OrthologsController Object
(
[name] => Orthologs
[helpers] => Array
(
[Session] =>
[Html] =>
[Form] =>
[Cache] =>
)
[uses] => Array
(
[0] => Annotation
[1] => AnnotSource
[2] => Configuration
[3] => DnaMotifsCns
[4] => GfDatum
[5] => Msa
[6] => Orthologs
[7] => Similarities
[8] => Trees
[9] => AdExperiments
[10] => FunctionalClustersExperiments
)
[components] => Array
(
[Session] =>
[DataUtils] =>
[FunctionalAnnotationUtils] =>
[GeneFamilies] =>
[Organism] =>
[Blast] =>
[WorkbenchUtils] =>
[Orthology] =>
)
[request] => CakeRequest Object
(
[params] => Array
(
[plugin] =>
[controller] => orthologs
[action] => overview
[named] => Array
(
)
[pass] => Array
(
[0] => Migut.N01168
)
)
[data] => Array
(
)
[query] => Array
(
)
[url] => orthologs/overview/Migut.N01168
[base] => /plaza.dev/_dev_instances/feedback
[webroot] => /plaza.dev/_dev_instances/feedback/
[here] => /plaza.dev/_dev_instances/feedback/orthologs/overview/Migut.N01168
[_detectors:protected] => Array
(
[get] => Array
(
[env] => REQUEST_METHOD
[value] => GET
)
[patch] => Array
(
[env] => REQUEST_METHOD
[value] => PATCH
)
[post] => Array
(
[env] => REQUEST_METHOD
[value] => POST
)
[put] => Array
(
[env] => REQUEST_METHOD
[value] => PUT
)
[delete] => Array
(
[env] => REQUEST_METHOD
[value] => DELETE
)
[head] => Array
(
[env] => REQUEST_METHOD
[value] => HEAD
)
[options] => Array
(
[env] => REQUEST_METHOD
[value] => OPTIONS
)
[ssl] => Array
(
[env] => HTTPS
[value] => 1
)
[ajax] => Array
(
[env] => HTTP_X_REQUESTED_WITH
[value] => XMLHttpRequest
)
[flash] => Array
(
[env] => HTTP_USER_AGENT
[pattern] => /^(Shockwave|Adobe) Flash/
)
[mobile] => Array
(
[env] => HTTP_USER_AGENT
[options] => Array
(
[0] => Android
[1] => AvantGo
[2] => BB10
[3] => BlackBerry
[4] => DoCoMo
[5] => Fennec
[6] => iPod
[7] => iPhone
[8] => iPad
[9] => J2ME
[10] => MIDP
[11] => NetFront
[12] => Nokia
[13] => Opera Mini
[14] => Opera Mobi
[15] => PalmOS
[16] => PalmSource
[17] => portalmmm
[18] => Plucker
[19] => ReqwirelessWeb
[20] => SonyEricsson
[21] => Symbian
[22] => UP\.Browser
[23] => webOS
[24] => Windows CE
[25] => Windows Phone OS
[26] => Xiino
)
)
[requested] => Array
(
[param] => requested
[value] => 1
)
[json] => Array
(
[accept] => Array
(
[0] => application/json
)
[param] => ext
[value] => json
)
[xml] => Array
(
[accept] => Array
(
[0] => application/xml
[1] => text/xml
)
[param] => ext
[value] => xml
)
)
[_input:protected] =>
)
[response] => CakeResponse Object
(
[_statusCodes:protected] => Array
(
[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
)
[_mimeTypes:protected] => Array
(
[html] => Array
(
[0] => text/html
[1] => */*
)
[json] => application/json
[xml] => Array
(
[0] => application/xml
[1] => text/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] => Array
(
[0] => text/csv
[1] => application/vnd.ms-excel
)
[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
[cc] => text/plain
[css] => text/css
[etx] => text/x-setext
[f] => text/plain
[f90] => text/plain
[h] => text/plain
[hh] => text/plain
[htm] => Array
(
[0] => text/html
[1] => */*
)
[ics] => text/calendar
[m] => text/plain
[rtf] => text/rtf
[rtx] => text/richtext
[sgm] => text/sgml
[sgml] => text/sgml
[tsv] => text/tab-separated-values
[tpl] => text/template
[txt] => text/plain
[text] => text/plain
[avi] => video/x-msvideo
[fli] => video/x-fli
[mov] => video/quicktime
[movie] => video/x-sgi-movie
[mpe] => video/mpeg
[mpeg] => video/mpeg
[mpg] => video/mpeg
[qt] => video/quicktime
[viv] => video/vnd.vivo
[vivo] => video/vnd.vivo
[ogv] => video/ogg
[webm] => video/webm
[mp4] => video/mp4
[m4v] => video/mp4
[f4v] => video/mp4
[f4p] => video/mp4
[m4a] => audio/mp4
[f4a] => audio/mp4
[f4b] => audio/mp4
[gif] => image/gif
[ief] => image/ief
[jpg] => image/jpeg
[jpeg] => image/jpeg
[jpe] => image/jpeg
[pbm] => image/x-portable-bitmap
[pgm] => image/x-portable-graymap
[png] => image/png
[pnm] => image/x-portable-anymap
[ppm] => image/x-portable-pixmap
[ras] => image/cmu-raster
[rgb] => image/x-rgb
[tif] => image/tiff
[tiff] => image/tiff
[xbm] => image/x-xbitmap
[xpm] => image/x-xpixmap
[xwd] => image/x-xwindowdump
[psd] => Array
(
[0] => application/photoshop
[1] => application/psd
[2] => image/psd
[3] => image/x-photoshop
[4] => image/photoshop
[5] => zz-application/zz-winassoc-psd
)
[ice] => x-conference/x-cooltalk
[iges] => model/iges
[igs] => model/iges
[mesh] => model/mesh
[msh] => model/mesh
[silo] => model/mesh
[vrml] => model/vrml
[wrl] => model/vrml
[mime] => www/mime
[pdb] => chemical/x-pdb
[xyz] => chemical/x-pdb
[javascript] => application/javascript
[form] => application/x-www-form-urlencoded
[file] => multipart/form-data
[xhtml] => Array
(
[0] => application/xhtml+xml
[1] => application/xhtml
[2] => text/xhtml
)
[xhtml-mobile] => application/vnd.wap.xhtml+xml
[atom] => application/atom+xml
[amf] => application/x-amf
[wap] => Array
(
[0] => text/vnd.wap.wml
[1] => text/vnd.wap.wmlscript
[2] => image/vnd.wap.wbmp
)
[wml] => text/vnd.wap.wml
[wmlscript] => text/vnd.wap.wmlscript
[wbmp] => image/vnd.wap.wbmp
[woff] => application/x-font-woff
[webp] => image/webp
[appcache] => text/cache-manifest
[manifest] => text/cache-manifest
[htc] => text/x-component
[rdf] => application/xml
[crx] => application/x-chrome-extension
[oex] => application/x-opera-extension
[xpi] => application/x-xpinstall
[safariextz] => application/octet-stream
[webapp] => application/x-web-app-manifest+json
[vcf] => text/x-vcard
[vtt] => text/vtt
[mkv] => video/x-matroska
[pkpass] => application/vnd.apple.pkpass
[ajax] => text/html
)
[_protocol:protected] => HTTP/1.1
[_status:protected] => 200
[_contentType:protected] => text/html
[_headers:protected] => Array
(
)
[_body:protected] =>
[_file:protected] =>
[_fileRange:protected] =>
[_charset:protected] => UTF-8
[_cacheDirectives:protected] => Array
(
)
[_cookies:protected] => Array
(
)
)
[_responseClass:protected] => CakeResponse
[viewPath] => Orthologs
[layoutPath] =>
[viewVars] => Array
(
[sidebar] => gene_sidebar
[navigation_bar_info] => Array
(
[num_colinearity_runs] => 1
[num_colinearity_with_dating_runs] => 0
[num_functional_clusters_runs] => 6
[has_pan_genomes] =>
[has_blast_db] => 1
)
[sidebar_information] => Array
(
[type] => gene_id
[id] => Migut.N01168
)
[all_organisms] => Array
(
[acertr] => Array
(
[species] => acertr
[common_name] => Acer truncatum
[tax_id] => 47965
[version] => v2.0
)
[ach] => Array
(
[species] => ach
[common_name] => Actinidia chinensis
[tax_id] => 3625
[version] => V3.0
)
[aar] => Array
(
[species] => aar
[common_name] => Aethionema arabicum
[tax_id] => 228871
[version] => v3.1
)
[amhyb] => Array
(
[species] => amhyb
[common_name] => Amaranthus hybridus
[tax_id] => 3565
[version] => v1.0
)
[atr] => Array
(
[species] => atr
[common_name] => Amborella trichopoda
[tax_id] => 13333
[version] => JGI v1.0
)
[aag] => Array
(
[species] => aag
[common_name] => Anthoceros agrestis
[tax_id] => 41834
[version] => v1.1
)
[aox] => Array
(
[species] => aox
[common_name] => Aquilegia oxysepala
[tax_id] => 432649
[version] => v1.0
)
[aly] => Array
(
[species] => aly
[common_name] => Arabidopsis lyrata
[tax_id] => 59689
[version] => JGI v2.1
)
[ath] => Array
(
[species] => ath
[common_name] => Arabidopsis thaliana
[tax_id] => 3702
[version] => Araport11
)
[arhy] => Array
(
[species] => arhy
[common_name] => Arachis hypogaea
[tax_id] => 3818
[version] => v1.0
)
[ama] => Array
(
[species] => ama
[common_name] => Avicennia marina
[tax_id] => 82927
[version] => v1.1 20200527
)
[bvu] => Array
(
[species] => bvu
[common_name] => Beta vulgaris
[tax_id] => 161934
[version] => EL10_1.0
)
[bca] => Array
(
[species] => bca
[common_name] => Brassica carinata
[tax_id] => 52824
[version] => V1.0
)
[bna] => Array
(
[species] => bna
[common_name] => Brassica napus
[tax_id] => 3708
[version] => v2.0
)
[bol] => Array
(
[species] => bol
[common_name] => Brassica oleracea
[tax_id] => 109376
[version] => v1.0
)
[bra] => Array
(
[species] => bra
[common_name] => Brassica rapa
[tax_id] => 3711
[version] => v1.0
)
[camsi] => Array
(
[species] => camsi
[common_name] => Camellia sinensis var. sinensis
[tax_id] => 542762
[version] => CSS_ChrLev_20200506
)
[cansat] => Array
(
[species] => cansat
[common_name] => Cannabis sativa
[tax_id] => 3483
[version] => cs10
)
[cru] => Array
(
[species] => cru
[common_name] => Capsella rubella
[tax_id] => 81985
[version] => JGI v1.1
)
[can] => Array
(
[species] => can
[common_name] => Capsicum annuum
[tax_id] => 4072
[version] => Pepper Genome v2.0
)
[chi] => Array
(
[species] => chi
[common_name] => Cardamine hirsuta
[tax_id] => 50463
[version] => v1.0
)
[cpa] => Array
(
[species] => cpa
[common_name] => Carica papaya
[tax_id] => 3649
[version] => JGI ASGPB0.4
)
[cfa] => Array
(
[species] => cfa
[common_name] => Carpinus fangiana
[tax_id] => 176857
[version] => v1.0
)
[cil] => Array
(
[species] => cil
[common_name] => Carya illinoinensis
[tax_id] => 32201
[version] => v1.1
)
[cde] => Array
(
[species] => cde
[common_name] => Ceratophyllum demersum
[tax_id] => 4428
[version] => v1.0
)
[cbr] => Array
(
[species] => cbr
[common_name] => Chara braunii
[tax_id] => 69332
[version] => Cbr1.0
)
[cqu] => Array
(
[species] => cqu
[common_name] => Chenopodium quinoa
[tax_id] => 63459
[version] => KAUST v1.0
)
[cre] => Array
(
[species] => cre
[common_name] => Chlamydomonas reinhardtii
[tax_id] => 3055
[version] => JGI v5.5
)
[car] => Array
(
[species] => car
[common_name] => Cicer arietinum L.
