8'; protected $_cacheDirectives = [...]; protected $_cookies = [...] }; protected $_responseClass = 'CakeResponse'; public $viewPath = 'Orthologs'; public $layoutPath = NULL; public $viewVars = ['num_paralogs' => 1463, 'supporting_types' => [...], 'ortholog_types' => [...], 'all_organisms' => [...], 'target_species' => 'stu', 'query_species' => 'spe', 'query_gene' => 'Sopen11g020100', 'title_for_layout' => 'Dicots PLAZA 5.0 : Integrative Orthology']; public $view = 'explore'; public $layout = 'default'; public $autoRender = TRUE; public $autoLayout = TRUE; public $Components = class ComponentCollection { protected $_Controller = ...; protected $_enabled = [...]; protected $_loaded = [...]; public $defaultPriority = 10 }; public $viewClass = 'View'; public $View = NULL; public $ext = '.ctp'; public $plugin = NULL; public $cacheAction = FALSE; public $passedArgs = [0 => 'Sopen11g020100', 1 => 'stu']; public $scaffold = FALSE; public $methods = [1 => 'overview', 2 => 'explore', 3 => 'get_orthologs_type_data', 4 => 'get_supporting_data', 5 => 'get_supporting_type_data', 6 => 'get_orthologs_data']; public $modelClass = 'Annotation'; public $modelKey = 'ortholog'; public $validationErrors = NULL; protected $_mergeParent = 'AppController'; protected $_eventManager = class CakeEventManager { protected $_listeners = [...]; protected $_isGlobal = FALSE }; public $Session = class SessionComponent { protected $_Collection = class ComponentCollection { ... }; public $settings = [...]; public $components = [...]; protected $_componentMap = [...] }; public $DataUtils = class DataUtilsComponent { public $name = 'DataUtils'; public $controller = ...; public $components = [...]; protected $_Collection = class ComponentCollection { ... }; public $settings = [...]; protected $_componentMap = [...] }; public $FunctionalAnnotationUtils = class FunctionalAnnotationUtilsComponent { public $name = 'FunctionalAnnotationUtils'; public $controller = ...; public $components = [...]; protected $_Collection = class ComponentCollection { ... }; public $settings = [...]; protected $_componentMap = [...] }; public $GeneFamilies = class GeneFamiliesComponent { public $name = 'GeneFamilies'; private $controller = ...; protected $_Collection = class ComponentCollection { ... }; public $settings = [...]; public $components = [...]; protected $_componentMap = [...] }; public $Organism = class OrganismComponent { public $name = 'Organism'; private $controller = ...; public $components = [...]; protected $_Collection = class ComponentCollection { ... }; public $settings = [...]; protected $_componentMap = [...] }; public $WorkbenchUtils = class WorkbenchUtilsComponent { public $name = 'WorkbenchUtils'; private $controller = ...; public $components = [...]; protected $_Collection = class ComponentCollection { ... }; public $settings = [...]; protected $_componentMap = [...] }; public $Orthology = class OrthologyComponent { public $name = 'Orthology'; private $controller = ...; protected $_Collection = class ComponentCollection { ... }; public $settings = [...]; public $components = [...]; protected $_componentMap = [...] }; public $Annotation = class Annotation { public $name = 'Annotation'; public $useTable = 'annotation'; public $primaryKey = 'gene_id'; public $cacheQueries = FALSE; public $cacheSources = FALSE; public $belongsTo = [...]; public $hasMany = [...]; public $useDbConfig = 'default'; public $displayField = *uninitialized*; public $id = FALSE; public $data = [...]; public $schemaName = 'db_plaza_public_dicots_05'; public $table = 'annotation'; protected $_schema = [...]; public $validate = [...]; public $validationErrors = [...]; public $validationDomain = NULL; public $tablePrefix = ''; public $plugin = NULL; public $alias = 'Annotation'; public $tableToModel = [...]; public $hasOne = [...]; public $hasAndBelongsToMany = [...]; public $actsAs = NULL; public $Behaviors = class BehaviorCollection { ... }; public $whitelist = [...]; public $findQueryType = NULL; public $recursive = 1; public $order = NULL; public $virtualFields = [...]; protected $_associationKeys = [...]; protected $_associations = [...]; public $__backAssociation = [...]; public $__backInnerAssociation = [...]; public $__backOriginalAssociation = [...]; public $__backContainableAssociation = [...]; public $__safeUpdateMode = FALSE; public $useConsistentAfterFind = TRUE; protected $_insertID = NULL; protected $_sourceConfigured = TRUE; public $findMethods = [...]; protected $_eventManager = class CakeEventManager { ... }; protected $_validator = NULL }; public $AnnotSource = class AnnotSource { public $name = 'AnnotSource'; public $useTable = 'annot_sources'; public $primaryKey = 'species'; public $displayField = 'common_name'; public $useDbConfig = 'default'; public $id = FALSE; public $data = [...]; public $schemaName = 'db_plaza_public_dicots_05'; public $table = 'annot_sources'; protected $_schema = [...]; public $validate = [...]; public $validationErrors = [...]; public $validationDomain = NULL; public $tablePrefix = ''; public $plugin = NULL; public $alias = 'AnnotSource'; public $tableToModel = [...]; public $cacheQueries = FALSE; public $belongsTo = [...]; public $hasOne = [...]; public $hasMany = [...]; public $hasAndBelongsToMany = [...]; public $actsAs = NULL; public $Behaviors = class