[tax_id] => 3827
[version] => v3.0
)
[cla] => Array
(
[species] => cla
[common_name] => Citrullus lanatus
[tax_id] => 3654
[version] => WCG v2.0
)
[ccl] => Array
(
[species] => ccl
[common_name] => Citrus clementina
[tax_id] => 85681
[version] => JGI v1.0
)
[ccan] => Array
(
[species] => ccan
[common_name] => Coffea canephora
[tax_id] => 49390
[version] => Coffee Genome Hub v1
)
[col] => Array
(
[species] => col
[common_name] => Corchorus olitorius
[tax_id] => 93759
[version] => GenBank v1.0
)
[cav] => Array
(
[species] => cav
[common_name] => Corylus avellana
[tax_id] => 13451
[version] => v1.0
)
[cme] => Array
(
[species] => cme
[common_name] => Cucumis melo
[tax_id] => 3656
[version] => Melonomics v3.6.1
)
[csa] => Array
(
[species] => csa
[common_name] => Cucumis sativus L.
[tax_id] => 3659
[version] => v3.0
)
[dca] => Array
(
[species] => dca
[common_name] => Daucus carota
[tax_id] => 4039
[version] => JGI v2.0
)
[din] => Array
(
[species] => din
[common_name] => Davidia involucrata
[tax_id] => 16924
[version] => v1.0
)
[dzi] => Array
(
[species] => dzi
[common_name] => Durio zibethinus
[tax_id] => 66656
[version] => Duzib1.0
)
[eca] => Array
(
[species] => eca
[common_name] => Erigeron canadensis
[tax_id] => 72917
[version] => V1.0
)
[egut] => Array
(
[species] => egut
[common_name] => Erythranthe guttata
[tax_id] => 4155
[version] => v2.0
)
[egr] => Array
(
[species] => egr
[common_name] => Eucalyptus grandis
[tax_id] => 71139
[version] => v2.0
)
[esa] => Array
(
[species] => esa
[common_name] => Eutrema salsugineum
[tax_id] => 72664
[version] => v1.0
)
[fve] => Array
(
[species] => fve
[common_name] => Fragaria vesca
[tax_id] => 57918
[version] => V4.0.a2
)
[fan] => Array
(
[species] => fan
[common_name] => Fragaria x ananassa
[tax_id] => 3747
[version] => V1.0.a1
)
[gma] => Array
(
[species] => gma
[common_name] => Glycine max
[tax_id] => 3847
[version] => JGI Wm82.a4.v1
)
[ghi] => Array
(
[species] => ghi
[common_name] => Gossypium hirsutum
[tax_id] => 3635
[version] => v2.1
)
[gra] => Array
(
[species] => gra
[common_name] => Gossypium raimondii
[tax_id] => 29730
[version] => v2.1
)
[han] => Array
(
[species] => han
[common_name] => Helianthus annuus
[tax_id] => 4232
[version] => r1.2
)
[hma] => Array
(
[species] => hma
[common_name] => Hydrangea macrophylla
[tax_id] => 23110
[version] => v2.1
)
[lsa] => Array
(
[species] => lsa
[common_name] => Lactuca sativa
[tax_id] => 4236
[version] => v8.0
)
[lonja] => Array
(
[species] => lonja
[common_name] => Lonicera japonica
[tax_id] => 105884
[version] => v1.0
)
[lja] => Array
(
[species] => lja
[common_name] => Lotus japonicus
[tax_id] => 34305
[version] => Lj1.0v1
)
[lal] => Array
(
[species] => lal
[common_name] => Lupinus albus
[tax_id] => 3870
[version] => v1.0
)
[mbi] => Array
(
[species] => mbi
[common_name] => Magnolia biondii
[tax_id] => 86725
[version] => v1.0
)
[mdo] => Array
(
[species] => mdo
[common_name] => Malus domestica
[tax_id] => 3750
[version] => GDDH13 v1.1
)
[mes] => Array
(
[species] => mes
[common_name] => Manihot esculenta
[tax_id] => 3983
[version] => v8.1
)
[mpo] => Array
(
[species] => mpo
[common_name] => Marchantia polymorpha
[tax_id] => 3197
[version] => JGI v3.1
)
[mtr] => Array
(
[species] => mtr
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[19] => HanXRQChr17g0544881
[20] => HanXRQChr17g0567191
[21] => HanXRQChr14g0460111
[22] => HanXRQChr07g0203681
)
[anchor_point] => Array
(
[0] => HanXRQChr16g0508421
)
[BHIF] => Array
(
[0] => HanXRQChr10g0292351
)
)
[hma] => Array
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[3] => Hma1.2p1_1283F.1_g272770
[4] => Hma1.2p1_1141F.1_g260920
[5] => Hma1.2p1_0763F.1_g214550
[6] => Hma1.2p1_0216F.1_g091220
[7] => Hma1.2p1_0910F.1_g235860
[8] => Hma1.2p1_0623F.1_g191150
[9] => Hma1.2p1_0185F.1_g081440
[10] => Hma1.2p1_0161F.1_g071990
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[BHIF] => Array
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[0] => Hma1.2p1_1303F.1_g274450
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[ORTHO] => Array
(
[0] => Lalb_Chr06g0175281
[1] => Lalb_Chr02g0141311
[2] => Lalb_Chr10g0096411
[3] => Lalb_Chr05g0224401
[4] => Lalb_Chr21g0308751
[5] => Lalb_Chr17g0338971
[6] => Lalb_Chr02g0145311
[7] => Lalb_Chr16g0390321
[8] => Lalb_Chr07g0193361
[9] => Lalb_Chr04g0249021
[10] => Lalb_Chr10g0096581
[11] => Lalb_Chr14g0370971
[12] => Lalb_Chr21g0308361
[13] => Lalb_Chr15g0085581
[14] => Lalb_Chr09g0332821
[15] => Lalb_Chr21g0305301
[16] => Lalb_Chr10g0106471
)
[anchor_point] => Array
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[0] => Lalb_Chr02g0145311
[1] => Lalb_Chr21g0308361
)
[BHIF] => Array
(
[0] => Lalb_Chr02g0145311
[1] => Lalb_Chr21g0308361
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)
[lja] => Array
(
[ORTHO] => Array
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[0] => Lj4g0019956
[1] => Lj2g0024273
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[3] => Lj5g0005416
[4] => Lj5g0024721
[5] => Lj6g0019954
[6] => Lj3g0011672
[7] => Lj3g0004721
[8] => Lj5g0011100
[9] => Lj2g0022002
[10] => LjContig00049g0027395
[11] => Lj4g0007230
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[anchor_point] => Array
(
[0] => Lj5g0005416
)
[BHIF] => Array
(
[0] => Lj5g0005416
)
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[lonja] => Array
(
[ORTHO] => Array
(
[0] => Lj1A1009T49
[1] => Lj1C109G10
[2] => Lj9C425T9
[3] => Lj9A589T61
[4] => Lj3A880T117
[5] => Lj8A99T66
[6] => Lj9A321T84
[7] => Lj3A916T20
[8] => Lj1A651T47
[9] => Lj6C753T16
[10] => Lj9C590T15
[11] => Lj8A215T39
[12] => Lj2C78T12
[13] => Lj8A55G91
)
[anchor_point] => Array
(
[0] => Lj9A321T84
)
[BHIF] => Array
(
[0] => Lj9A321T84
)
)
[lsa] => Array
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[ORTHO] => Array
(
[0] => Lsat_1_v5_gn_9_57040
[1] => Lsat_1_v5_gn_8_141581
[2] => Lsat_1_v5_gn_3_9921
[3] => Lsat_1_v5_gn_4_14841
[4] => Lsat_1_v5_gn_8_6361
[5] => Lsat_1_v5_gn_5_114901
[6] => Lsat_1_v5_gn_5_155541
[7] => Lsat_1_v5_gn_7_86441
[8] => Lsat_1_v5_gn_3_138621
[9] => Lsat_1_v5_gn_3_35581
[10] => Lsat_1_v5_gn_8_86660
[11] => Lsat_1_v5_gn_8_98740
[12] => Lsat_1_v5_gn_2_124901
[13] => Lsat_1_v5_gn_8_41400
[14] => Lsat_1_v5_gn_6_84741
)
[anchor_point] => Array
(
[0] => Lsat_1_v5_gn_5_114901
[1] => Lsat_1_v5_gn_7_86441
)
[BHIF] => Array
(
[0] => Lsat_1_v5_gn_7_86441
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)
[mbi] => Array
(
[ORTHO] => Array
(
[0] => MBI16_g44833_MAGBIO
[1] => MBI15_g22000_MAGBIO
[2] => MBI07_g11739_MAGBIO
[3] => MBI14_g32933_MAGBIO
[4] => MBI02_g08988_MAGBIO
[5] => MBI03_g16540_MAGBIO
[6] => MBI06_g33544_MAGBIO
[7] => MBI15_g05587_MAGBIO
[8] => MBI09_g25157_MAGBIO
)
[BHIF] => Array
(
[0] => MBI14_g32933_MAGBIO
)
)
[mdo] => Array
(
[ORTHO] => Array
(
[0] => MD03G1046600
[1] => MD14G1115200
[2] => MD17G1132800
[3] => MD12G1159300
[4] => MD05G1328600
[5] => MD14G1229700
[6] => MD07G1130400
[7] => MD01G1072500
[8] => MD11G1049400
[9] => MD10G1096800
[10] => MD06G1220200
[11] => MD07G1281900
[12] => MD01G1164400
[13] => MD05G1088700
[14] => MD16G1037300
[15] => MD07G1232000
[16] => MD05G1089300
[17] => MD01G1211100
[18] => MD06G1095200
[19] => MD04G1146100
[20] => MD09G1146200
[21] => MD01G1164300
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[anchor_point] => Array
(
[0] => MD10G1096800
[1] => MD05G1088700
)
[BHIF] => Array
(
[0] => MD10G1096800
[1] => MD05G1088700
)
)
[mes] => Array
(
[ORTHO] => Array
(
[0] => Manes.02G090000
[1] => Manes.10G076400
[2] => Manes.14G106700
[3] => Manes.06G065100
[4] => Manes.02G209200
[5] => Manes.09G101400
[6] => Manes.07G069748
[7] => Manes.01G251700
[8] => Manes.14G020500
[9] => Manes.02G015500
[10] => Manes.10G000600
[11] => Manes.08G087000
[12] => Manes.05G028300
[13] => Manes.01G131400
[14] => Manes.05G132800
)
[anchor_point] => Array
(
[0] => Manes.10G076400
[1] => Manes.07G069748
)
[BHIF] => Array
(
[0] => Manes.10G076400
[1] => Manes.07G069748
)
)
[mpo] => Array
(
[ORTHO] => Array
(
[0] => Mapoly0035s0106
)
[BHIF] => Array
(
[0] => Mapoly0035s0106
)
)
[mtr] => Array
(
[ORTHO] => Array
(
[0] => Medtr3g449880
[1] => Medtr1g109630
[2] => Medtr1g099500
[3] => Medtr1g107445
[4] => Medtr4g014700
[5] => Medtr8g099060
[6] => Medtr5g090340
[7] => Medtr6g012460
[8] => Medtr3g062910
[9] => Medtr8g028450
)
[anchor_point] => Array
(
[0] => Medtr1g107445
)
[BHIF] => Array
(
[0] => Medtr1g107445
)
)
[nnu] => Array
(
[ORTHO] => Array
(
[0] => Nn7g37312
[1] => Nn1g01716
[2] => Nn5g26759
[3] => Nn5g26864
[4] => Nn3g17944
[5] => Nn5g30420
[6] => Nn2g13586
[7] => Nn7g37819
[8] => Nn4g23951
)
[anchor_point] => Array
(
[0] => Nn5g30420
)
[BHIF] => Array
(
[0] => Nn5g30420
)
)
[nta] => Array
(
[ORTHO] => Array
(
[0] => Nitab4.5_0000008g0580
[1] => Nitab4.5_0007207g0040
[2] => Nitab4.5_0000560g0080
[3] => Nitab4.5_0004599g0040
[4] => Nitab4.5_0008852g0020
[5] => Nitab4.5_0007898g0020
[6] => Nitab4.5_0000057g0060
[7] => Nitab4.5_0002112g0080
[8] => Nitab4.5_0003501g0030
[9] => Nitab4.5_0001185g0070
[10] => Nitab4.5_0017493g0010
[11] => Nitab4.5_0001986g0040
[12] => Nitab4.5_0004028g0080
[13] => Nitab4.5_0000105g0370
[14] => Nitab4.5_0003208g0020
[15] => Nitab4.5_0012890g0010
[16] => Nitab4.5_0001748g0080
[17] => Nitab4.5_0005715g0010
[18] => Nitab4.5_0001552g0140
[19] => Nitab4.5_0002399g0070
[20] => Nitab4.5_0018206g0010
[21] => Nitab4.5_0014487g0010
[22] => Nitab4.5_0000915g0030
[23] => Nitab4.5_0008026g0010
[24] => Nitab4.5_0000200g0110
[25] => Nitab4.5_0000195g0160
[26] => Nitab4.5_0007694g0020
[27] => Nitab4.5_0005392g0110
[28] => Nitab4.5_0008514g0010
[29] => Nitab4.5_0003346g0030
[30] => Nitab4.5_0006254g0030
[31] => Nitab4.5_0002815g0070
[32] => Nitab4.5_0002902g0050
)
[BHIF] => Array
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[0] => Nitab4.5_0005392g0110
[1] => Nitab4.5_0002815g0070
)
[anchor_point] => Array
(
[0] => Nitab4.5_0002815g0070
)
)
[oeu] => Array
(
[ORTHO] => Array
(
[0] => Oeu007465.1
[1] => Oeu063674.1
[2] => Oeu014297.1
[3] => Oeu049929.1
[4] => Oeu036896.1
[5] => Oeu044368.1
[6] => Oeu028726.1
[7] => Oeu011804.1
[8] => Oeu000986.1
[9] => Oeu003334.1
[10] => Oeu017511.1
[11] => Oeu037134.1
[12] => Oeu020455.1
[13] => Oeu061672.1
[14] => Oeu019618.1
[15] => Oeu044287.1
[16] => Oeu009286.1
[17] => Oeu018595.1
[18] => Oeu010399.1
[19] => Oeu020457.1
[20] => Oeu040802.1
[21] => Oeu004612.1
)
[anchor_point] => Array
(
[0] => Oeu044287.1
[1] => Oeu018595.1
[2] => Oeu010399.1
)
[BHIF] => Array
(
[0] => Oeu010399.1
)
)
[osa] => Array
(
[ORTHO] => Array
(
[0] => Os04g0670000
[1] => Os01g0851300
[2] => Os03g0781700
[3] => Os01g0691400
[4] => Os01g0139000
[5] => Os05g0550250
[6] => Os06g0503400
[7] => Os03g0336600
[8] => Os02g0265900
[9] => Os01g0736900
[10] => Os04g0367400
[11] => Os07g0142000
[12] => Os05g0312500
[13] => Os05g0526400
[14] => Os01g0226300
)
[BHIF] => Array
(
[0] => Os04g0670000
)
)
[pax] => Array
(
[ORTHO] => Array
(
[0] => Peaxi162Scf00016g02327
[1] => Peaxi162Scf00057g00024
[2] => Peaxi162Scf00618g00632
[3] => Peaxi162Scf00047g02228
[4] => Peaxi162Scf00739g00320
[5] => Peaxi162Scf00020g01618
[6] => Peaxi162Scf00141g00129
[7] => Peaxi162Scf00683g00152
[8] => Peaxi162Scf00074g01523
[9] => Peaxi162Scf00179g00539
[10] => Peaxi162Scf00359g01219
[11] => Peaxi162Scf00390g00138
[12] => Peaxi162Scf00293g00720
)
[anchor_point] => Array
(
[0] => Peaxi162Scf00016g02327
)
[BHIF] => Array
(
[0] => Peaxi162Scf00016g02327
)
)
[pco] => Array
(
[ORTHO] => Array
(
[0] => PRCOL_00003468
)
[BHIF] => Array
(
[0] => PRCOL_00003468
)
)
[pgr] => Array
(
[ORTHO] => Array
(
[0] => PGR142G4457
[1] => PGR031G3320
[2] => PGR142G1252
[3] => PGR031G2795
[4] => PGR042G3814
[5] => PGR042G3036
[6] => PGR031G3948
[7] => PGR042G2225
[8] => PGR044G2020
[9] => PGR142G1444
[10] => PGR031G1476
)
[anchor_point] => Array
(
[0] => PGR142G4457
)
[BHIF] => Array
(
[0] => PGR142G4457
)
)
[ppa] => Array
(
[ORTHO] => Array
(
[0] => Pp3c3_26400
[1] => Pp3c3_26340
[2] => Pp3c12_4500
[3] => Pp3c13_21220
[4] => Pp3c4_16380
[5] => Pp3c13_21070
)
[BHIF] => Array
(
[0] => Pp3c3_26400
[1] => Pp3c3_26340
[2] => Pp3c12_4500
[3] => Pp3c13_21220
[4] => Pp3c4_16380
[5] => Pp3c13_21070
)
)
[ppe] => Array
(
[ORTHO] => Array
(
[0] => Prupe.1G316500
[1] => Prupe.2G303500
[2] => Prupe.8G134700
[3] => Prupe.6G037900
[4] => Prupe.6G269700
[5] => Prupe.2G262100
[6] => Prupe.5G224500
[7] => Prupe.5G224600
[8] => Prupe.3G179500
[9] => Prupe.2G178800
[10] => Prupe.5G110100
)
[anchor_point] => Array
(
[0] => Prupe.8G134700
)
[BHIF] => Array
(
[0] => Prupe.8G134700
)
)
[psa] => Array
(
[ORTHO] => Array
(
[0] => Psat1g035160
[1] => Psat1g072960
[2] => Psat6g219160
[3] => Psat4g158160
[4] => Psat5g146480
[5] => Psat6g224560
[6] => Psat7g028880
[7] => Psat6g195280
[8] => Psat5g189200
[9] => Psat2g018320
[10] => Psat7g246960
)
[BHIF] => Array
(
[0] => Psat6g219160
)
)
[pso] => Array
(
[ORTHO] => Array
(
[0] => PSO384G0793
[1] => PSO339G0179
[2] => PSO017G3936
[3] => PSO339G0789
[4] => PSO585G0032
[5] => PSO675G6687
[6] => PSO135G0993
[7] => PSO339G6702
[8] => PSO384G4042
[9] => PSO210G0167
[10] => PSO170G5375
[11] => PSO455G0249
[12] => PSO458G0001
[13] => PSO339G4416
[14] => PSO519G0001
[15] => PSO503G0002
[16] => PSO541G2630
[17] => PSO724G0317
[18] => PSO210G4497
[19] => PSO384G2558
[20] => PSO017G0551
[21] => PSO384G0409
[22] => PSO478G4757
[23] => PSO170G0951
)
[BHIF] => Array
(
[0] => PSO170G5375
[1] => PSO210G4497
)
[anchor_point] => Array
(
[0] => PSO541G2630
[1] => PSO210G4497
)
)
[ptr] => Array
(
[ORTHO] => Array
(
[0] => Potri.002G165400
[1] => Potri.012G035600
[2] => Potri.019G057400
[3] => Potri.008G124200
[4] => Potri.012G054100
[5] => Potri.014G091200
[6] => Potri.013G160900
[7] => Potri.001G300400
[8] => Potri.005G206800
[9] => Potri.015G027300
[10] => Potri.015G044300
[11] => Potri.009G096200
[12] => Potri.001G097700
[13] => Potri.003G133600
[14] => Potri.002G055600
[15] => Potri.016G110200
)
[anchor_point] => Array
(
[0] => Potri.001G300400
[1] => Potri.009G096200
)
[BHIF] => Array
(
[0] => Potri.009G096200
)
)
[pvu] => Array
(
[ORTHO] => Array
(
[0] => Phvul.002G294100
[1] => Phvul.006G082100
[2] => Phvul.004G154000
[3] => Phvul.007G075900
[4] => Phvul.010G007900
[5] => Phvul.010G105400
[6] => Phvul.008G196600
[7] => Phvul.006G028000
[8] => Phvul.007G031700
[9] => Phvul.004G029300
[10] => Phvul.008G057300
[11] => Phvul.007G040100
)
[anchor_point] => Array
(
[0] => Phvul.007G040100
)
[BHIF] => Array
(
[0] => Phvul.007G040100
)
)
[qlo] => Array
(
[ORTHO] => Array
(
[0] => QL09p012127
[1] => QL04p055886
[2] => QL01p010836
[3] => QL93p0145_0005
[4] => QL07p000150
[5] => QL07p036162
[6] => QL08p045543
[7] => QL11p033910
[8] => QL08p064593
[9] => QL11p033749
[10] => QL02p032720
[11] => QL10p026491
)
[BHIF] => Array
(
[0] => QL11p033910
)
[anchor_point] => Array
(
[0] => QL11p033749
)
)
[rch] => Array
(
[ORTHO] => Array
(
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[1] => RcHm_v2.0_Chr6g0255361
[2] => RcHm_v2.0_Chr1g0371931
[3] => RcHm_v2.0_Chr4g0434431
[4] => RcHm_v2.0_Chr5g0074001
[5] => RcHm_v2.0_Chr7g0196181
[6] => RcHm_v2.0_Chr1g0379491
[7] => RcHm_v2.0_Chr2g0115581
[8] => RcHm_v2.0_Chr2g0112901
[9] => RcHm_v2.0_Chr1g0357851
[10] => RcHm_v2.0_Chr2g0152491
[11] => RcHm_v2.0_Chr3g0463981
)
[anchor_point] => Array
(
[0] => RcHm_v2.0_Chr6g0255361
)
[BHIF] => Array
(
[0] => RcHm_v2.0_Chr6g0255361
)
)
[rsi] => Array
(
[ORTHO] => Array
(
[0] => Rhsim05G0204600
[1] => Rhsim02G0236800
[2] => Rhsim03G0195600
[3] => Rhsim09G0202400
[4] => Rhsim12G0141800
[5] => RhsimUnG0075500
[6] => Rhsim12G0141900
[7] => Rhsim12G0013600
[8] => Rhsim01G0167600
[9] => Rhsim09G0185100
[10] => RhsimUnG0097600
)
[BHIF] => Array
(
[0] => Rhsim05G0088300
[1] => Rhsim11G0160200
)
)
[sas] => Array
(
[ORTHO] => Array
(
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[1] => SGA_v2.0_scaffold120G33006
[2] => SGA_v2.0_scaffold95G28801
[3] => SGA_v2.0_scaffold225G43079
[4] => SGA_v2.0_scaffold4G02275
[5] => SGA_v2.0_scaffold36G14562
[6] => SGA_v2.0_scaffold111G31460
[7] => SGA_v2.0_scaffold10G05274
[8] => SGA_v2.0_scaffold144G35893
[9] => SGA_v2.0_scaffold44G16762
[10] => SGA_v2.0_scaffold181G39724
[11] => SGA_v2.0_scaffold384G50438
[12] => SGA_v2.0_scaffold77G25346
[13] => SGA_v2.0_scaffold38G15001
[14] => SGA_v2.0_scaffold393G50709
[15] => SGA_v2.0_scaffold192G40610
)
[anchor_point] => Array
(
[0] => SGA_v2.0_scaffold393G50709
)
[BHIF] => Array
(
[0] => SGA_v2.0_scaffold393G50709
)
)
[sbo] => Array
(
[ORTHO] => Array
(
[0] => SalBow3G0028
[1] => SalBow6G2531
[2] => SalBow4G1338
[3] => SalBow4G0112
[4] => SalBow2G0020
[5] => SalBow3G3721
[6] => SalBow7G0348
[7] => SalBow2G2189
[8] => SalBow4G0666
[9] => SalBow1G1646
[10] => SalBow8G2753
)
[anchor_point] => Array
(
[0] => SalBow6G2531
[1] => SalBow3G3721
)
[BHIF] => Array
(
[0] => SalBow3G3721
)
)
[sbr] => Array
(
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[ortholog_types] => Array
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[full_name] => Orthologous gene family
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[anchor_point] => Array
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[BHIF] => Array
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)
)
[title_for_layout] => Dicots PLAZA 5.0 : Integrative Orthology
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[view] => overview
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[autoRender] => 1
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[Components] => ComponentCollection Object
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[Blast] => Array
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[GenomeBrowser] => Array
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[GeneFamilies] => GeneFamiliesComponent Object
(
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[controller:GeneFamiliesComponent:private] => OrthologsController Object
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*RECURSION*
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[FunctionalAnnotationUtils] => FunctionalAnnotationUtilsComponent Object
(
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[_Collection:protected] => ComponentCollection Object
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[GeneFamilies] => GeneFamiliesComponent Object
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[controller:GeneFamiliesComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