BehaviorCollection { ... }; public $whitelist = [...]; public $cacheSources = TRUE; public $findQueryType = NULL; public $recursive = 1; public $order = NULL; public $virtualFields = [...]; protected $_associationKeys = [...]; protected $_associations = [...]; public $__backAssociation = [...]; public $__backInnerAssociation = [...]; public $__backOriginalAssociation = [...]; public $__backContainableAssociation = [...]; public $__safeUpdateMode = FALSE; public $useConsistentAfterFind = TRUE; protected $_insertID = NULL; protected $_sourceConfigured = TRUE; public $findMethods = [...]; protected $_eventManager = class CakeEventManager { ... }; protected $_validator = NULL }; public $Configuration = class Configuration { public $name = 'Configuration'; public $useTable = 'configuration'; public $useDbConfig = 'default'; public $displayField = *uninitialized*; public $id = FALSE; public $data = [...]; public $schemaName = 'db_plaza_public_dicots_05'; public $table = 'configuration'; public $primaryKey = 'id'; protected $_schema = [...]; public $validate = [...]; public $validationErrors = [...]; public $validationDomain = NULL; public $tablePrefix = ''; public $plugin = NULL; public $alias = 'Configuration'; public $tableToModel = [...]; public $cacheQueries = FALSE; public $belongsTo = [...]; public $hasOne = [...]; public $hasMany = [...]; public $hasAndBelongsToMany = [...]; public $actsAs = NULL; public $Behaviors = class BehaviorCollection { ... }; public $whitelist = [...]; public $cacheSources = TRUE; public $findQueryType = NULL; public $recursive = 1; public $order = NULL; public $virtualFields = [...]; protected $_associationKeys = [...]; protected $_associations = [...]; public $__backAssociation = [...]; public $__backInnerAssociation = [...]; public $__backOriginalAssociation = [...]; public $__backContainableAssociation = [...]; public $__safeUpdateMode = FALSE; public $useConsistentAfterFind = TRUE; protected $_insertID = NULL; protected $_sourceConfigured = TRUE; public $findMethods = [...]; protected $_eventManager = class CakeEventManager { ... }; protected $_validator = NULL }; public $Orthologs = class Orthologs { public $name = 'Orthologs'; public $useTable = 'orthologs'; public $useDbConfig = 'default'; public $displayField = *uninitialized*; public $id = FALSE; public $data = [...]; public $schemaName = 'db_plaza_public_dicots_05'; public $table = 'orthologs'; public $primaryKey = 'id'; protected $_schema = [...]; public $validate = [...]; public $validationErrors = [...]; public $validationDomain = NULL; public $tablePrefix = ''; public $plugin = NULL; public $alias = 'Orthologs'; public $tableToModel = [...]; public $cacheQueries = FALSE; public $belongsTo = [...]; public $hasOne = [...]; public $hasMany = [...]; public $hasAndBelongsToMany = [...]; public $actsAs = NULL; public $Behaviors = class BehaviorCollection { ... }; public $whitelist = [...]; public $cacheSources = TRUE; public $findQueryType = NULL; public $recursive = 1; public $order = NULL; public $virtualFields = [...]; protected $_associationKeys = [...]; protected $_associations = [...]; public $__backAssociation = [...]; public $__backInnerAssociation = [...]; public $__backOriginalAssociation = [...]; public $__backContainableAssociation = [...]; public $__safeUpdateMode = FALSE; public $useConsistentAfterFind = TRUE; protected $_insertID = NULL; protected $_sourceConfigured = TRUE; public $findMethods = [...]; protected $_eventManager = class CakeEventManager { ... }; protected $_validator = NULL } }, $args = [0 => 'Sopen11g020100', 1 => 'stu'] ) | .../Controller.php:491 |
6 | 0.0723 | 3124408 | OrthologsController->explore( $query_gene = 'Sopen11g020100', $target_species = 'stu' ) | .../Controller.php:491 |
7 | 2.8305 | 59720776 | Hash::extract( $data = ['Sopen00g001440' => ['ORTHO' => [...], 'BHIF' => [...], 'anchor_point' => [...]], 'Sopen00g001450' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen00g003090' => ['ORTHO' => [...], 'anchor_point' => [...], 'BHIF' => [...]], 'Sopen00g003140' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen00g003520' => ['ORTHO' => [...], 'BHIF' => [...], 'anchor_point' => [...]], 'Sopen00g004260' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen00g005220' => ['ORTHO' => [...], 'anchor_point' => [...], 'BHIF' => [...]], 'Sopen00g005870' => ['ORTHO' => [...], 'anchor_point' => [...], 'BHIF' => [...]], 'Sopen00g006820' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen00g006830' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen00g006920' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen00g007400' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen00g009600' => ['ORTHO' => [...], 'anchor_point' => [...], 'BHIF' => [...]], 'Sopen00g009670' => ['ORTHO' => [...]], 'Sopen00g010580' => ['ORTHO' => [...], 'BHIF' => [...], 'anchor_point' => [...]], 'Sopen00g011550' => ['ORTHO' => [...], 'BHIF' => [...], 'anchor_point' => [...]], 'Sopen00g014200' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen00g014220' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g006930' => ['ORTHO' => [...], 'BHIF' => [...], 'anchor_point' => [...]], 'Sopen01g007920' => ['ORTHO' => [...], 'anchor_point' => [...], 'BHIF' => [...]], 'Sopen01g008090' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g009290' => ['ORTHO' => [...], 