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[components] => Array
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[_componentMap:protected] => Array
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)
[Organism] => OrganismComponent Object
(
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[controller:OrganismComponent:private] => OrthologsController Object
*RECURSION*
[components] => Array
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[_Collection:protected] => ComponentCollection Object
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[_componentMap:protected] => Array
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)
[Blast] => BlastComponent Object
(
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[controller] => OrthologsController Object
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[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
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[_componentMap:protected] => Array
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)
[WorkbenchUtils] => WorkbenchUtilsComponent Object
(
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)
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[Orthology] => OrthologyComponent Object
(
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[controller:OrthologyComponent:private] => OrthologsController Object
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*RECURSION*
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)
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[viewClass] => View
[View] =>
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[plugin] =>
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[scaffold] =>
[methods] => Array
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[modelClass] => Annotation
[modelKey] => ortholog
[validationErrors] =>
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[_eventManager:protected] => CakeEventManager Object
(
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[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
)
[FunctionalAnnotationUtils] => FunctionalAnnotationUtilsComponent Object
(
[name] => FunctionalAnnotationUtils
[controller] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => FunctionalUtils
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
)
)
[GeneFamilies] => GeneFamiliesComponent Object
(
[name] => GeneFamilies
[controller:GeneFamiliesComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[Organism] => OrganismComponent Object
(
[name] => Organism
[controller:OrganismComponent:private] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => GenomeBrowser
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[GenomeBrowser] => Array
(
[class] => GenomeBrowser
[settings] => Array
(
)
)
)
)
[Blast] => BlastComponent Object
(
[name] => Blast
[controller] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[WorkbenchUtils] => WorkbenchUtilsComponent Object
(
[name] => WorkbenchUtils
[controller:WorkbenchUtilsComponent:private] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => ExternalPrograms
[1] => FormUtils
[2] => FunctionalUtils
[3] => GeneFamilies
[4] => WorkbenchSharedAccessRights
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[ExternalPrograms] => Array
(
[class] => ExternalPrograms
[settings] => Array
(
)
)
[FormUtils] => Array
(
[class] => FormUtils
[settings] => Array
(
)
)
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
[GeneFamilies] => Array
(
[class] => GeneFamilies
[settings] => Array
(
)
)
[WorkbenchSharedAccessRights] => Array
(
[class] => WorkbenchSharedAccessRights
[settings] => Array
(
)
)
)
)
[Orthology] => OrthologyComponent Object
(
[name] => Orthology
[controller:OrthologyComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
)
[defaultPriority] => 10
)
[1] => trigger
)
[passParams] =>
)
[1] => Array
(
[callable] => Array
(
[0] => OrthologsController Object
*RECURSION*
[1] => beforeFilter
)
[passParams] =>
)
)
)
[Controller.startup] => Array
(
[10] => Array
(
[0] => Array
(
[callable] => Array
(
[0] => ComponentCollection Object
(
[_Controller:protected] => OrthologsController Object
*RECURSION*
[_enabled:protected] => Array
(
[Session] => Array
(
[0] => 10
[1] => 1
)
[DataUtils] => Array
(
[0] => 10
[1] => 2
)
[FunctionalAnnotationUtils] => Array
(
[0] => 10
[1] => 3
)
[GeneFamilies] => Array
(
[0] => 10
[1] => 4
)
[Organism] => Array
(
[0] => 10
[1] => 5
)
[Blast] => Array
(
[0] => 10
[1] => 6
)
[WorkbenchUtils] => Array
(
[0] => 10
[1] => 7
)
[Orthology] => Array
(
[0] => 10
[1] => 8
)
)
[_loaded:protected] => Array
(
[Session] => SessionComponent Object
(
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[DataUtils] => DataUtilsComponent Object
(
[name] => DataUtils
[controller] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => ExternalPrograms
[1] => FunctionalUtils
[2] => GeneFamilies
[3] => GenomeBrowser
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[ExternalPrograms] => Array
(
[class] => ExternalPrograms
[settings] => Array
(
)
)
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
[GeneFamilies] => Array
(
[class] => GeneFamilies
[settings] => Array
(
)
)
[GenomeBrowser] => Array
(
[class] => GenomeBrowser
[settings] => Array
(
)
)
)
[GeneFamilies] => GeneFamiliesComponent Object
(
[name] => GeneFamilies
[controller:GeneFamiliesComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
)
[FunctionalAnnotationUtils] => FunctionalAnnotationUtilsComponent Object
(
[name] => FunctionalAnnotationUtils
[controller] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => FunctionalUtils
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
)
)
[GeneFamilies] => GeneFamiliesComponent Object
(
[name] => GeneFamilies
[controller:GeneFamiliesComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[Organism] => OrganismComponent Object
(
[name] => Organism
[controller:OrganismComponent:private] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => GenomeBrowser
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[GenomeBrowser] => Array
(
[class] => GenomeBrowser
[settings] => Array
(
)
)
)
)
[Blast] => BlastComponent Object
(
[name] => Blast
[controller] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[WorkbenchUtils] => WorkbenchUtilsComponent Object
(
[name] => WorkbenchUtils
[controller:WorkbenchUtilsComponent:private] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => ExternalPrograms
[1] => FormUtils
[2] => FunctionalUtils
[3] => GeneFamilies
[4] => WorkbenchSharedAccessRights
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[ExternalPrograms] => Array
(
[class] => ExternalPrograms
[settings] => Array
(
)
)
[FormUtils] => Array
(
[class] => FormUtils
[settings] => Array
(
)
)
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
[GeneFamilies] => Array
(
[class] => GeneFamilies
[settings] => Array
(
)
)
[WorkbenchSharedAccessRights] => Array
(
[class] => WorkbenchSharedAccessRights
[settings] => Array
(
)
)
)
)
[Orthology] => OrthologyComponent Object
(
[name] => Orthology
[controller:OrthologyComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
)
[defaultPriority] => 10
)
[1] => trigger
)
[passParams] =>
)
)
)
[Controller.beforeRender] => Array
(
[10] => Array
(
[0] => Array
(
[callable] => Array
(
[0] => ComponentCollection Object
(
[_Controller:protected] => OrthologsController Object
*RECURSION*
[_enabled:protected] => Array
(
[Session] => Array
(
[0] => 10
[1] => 1
)
[DataUtils] => Array
(
[0] => 10
[1] => 2
)
[FunctionalAnnotationUtils] => Array
(
[0] => 10
[1] => 3
)
[GeneFamilies] => Array
(
[0] => 10
[1] => 4
)
[Organism] => Array
(
[0] => 10
[1] => 5
)
[Blast] => Array
(
[0] => 10
[1] => 6
)
[WorkbenchUtils] => Array
(
[0] => 10
[1] => 7
)
[Orthology] => Array
(
[0] => 10
[1] => 8
)
)
[_loaded:protected] => Array
(
[Session] => SessionComponent Object
(
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[DataUtils] => DataUtilsComponent Object
(
[name] => DataUtils
[controller] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => ExternalPrograms
[1] => FunctionalUtils
[2] => GeneFamilies
[3] => GenomeBrowser
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[ExternalPrograms] => Array
(
[class] => ExternalPrograms
[settings] => Array
(
)
)
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
[GeneFamilies] => Array
(
[class] => GeneFamilies
[settings] => Array
(
)
)
[GenomeBrowser] => Array
(
[class] => GenomeBrowser
[settings] => Array
(
)
)
)
[GeneFamilies] => GeneFamiliesComponent Object
(
[name] => GeneFamilies
[controller:GeneFamiliesComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
)
[FunctionalAnnotationUtils] => FunctionalAnnotationUtilsComponent Object
(
[name] => FunctionalAnnotationUtils
[controller] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => FunctionalUtils
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
)
)
[GeneFamilies] => GeneFamiliesComponent Object
(
[name] => GeneFamilies
[controller:GeneFamiliesComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[Organism] => OrganismComponent Object
(
[name] => Organism
[controller:OrganismComponent:private] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => GenomeBrowser
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[GenomeBrowser] => Array
(
[class] => GenomeBrowser
[settings] => Array
(
)
)
)
)
[Blast] => BlastComponent Object
(
[name] => Blast
[controller] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[WorkbenchUtils] => WorkbenchUtilsComponent Object
(
[name] => WorkbenchUtils
[controller:WorkbenchUtilsComponent:private] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => ExternalPrograms
[1] => FormUtils
[2] => FunctionalUtils
[3] => GeneFamilies
[4] => WorkbenchSharedAccessRights
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[ExternalPrograms] => Array
(
[class] => ExternalPrograms
[settings] => Array
(
)
)
[FormUtils] => Array
(
[class] => FormUtils
[settings] => Array
(
)
)
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
[GeneFamilies] => Array
(
[class] => GeneFamilies
[settings] => Array
(
)
)
[WorkbenchSharedAccessRights] => Array
(
[class] => WorkbenchSharedAccessRights
[settings] => Array
(
)
)
)
)
[Orthology] => OrthologyComponent Object
(
[name] => Orthology
[controller:OrthologyComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
)
[defaultPriority] => 10
)
[1] => trigger
)
[passParams] =>
)
[1] => Array
(
[callable] => Array
(
[0] => OrthologsController Object
*RECURSION*
[1] => beforeRender
)
[passParams] =>
)
)
)
[Controller.beforeRedirect] => Array
(
[10] => Array
(
[0] => Array
(
[callable] => Array
(
[0] => ComponentCollection Object
(
[_Controller:protected] => OrthologsController Object
*RECURSION*
[_enabled:protected] => Array
(
[Session] => Array
(
[0] => 10
[1] => 1
)
[DataUtils] => Array
(
[0] => 10
[1] => 2
)
[FunctionalAnnotationUtils] => Array
(
[0] => 10
[1] => 3
)
[GeneFamilies] => Array
(
[0] => 10
[1] => 4
)
[Organism] => Array
(
[0] => 10
[1] => 5
)
[Blast] => Array
(
[0] => 10
[1] => 6
)
[WorkbenchUtils] => Array
(
[0] => 10
[1] => 7
)
[Orthology] => Array
(
[0] => 10
[1] => 8
)
)
[_loaded:protected] => Array
(
[Session] => SessionComponent Object
(
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[DataUtils] => DataUtilsComponent Object
(
[name] => DataUtils
[controller] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => ExternalPrograms
[1] => FunctionalUtils
[2] => GeneFamilies
[3] => GenomeBrowser
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[ExternalPrograms] => Array
(
[class] => ExternalPrograms
[settings] => Array
(
)
)
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
[GeneFamilies] => Array
(
[class] => GeneFamilies
[settings] => Array
(
)
)
[GenomeBrowser] => Array
(
[class] => GenomeBrowser
[settings] => Array
(
)
)
)
[GeneFamilies] => GeneFamiliesComponent Object
(
[name] => GeneFamilies
[controller:GeneFamiliesComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
)
[FunctionalAnnotationUtils] => FunctionalAnnotationUtilsComponent Object
(
[name] => FunctionalAnnotationUtils
[controller] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => FunctionalUtils
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
)
)
[GeneFamilies] => GeneFamiliesComponent Object
(
[name] => GeneFamilies
[controller:GeneFamiliesComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[Organism] => OrganismComponent Object
(
[name] => Organism
[controller:OrganismComponent:private] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => GenomeBrowser
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[GenomeBrowser] => Array
(
[class] => GenomeBrowser
[settings] => Array
(
)
)
)
)
[Blast] => BlastComponent Object
(
[name] => Blast
[controller] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[WorkbenchUtils] => WorkbenchUtilsComponent Object
(
[name] => WorkbenchUtils
[controller:WorkbenchUtilsComponent:private] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => ExternalPrograms
[1] => FormUtils
[2] => FunctionalUtils
[3] => GeneFamilies
[4] => WorkbenchSharedAccessRights
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[ExternalPrograms] => Array
(
[class] => ExternalPrograms
[settings] => Array
(
)
)
[FormUtils] => Array
(
[class] => FormUtils
[settings] => Array
(
)
)
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
[GeneFamilies] => Array
(
[class] => GeneFamilies
[settings] => Array
(
)
)
[WorkbenchSharedAccessRights] => Array
(
[class] => WorkbenchSharedAccessRights
[settings] => Array
(
)
)
)
)
[Orthology] => OrthologyComponent Object
(
[name] => Orthology
[controller:OrthologyComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
)
[defaultPriority] => 10
)
[1] => trigger
)
[passParams] =>
)
[1] => Array
(
[callable] => Array
(
[0] => OrthologsController Object
*RECURSION*
[1] => beforeRedirect
)
[passParams] => 1
)
)
)
[Controller.shutdown] => Array
(
[10] => Array
(
[0] => Array
(
[callable] => Array
(
[0] => ComponentCollection Object
(
[_Controller:protected] => OrthologsController Object
*RECURSION*
[_enabled:protected] => Array
(
[Session] => Array
(
[0] => 10
[1] => 1
)
[DataUtils] => Array
(
[0] => 10
[1] => 2
)
[FunctionalAnnotationUtils] => Array
(
[0] => 10
[1] => 3
)
[GeneFamilies] => Array
(
[0] => 10
[1] => 4
)
[Organism] => Array
(
[0] => 10
[1] => 5
)
[Blast] => Array
(
[0] => 10
[1] => 6
)
[WorkbenchUtils] => Array
(
[0] => 10
[1] => 7
)
[Orthology] => Array
(
[0] => 10
[1] => 8
)
)
[_loaded:protected] => Array
(
[Session] => SessionComponent Object
(
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[DataUtils] => DataUtilsComponent Object
(
[name] => DataUtils
[controller] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => ExternalPrograms
[1] => FunctionalUtils
[2] => GeneFamilies
[3] => GenomeBrowser
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[ExternalPrograms] => Array
(
[class] => ExternalPrograms
[settings] => Array
(
)
)
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
[GeneFamilies] => Array
(
[class] => GeneFamilies
[settings] => Array
(
)
)
[GenomeBrowser] => Array
(
[class] => GenomeBrowser
[settings] => Array
(
)
)
)
[GeneFamilies] => GeneFamiliesComponent Object
(
[name] => GeneFamilies
[controller:GeneFamiliesComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
)
[FunctionalAnnotationUtils] => FunctionalAnnotationUtilsComponent Object
(
[name] => FunctionalAnnotationUtils
[controller] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => FunctionalUtils
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
)
)
[GeneFamilies] => GeneFamiliesComponent Object
(
[name] => GeneFamilies
[controller:GeneFamiliesComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[Organism] => OrganismComponent Object
(
[name] => Organism
[controller:OrganismComponent:private] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => GenomeBrowser
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[GenomeBrowser] => Array
(
[class] => GenomeBrowser
[settings] => Array
(
)
)
)
)
[Blast] => BlastComponent Object
(
[name] => Blast
[controller] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[WorkbenchUtils] => WorkbenchUtilsComponent Object
(
[name] => WorkbenchUtils
[controller:WorkbenchUtilsComponent:private] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => ExternalPrograms
[1] => FormUtils
[2] => FunctionalUtils
[3] => GeneFamilies
[4] => WorkbenchSharedAccessRights
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[ExternalPrograms] => Array
(
[class] => ExternalPrograms
[settings] => Array
(
)
)
[FormUtils] => Array
(
[class] => FormUtils
[settings] => Array
(
)
)
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
[GeneFamilies] => Array
(
[class] => GeneFamilies
[settings] => Array
(
)
)
[WorkbenchSharedAccessRights] => Array
(
[class] => WorkbenchSharedAccessRights
[settings] => Array
(
)
)
)
)
[Orthology] => OrthologyComponent Object
(
[name] => Orthology
[controller:OrthologyComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
)
[defaultPriority] => 10
)
[1] => trigger
)
[passParams] =>
)
[1] => Array
(
[callable] => Array
(
[0] => OrthologsController Object
*RECURSION*
[1] => afterFilter
)
[passParams] =>
)
)
)
)
[_isGlobal:protected] =>
)
[Session] => SessionComponent Object
(
[_Collection:protected] => ComponentCollection Object
(
[_Controller:protected] => OrthologsController Object
*RECURSION*
[_enabled:protected] => Array
(
[Session] => Array
(
[0] => 10
[1] => 1
)
[DataUtils] => Array
(
[0] => 10
[1] => 2
)
[FunctionalAnnotationUtils] => Array
(
[0] => 10
[1] => 3
)
[GeneFamilies] => Array
(
[0] => 10
[1] => 4
)
[Organism] => Array
(
[0] => 10
[1] => 5
)
[Blast] => Array
(
[0] => 10
[1] => 6
)
[WorkbenchUtils] => Array
(
[0] => 10
[1] => 7
)
[Orthology] => Array
(
[0] => 10
[1] => 8
)
)
[_loaded:protected] => Array
(
[Session] => SessionComponent Object
*RECURSION*
[DataUtils] => DataUtilsComponent Object
(
[name] => DataUtils
[controller] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => ExternalPrograms
[1] => FunctionalUtils
[2] => GeneFamilies
[3] => GenomeBrowser
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[ExternalPrograms] => Array
(
[class] => ExternalPrograms
[settings] => Array
(
)
)
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
[GeneFamilies] => Array
(
[class] => GeneFamilies
[settings] => Array
(
)
)
[GenomeBrowser] => Array