'anchor_point' => [...], 'BHIF' => [...]], 'Sopen01g009330' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g009350' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g009370' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g009850' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g009860' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g009870' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g010040' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g010110' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g010240' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g010600' => ['ORTHO' => [...], 'BHIF' => [...], 'anchor_point' => [...]], 'Sopen01g010830' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g011040' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g011100' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g011260' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g011270' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g011320' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g011640' => ['ORTHO' => [...], 'anchor_point' => [...], 'BHIF' => [...]], 'Sopen01g011810' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g011820' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g011840' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g011980' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g012030' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g012050' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g012060' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g012360' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g012390' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g012490' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g012820' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g013240' => ['ORTHO' => [...], 'BHIF' => [...], 'anchor_point' => [...]], 'Sopen01g013290' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g013400' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g013740' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g013950' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g014060' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g014080' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g014110' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g014120' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g014130' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g014360' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g014820' => ['ORTHO' => [...], 'anchor_point' => [...], 'BHIF' => [...]], 'Sopen01g014840' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g014910' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g015560' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g015730' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g015740' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g015750' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g015970' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g016030' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g016160' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g016400' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g016570' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g016670' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g016680' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g016690' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g016710' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g017190' => ['ORTHO' => [...], 'anchor_point' => [...], 'BHIF' => [...]], 'Sopen01g017290' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g017350' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g017500' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g017710' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g018090' => ['ORTHO' => [...], 'BHIF' => [...], 'anchor_point' => [...]], 'Sopen01g018120' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g018280' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g018290' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g018360' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g018400' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g018470' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g018480' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g018610' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g018760' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g018780' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g019070' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g019080' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g019250' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g019270' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g019300' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g019350' => ['ORTHO' => [...]], 'Sopen01g019380' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g019400' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g019590' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g019680' => ['ORTHO' => [...]], 