(
[class] => GenomeBrowser
[settings] => Array
(
)
)
)
[GeneFamilies] => GeneFamiliesComponent Object
(
[name] => GeneFamilies
[controller:GeneFamiliesComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
)
[FunctionalAnnotationUtils] => FunctionalAnnotationUtilsComponent Object
(
[name] => FunctionalAnnotationUtils
[controller] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => FunctionalUtils
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
)
)
[GeneFamilies] => GeneFamiliesComponent Object
(
[name] => GeneFamilies
[controller:GeneFamiliesComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[Organism] => OrganismComponent Object
(
[name] => Organism
[controller:OrganismComponent:private] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => GenomeBrowser
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[GenomeBrowser] => Array
(
[class] => GenomeBrowser
[settings] => Array
(
)
)
)
)
[Blast] => BlastComponent Object
(
[name] => Blast
[controller] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[WorkbenchUtils] => WorkbenchUtilsComponent Object
(
[name] => WorkbenchUtils
[controller:WorkbenchUtilsComponent:private] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => ExternalPrograms
[1] => FormUtils
[2] => FunctionalUtils
[3] => GeneFamilies
[4] => WorkbenchSharedAccessRights
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[ExternalPrograms] => Array
(
[class] => ExternalPrograms
[settings] => Array
(
)
)
[FormUtils] => Array
(
[class] => FormUtils
[settings] => Array
(
)
)
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
[GeneFamilies] => Array
(
[class] => GeneFamilies
[settings] => Array
(
)
)
[WorkbenchSharedAccessRights] => Array
(
[class] => WorkbenchSharedAccessRights
[settings] => Array
(
)
)
)
)
[Orthology] => OrthologyComponent Object
(
[name] => Orthology
[controller:OrthologyComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
)
[defaultPriority] => 10
)
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[DataUtils] => DataUtilsComponent Object
(
[name] => DataUtils
[controller] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => ExternalPrograms
[1] => FunctionalUtils
[2] => GeneFamilies
[3] => GenomeBrowser
)
[_Collection:protected] => ComponentCollection Object
(
[_Controller:protected] => OrthologsController Object
*RECURSION*
[_enabled:protected] => Array
(
[Session] => Array
(
[0] => 10
[1] => 1
)
[DataUtils] => Array
(
[0] => 10
[1] => 2
)
[FunctionalAnnotationUtils] => Array
(
[0] => 10
[1] => 3
)
[GeneFamilies] => Array
(
[0] => 10
[1] => 4
)
[Organism] => Array
(
[0] => 10
[1] => 5
)
[Blast] => Array
(
[0] => 10
[1] => 6
)
[WorkbenchUtils] => Array
(
[0] => 10
[1] => 7
)
[Orthology] => Array
(
[0] => 10
[1] => 8
)
)
[_loaded:protected] => Array
(
[Session] => SessionComponent Object
(
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[DataUtils] => DataUtilsComponent Object
*RECURSION*
[FunctionalAnnotationUtils] => FunctionalAnnotationUtilsComponent Object
(
[name] => FunctionalAnnotationUtils
[controller] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => FunctionalUtils
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
)
)
[GeneFamilies] => GeneFamiliesComponent Object
(
[name] => GeneFamilies
[controller:GeneFamiliesComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[Organism] => OrganismComponent Object
(
[name] => Organism
[controller:OrganismComponent:private] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => GenomeBrowser
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[GenomeBrowser] => Array
(
[class] => GenomeBrowser
[settings] => Array
(
)
)
)
)
[Blast] => BlastComponent Object
(
[name] => Blast
[controller] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[WorkbenchUtils] => WorkbenchUtilsComponent Object
(
[name] => WorkbenchUtils
[controller:WorkbenchUtilsComponent:private] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => ExternalPrograms
[1] => FormUtils
[2] => FunctionalUtils
[3] => GeneFamilies
[4] => WorkbenchSharedAccessRights
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[ExternalPrograms] => Array
(
[class] => ExternalPrograms
[settings] => Array
(
)
)
[FormUtils] => Array
(
[class] => FormUtils
[settings] => Array
(
)
)
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
[GeneFamilies] => Array
(
[class] => GeneFamilies
[settings] => Array
(
)
)
[WorkbenchSharedAccessRights] => Array
(
[class] => WorkbenchSharedAccessRights
[settings] => Array
(
)
)
)
)
[Orthology] => OrthologyComponent Object
(
[name] => Orthology
[controller:OrthologyComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
)
[defaultPriority] => 10
)
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[ExternalPrograms] => Array
(
[class] => ExternalPrograms
[settings] => Array
(
)
)
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
[GeneFamilies] => Array
(
[class] => GeneFamilies
[settings] => Array
(
)
)
[GenomeBrowser] => Array
(
[class] => GenomeBrowser
[settings] => Array
(
)
)
)
[GeneFamilies] => GeneFamiliesComponent Object
(
[name] => GeneFamilies
[controller:GeneFamiliesComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
(
[_Controller:protected] => OrthologsController Object
*RECURSION*
[_enabled:protected] => Array
(
[Session] => Array
(
[0] => 10
[1] => 1
)
[DataUtils] => Array
(
[0] => 10
[1] => 2
)
[FunctionalAnnotationUtils] => Array
(
[0] => 10
[1] => 3
)
[GeneFamilies] => Array
(
[0] => 10
[1] => 4
)
[Organism] => Array
(
[0] => 10
[1] => 5
)
[Blast] => Array
(
[0] => 10
[1] => 6
)
[WorkbenchUtils] => Array
(
[0] => 10
[1] => 7
)
[Orthology] => Array
(
[0] => 10
[1] => 8
)
)
[_loaded:protected] => Array
(
[Session] => SessionComponent Object
(
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[DataUtils] => DataUtilsComponent Object
*RECURSION*
[FunctionalAnnotationUtils] => FunctionalAnnotationUtilsComponent Object
(
[name] => FunctionalAnnotationUtils
[controller] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => FunctionalUtils
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
)
)
[GeneFamilies] => GeneFamiliesComponent Object
*RECURSION*
[Organism] => OrganismComponent Object
(
[name] => Organism
[controller:OrganismComponent:private] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => GenomeBrowser
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[GenomeBrowser] => Array
(
[class] => GenomeBrowser
[settings] => Array
(
)
)
)
)
[Blast] => BlastComponent Object
(
[name] => Blast
[controller] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[WorkbenchUtils] => WorkbenchUtilsComponent Object
(
[name] => WorkbenchUtils
[controller:WorkbenchUtilsComponent:private] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => ExternalPrograms
[1] => FormUtils
[2] => FunctionalUtils
[3] => GeneFamilies
[4] => WorkbenchSharedAccessRights
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[ExternalPrograms] => Array
(
[class] => ExternalPrograms
[settings] => Array
(
)
)
[FormUtils] => Array
(
[class] => FormUtils
[settings] => Array
(
)
)
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
[GeneFamilies] => Array
(
[class] => GeneFamilies
[settings] => Array
(
)
)
[WorkbenchSharedAccessRights] => Array
(
[class] => WorkbenchSharedAccessRights
[settings] => Array
(
)
)
)
)
[Orthology] => OrthologyComponent Object
(
[name] => Orthology
[controller:OrthologyComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
)
[defaultPriority] => 10
)
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
)
[FunctionalAnnotationUtils] => FunctionalAnnotationUtilsComponent Object
(
[name] => FunctionalAnnotationUtils
[controller] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => FunctionalUtils
)
[_Collection:protected] => ComponentCollection Object
(
[_Controller:protected] => OrthologsController Object
*RECURSION*
[_enabled:protected] => Array
(
[Session] => Array
(
[0] => 10
[1] => 1
)
[DataUtils] => Array
(
[0] => 10
[1] => 2
)
[FunctionalAnnotationUtils] => Array
(
[0] => 10
[1] => 3
)
[GeneFamilies] => Array
(
[0] => 10
[1] => 4
)
[Organism] => Array
(
[0] => 10
[1] => 5
)
[Blast] => Array
(
[0] => 10
[1] => 6
)
[WorkbenchUtils] => Array
(
[0] => 10
[1] => 7
)
[Orthology] => Array
(
[0] => 10
[1] => 8
)
)
[_loaded:protected] => Array
(
[Session] => SessionComponent Object
(
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[DataUtils] => DataUtilsComponent Object
(
[name] => DataUtils
[controller] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => ExternalPrograms
[1] => FunctionalUtils
[2] => GeneFamilies
[3] => GenomeBrowser
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[ExternalPrograms] => Array
(
[class] => ExternalPrograms
[settings] => Array
(
)
)
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
[GeneFamilies] => Array
(
[class] => GeneFamilies
[settings] => Array
(
)
)
[GenomeBrowser] => Array
(
[class] => GenomeBrowser
[settings] => Array
(
)
)
)
[GeneFamilies] => GeneFamiliesComponent Object
(
[name] => GeneFamilies
[controller:GeneFamiliesComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
)
[FunctionalAnnotationUtils] => FunctionalAnnotationUtilsComponent Object
*RECURSION*
[GeneFamilies] => GeneFamiliesComponent Object
(
[name] => GeneFamilies
[controller:GeneFamiliesComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[Organism] => OrganismComponent Object
(
[name] => Organism
[controller:OrganismComponent:private] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => GenomeBrowser
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[GenomeBrowser] => Array
(
[class] => GenomeBrowser
[settings] => Array
(
)
)
)
)
[Blast] => BlastComponent Object
(
[name] => Blast
[controller] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[WorkbenchUtils] => WorkbenchUtilsComponent Object
(
[name] => WorkbenchUtils
[controller:WorkbenchUtilsComponent:private] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => ExternalPrograms
[1] => FormUtils
[2] => FunctionalUtils
[3] => GeneFamilies
[4] => WorkbenchSharedAccessRights
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[ExternalPrograms] => Array
(
[class] => ExternalPrograms
[settings] => Array
(
)
)
[FormUtils] => Array
(
[class] => FormUtils
[settings] => Array
(
)
)
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
[GeneFamilies] => Array
(
[class] => GeneFamilies
[settings] => Array
(
)
)
[WorkbenchSharedAccessRights] => Array
(
[class] => WorkbenchSharedAccessRights
[settings] => Array
(
)
)
)
)
[Orthology] => OrthologyComponent Object
(
[name] => Orthology
[controller:OrthologyComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
)
[defaultPriority] => 10
)
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
)
)
[GeneFamilies] => GeneFamiliesComponent Object
(
[name] => GeneFamilies
[controller:GeneFamiliesComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
(
[_Controller:protected] => OrthologsController Object
*RECURSION*
[_enabled:protected] => Array
(
[Session] => Array
(
[0] => 10
[1] => 1
)
[DataUtils] => Array
(
[0] => 10
[1] => 2
)
[FunctionalAnnotationUtils] => Array
(
[0] => 10
[1] => 3
)
[GeneFamilies] => Array
(
[0] => 10
[1] => 4
)
[Organism] => Array
(
[0] => 10
[1] => 5
)
[Blast] => Array
(
[0] => 10
[1] => 6
)
[WorkbenchUtils] => Array
(
[0] => 10
[1] => 7
)
[Orthology] => Array
(
[0] => 10
[1] => 8
)
)
[_loaded:protected] => Array
(
[Session] => SessionComponent Object
(
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[DataUtils] => DataUtilsComponent Object
(
[name] => DataUtils
[controller] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => ExternalPrograms
[1] => FunctionalUtils
[2] => GeneFamilies
[3] => GenomeBrowser
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[ExternalPrograms] => Array
(
[class] => ExternalPrograms
[settings] => Array
(
)
)
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
[GeneFamilies] => Array
(
[class] => GeneFamilies
[settings] => Array
(
)
)
[GenomeBrowser] => Array
(
[class] => GenomeBrowser
[settings] => Array
(
)
)
)
[GeneFamilies] => GeneFamiliesComponent Object
*RECURSION*
)
[FunctionalAnnotationUtils] => FunctionalAnnotationUtilsComponent Object
(
[name] => FunctionalAnnotationUtils
[controller] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => FunctionalUtils
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
)
)
[GeneFamilies] => GeneFamiliesComponent Object
*RECURSION*
[Organism] => OrganismComponent Object
(
[name] => Organism
[controller:OrganismComponent:private] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => GenomeBrowser
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[GenomeBrowser] => Array
(
[class] => GenomeBrowser
[settings] => Array
(
)
)
)
)
[Blast] => BlastComponent Object
(
[name] => Blast
[controller] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[WorkbenchUtils] => WorkbenchUtilsComponent Object
(
[name] => WorkbenchUtils
[controller:WorkbenchUtilsComponent:private] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => ExternalPrograms
[1] => FormUtils
[2] => FunctionalUtils
[3] => GeneFamilies
[4] => WorkbenchSharedAccessRights
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[ExternalPrograms] => Array
(
[class] => ExternalPrograms
[settings] => Array
(
)
)
[FormUtils] => Array
(
[class] => FormUtils
[settings] => Array
(
)
)
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
[GeneFamilies] => Array
(
[class] => GeneFamilies
[settings] => Array
(
)
)
[WorkbenchSharedAccessRights] => Array
(
[class] => WorkbenchSharedAccessRights
[settings] => Array
(
)
)
)
)
[Orthology] => OrthologyComponent Object
(
[name] => Orthology
[controller:OrthologyComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
)
[defaultPriority] => 10
)
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[Organism] => OrganismComponent Object
(
[name] => Organism
[controller:OrganismComponent:private] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => GenomeBrowser
)
[_Collection:protected] => ComponentCollection Object
(
[_Controller:protected] => OrthologsController Object
*RECURSION*
[_enabled:protected] => Array
(
[Session] => Array
(
[0] => 10
[1] => 1
)
[DataUtils] => Array
(
[0] => 10
[1] => 2
)
[FunctionalAnnotationUtils] => Array
(
[0] => 10
[1] => 3
)
[GeneFamilies] => Array
(
[0] => 10
[1] => 4
)
[Organism] => Array
(
[0] => 10
[1] => 5
)
[Blast] => Array
(
[0] => 10
[1] => 6
)
[WorkbenchUtils] => Array
(
[0] => 10
[1] => 7
)
[Orthology] => Array
(
[0] => 10
[1] => 8
)
)
[_loaded:protected] => Array
(
[Session] => SessionComponent Object
(
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[DataUtils] => DataUtilsComponent Object
(
[name] => DataUtils
[controller] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => ExternalPrograms
[1] => FunctionalUtils
[2] => GeneFamilies
[3] => GenomeBrowser
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[ExternalPrograms] => Array
(
[class] => ExternalPrograms
[settings] => Array
(
)
)
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
[GeneFamilies] => Array
(
[class] => GeneFamilies
[settings] => Array
(
)
)
[GenomeBrowser] => Array
(
[class] => GenomeBrowser
[settings] => Array
(
)
)
)
[GeneFamilies] => GeneFamiliesComponent Object
(
[name] => GeneFamilies
[controller:GeneFamiliesComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
)
[FunctionalAnnotationUtils] => FunctionalAnnotationUtilsComponent Object
(
[name] => FunctionalAnnotationUtils
[controller] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => FunctionalUtils
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
)
)
[GeneFamilies] => GeneFamiliesComponent Object
(
[name] => GeneFamilies
[controller:GeneFamiliesComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[Organism] => OrganismComponent Object
*RECURSION*
[Blast] => BlastComponent Object
(
[name] => Blast
[controller] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[WorkbenchUtils] => WorkbenchUtilsComponent Object
(
[name] => WorkbenchUtils
[controller:WorkbenchUtilsComponent:private] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => ExternalPrograms
[1] => FormUtils
[2] => FunctionalUtils
[3] => GeneFamilies
[4] => WorkbenchSharedAccessRights
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[ExternalPrograms] => Array
(
[class] => ExternalPrograms
[settings] => Array
(
)
)
[FormUtils] => Array
(
[class] => FormUtils
[settings] => Array
(
)
)
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
[GeneFamilies] => Array
(
[class] => GeneFamilies
[settings] => Array
(
)
)
[WorkbenchSharedAccessRights] => Array
(
[class] => WorkbenchSharedAccessRights
[settings] => Array
(
)
)
)
)
[Orthology] => OrthologyComponent Object
(
[name] => Orthology
[controller:OrthologyComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
)
[defaultPriority] => 10
)
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[GenomeBrowser] => Array
(
[class] => GenomeBrowser
[settings] => Array
(
)
)
)
)
[Blast] => BlastComponent Object
(
[name] => Blast
[controller] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
(
[_Controller:protected] => OrthologsController Object
*RECURSION*
[_enabled:protected] => Array
(
[Session] => Array
(
[0] => 10
[1] => 1
)
[DataUtils] => Array
(
[0] => 10
[1] => 2
)
[FunctionalAnnotationUtils] => Array
(
[0] => 10
[1] => 3
)
[GeneFamilies] => Array
(
[0] => 10
[1] => 4
)
[Organism] => Array
(
[0] => 10
[1] => 5
)
[Blast] => Array
(
[0] => 10
[1] => 6
)
[WorkbenchUtils] => Array
(
[0] => 10
[1] => 7
)
[Orthology] => Array
(
[0] => 10
[1] => 8
)
)
[_loaded:protected] => Array
(
[Session] => SessionComponent Object
(
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[DataUtils] => DataUtilsComponent Object
(
[name] => DataUtils
[controller] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => ExternalPrograms
[1] => FunctionalUtils
[2] => GeneFamilies
[3] => GenomeBrowser
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[ExternalPrograms] => Array
(
[class] => ExternalPrograms
[settings] => Array
(
)
)
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
[GeneFamilies] => Array
(
[class] => GeneFamilies
[settings] => Array
(
)
)
[GenomeBrowser] => Array
(
[class] => GenomeBrowser
[settings] => Array
(
)
)
)
[GeneFamilies] => GeneFamiliesComponent Object
(
[name] => GeneFamilies
[controller:GeneFamiliesComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
)