'Sopen01g019720' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g019780' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g019820' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g019940' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g019960' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g019990' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g020210' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g020220' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g020330' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g020380' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g020520' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g020570' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g020700' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g020880' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g020910' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g020980' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g021100' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g021240' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g021270' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g021390' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g021550' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g021570' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g021710' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g021810' => ['ORTHO' => [...], 'BHIF' => [...]], 'Sopen01g021900' => ['ORTHO' => [...], 'BHIF' => [...]], ...], $path = '{s}.{s}.{n}' ) | .../OrthologsController.php:135 |
8 | 3.0743 | 68312888 | App::shutdown( ) | .../App.php:0 |
9 | 3.0744 | 68312920 | App::_checkFatalError( ) | .../App.php:943 |
10 | 3.0744 | 68313648 | ErrorHandler::handleError( $code = 1, $description = 'Allowed memory size of 402653184 bytes exhausted (tried to allocate 16777224 bytes)', $file = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/lib/Cake/Utility/Hash.php', $line = 132, $context = [] ) | .../App.php:970 |
11 | 3.0744 | 68313648 | ErrorHandler::handleFatalError( $code = 1, $description = 'Allowed memory size of 402653184 bytes exhausted (tried to allocate 16777224 bytes)', $file = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/lib/Cake/Utility/Hash.php', $line = 132 ) | .../ErrorHandler.php:212 |
12 | 3.0766 | 68262720 | ErrorHandler::handleException( $exception = class FatalErrorException { protected $_attributes = []; protected $_messageTemplate = ''; protected $_responseHeaders = NULL; protected $message = 'Allowed memory size of 402653184 bytes exhausted (tried to allocate 16777224 bytes)'; private ${Exception}string = ''; protected $code = 500; protected $file = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/lib/Cake/Utility/Hash.php'; protected $line = 132; private ${Exception}trace = [0 => [...], 1 => [...], 2 => [...], 3 => [...]]; private ${Exception}previous = NULL } ) | .../ErrorHandler.php:269 |
13 | 3.0830 | 68337656 | ExceptionRenderer->render( ) | .../ErrorHandler.php:127 |
14 | 3.0830 | 68337656 | ExceptionRenderer->_cakeError( $error = class FatalErrorException { protected $_attributes = []; protected $_messageTemplate = ''; protected $_responseHeaders = NULL; protected $message = 'Allowed memory size of 402653184 bytes exhausted (tried to allocate 16777224 bytes)'; private ${Exception}string = ''; protected $code = 500; protected $file = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/lib/Cake/Utility/Hash.php'; protected $line = 132; private ${Exception}trace = [0 => [...], 1 => [...], 2 => [...], 3 => [...]]; private ${Exception}previous = NULL } ) | .../ExceptionRenderer.php:190 |
15 | 3.0831 | 68338640 | ExceptionRenderer->_outputMessage( $template = 'fatalError' ) | .../ExceptionRenderer.php:213 |
16 | 3.0831 | 68338640 | Controller->render( $view = 'fatalError', $layout = ??? ) | .../ExceptionRenderer.php:292 |
17 | 3.1204 | 69373504 | View->render( $view = 'fatalError', $layout = NULL ) | .../Controller.php:963 |
18 | 3.1229 | 69383656 | View->_render( $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/lib/Cake/View/Errors/fatal_error.ctp', $data = ??? ) | .../View.php:473 |
19 | 3.1229 | 69384600 | View->_evaluate( $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/lib/Cake/View/Errors/fatal_error.ctp', $dataForView = ['navigation_bar_info' => ['num_colinearity_runs' => 1, 'num_colinearity_with_dating_runs' => 0, 'num_functional_clusters_runs' => 6, 'has_pan_genomes' => FALSE], 'code' => 500, 'name' => 'Allowed memory size of 402653184 bytes exhausted (tried to allocate 16777224 bytes)', 'message' => 'Allowed memory size of 402653184 bytes exhausted (tried to allocate 16777224 bytes)', 'url' => '/plaza.dev/_dev_instances/feedback/orthologs/explore/Sopen11g020100/stu', 'error' => class FatalErrorException { protected $_attributes = [...]; protected $_messageTemplate = ''; protected $_responseHeaders = NULL; protected $message = 'Allowed memory size of 402653184 bytes exhausted (tried to allocate 16777224 bytes)'; private ${Exception}string = ''; protected $code = 500; protected $file = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/lib/Cake/Utility/Hash.php'; protected $line = 132; private ${Exception}trace = [...]; private ${Exception}previous = NULL }, '_serialize' => [0 => 'code', 1 => 'name', 2 => 'message', 3 => 'url']] ) | .../View.php:933 |
20 | 3.1257 | 69406344 | include( '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/lib/Cake/View/Errors/fatal_error.ctp ) | .../View.php:971 |
21 | 3.1342 | 69762040 | xdebug_print_function_stack( ) | .../fatal_error.ctp:37 |