[FunctionalAnnotationUtils] => FunctionalAnnotationUtilsComponent Object
(
[name] => FunctionalAnnotationUtils
[controller] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => FunctionalUtils
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
)
)
[GeneFamilies] => GeneFamiliesComponent Object
(
[name] => GeneFamilies
[controller:GeneFamiliesComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[Organism] => OrganismComponent Object
(
[name] => Organism
[controller:OrganismComponent:private] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => GenomeBrowser
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[GenomeBrowser] => Array
(
[class] => GenomeBrowser
[settings] => Array
(
)
)
)
)
[Blast] => BlastComponent Object
*RECURSION*
[WorkbenchUtils] => WorkbenchUtilsComponent Object
(
[name] => WorkbenchUtils
[controller:WorkbenchUtilsComponent:private] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => ExternalPrograms
[1] => FormUtils
[2] => FunctionalUtils
[3] => GeneFamilies
[4] => WorkbenchSharedAccessRights
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[ExternalPrograms] => Array
(
[class] => ExternalPrograms
[settings] => Array
(
)
)
[FormUtils] => Array
(
[class] => FormUtils
[settings] => Array
(
)
)
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
[GeneFamilies] => Array
(
[class] => GeneFamilies
[settings] => Array
(
)
)
[WorkbenchSharedAccessRights] => Array
(
[class] => WorkbenchSharedAccessRights
[settings] => Array
(
)
)
)
)
[Orthology] => OrthologyComponent Object
(
[name] => Orthology
[controller:OrthologyComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
)
[defaultPriority] => 10
)
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[WorkbenchUtils] => WorkbenchUtilsComponent Object
(
[name] => WorkbenchUtils
[controller:WorkbenchUtilsComponent:private] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => ExternalPrograms
[1] => FormUtils
[2] => FunctionalUtils
[3] => GeneFamilies
[4] => WorkbenchSharedAccessRights
)
[_Collection:protected] => ComponentCollection Object
(
[_Controller:protected] => OrthologsController Object
*RECURSION*
[_enabled:protected] => Array
(
[Session] => Array
(
[0] => 10
[1] => 1
)
[DataUtils] => Array
(
[0] => 10
[1] => 2
)
[FunctionalAnnotationUtils] => Array
(
[0] => 10
[1] => 3
)
[GeneFamilies] => Array
(
[0] => 10
[1] => 4
)
[Organism] => Array
(
[0] => 10
[1] => 5
)
[Blast] => Array
(
[0] => 10
[1] => 6
)
[WorkbenchUtils] => Array
(
[0] => 10
[1] => 7
)
[Orthology] => Array
(
[0] => 10
[1] => 8
)
)
[_loaded:protected] => Array
(
[Session] => SessionComponent Object
(
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[DataUtils] => DataUtilsComponent Object
(
[name] => DataUtils
[controller] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => ExternalPrograms
[1] => FunctionalUtils
[2] => GeneFamilies
[3] => GenomeBrowser
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[ExternalPrograms] => Array
(
[class] => ExternalPrograms
[settings] => Array
(
)
)
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
[GeneFamilies] => Array
(
[class] => GeneFamilies
[settings] => Array
(
)
)
[GenomeBrowser] => Array
(
[class] => GenomeBrowser
[settings] => Array
(
)
)
)
[GeneFamilies] => GeneFamiliesComponent Object
(
[name] => GeneFamilies
[controller:GeneFamiliesComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
)
[FunctionalAnnotationUtils] => FunctionalAnnotationUtilsComponent Object
(
[name] => FunctionalAnnotationUtils
[controller] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => FunctionalUtils
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
)
)
[GeneFamilies] => GeneFamiliesComponent Object
(
[name] => GeneFamilies
[controller:GeneFamiliesComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[Organism] => OrganismComponent Object
(
[name] => Organism
[controller:OrganismComponent:private] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => GenomeBrowser
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[GenomeBrowser] => Array
(
[class] => GenomeBrowser
[settings] => Array
(
)
)
)
)
[Blast] => BlastComponent Object
(
[name] => Blast
[controller] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[WorkbenchUtils] => WorkbenchUtilsComponent Object
*RECURSION*
[Orthology] => OrthologyComponent Object
(
[name] => Orthology
[controller:OrthologyComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
)
[defaultPriority] => 10
)
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[ExternalPrograms] => Array
(
[class] => ExternalPrograms
[settings] => Array
(
)
)
[FormUtils] => Array
(
[class] => FormUtils
[settings] => Array
(
)
)
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
[GeneFamilies] => Array
(
[class] => GeneFamilies
[settings] => Array
(
)
)
[WorkbenchSharedAccessRights] => Array
(
[class] => WorkbenchSharedAccessRights
[settings] => Array
(
)
)
)
)
[Orthology] => OrthologyComponent Object
(
[name] => Orthology
[controller:OrthologyComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
(
[_Controller:protected] => OrthologsController Object
*RECURSION*
[_enabled:protected] => Array
(
[Session] => Array
(
[0] => 10
[1] => 1
)
[DataUtils] => Array
(
[0] => 10
[1] => 2
)
[FunctionalAnnotationUtils] => Array
(
[0] => 10
[1] => 3
)
[GeneFamilies] => Array
(
[0] => 10
[1] => 4
)
[Organism] => Array
(
[0] => 10
[1] => 5
)
[Blast] => Array
(
[0] => 10
[1] => 6
)
[WorkbenchUtils] => Array
(
[0] => 10
[1] => 7
)
[Orthology] => Array
(
[0] => 10
[1] => 8
)
)
[_loaded:protected] => Array
(
[Session] => SessionComponent Object
(
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[DataUtils] => DataUtilsComponent Object
(
[name] => DataUtils
[controller] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => ExternalPrograms
[1] => FunctionalUtils
[2] => GeneFamilies
[3] => GenomeBrowser
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[ExternalPrograms] => Array
(
[class] => ExternalPrograms
[settings] => Array
(
)
)
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
[GeneFamilies] => Array
(
[class] => GeneFamilies
[settings] => Array
(
)
)
[GenomeBrowser] => Array
(
[class] => GenomeBrowser
[settings] => Array
(
)
)
)
[GeneFamilies] => GeneFamiliesComponent Object
(
[name] => GeneFamilies
[controller:GeneFamiliesComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
)
[FunctionalAnnotationUtils] => FunctionalAnnotationUtilsComponent Object
(
[name] => FunctionalAnnotationUtils
[controller] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => FunctionalUtils
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
)
)
[GeneFamilies] => GeneFamiliesComponent Object
(
[name] => GeneFamilies
[controller:GeneFamiliesComponent:private] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[Organism] => OrganismComponent Object
(
[name] => Organism
[controller:OrganismComponent:private] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => GenomeBrowser
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[GenomeBrowser] => Array
(
[class] => GenomeBrowser
[settings] => Array
(
)
)
)
)
[Blast] => BlastComponent Object
(
[name] => Blast
[controller] => OrthologsController Object
*RECURSION*
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[WorkbenchUtils] => WorkbenchUtilsComponent Object
(
[name] => WorkbenchUtils
[controller:WorkbenchUtilsComponent:private] => OrthologsController Object
*RECURSION*
[components] => Array
(
[0] => ExternalPrograms
[1] => FormUtils
[2] => FunctionalUtils
[3] => GeneFamilies
[4] => WorkbenchSharedAccessRights
)
[_Collection:protected] => ComponentCollection Object
*RECURSION*
[settings] => Array
(
)
[_componentMap:protected] => Array
(
[ExternalPrograms] => Array
(
[class] => ExternalPrograms
[settings] => Array
(
)
)
[FormUtils] => Array
(
[class] => FormUtils
[settings] => Array
(
)
)
[FunctionalUtils] => Array
(
[class] => FunctionalUtils
[settings] => Array
(
)
)
[GeneFamilies] => Array
(
[class] => GeneFamilies
[settings] => Array
(
)
)
[WorkbenchSharedAccessRights] => Array
(
[class] => WorkbenchSharedAccessRights
[settings] => Array
(
)
)
)
)
[Orthology] => OrthologyComponent Object
*RECURSION*
)
[defaultPriority] => 10
)
[settings] => Array
(
)
[components] => Array
(
)
[_componentMap:protected] => Array
(
)
)
[Annotation] => Annotation Object
(
[name] => Annotation
[useTable] => annotation
[primaryKey] => gene_id
[cacheQueries] =>
[cacheSources] =>
[belongsTo] => Array
(
[AnnotSource] => Array
(
[foreignKey] => species
[className] => AnnotSource
[conditions] =>
[fields] =>
[order] =>
[counterCache] =>
)
)
[hasMany] => Array
(
[GfDatum] => Array
(
[foreignKey] => gene_id
[className] => GfDatum
[conditions] =>
[fields] =>
[order] =>
[limit] =>
[offset] =>
[dependent] =>
[exclusive] =>
[finderQuery] =>
[counterQuery] =>
)
)
[useDbConfig] => default
[id] =>
[data] => Array
(
)
[schemaName] => db_plaza_public_dicots_05
[table] => annotation
[_schema:protected] => Array
(
[gene_id] => Array
(
[type] => string
[null] =>
[default] =>
[length] => 50
[key] => primary
[collate] => latin1_swedish_ci
[charset] => latin1
)
[species] => Array
(
[type] => string
[null] =>
[default] =>
[length] => 21
[key] => index
[collate] => latin1_swedish_ci
[charset] => latin1
)
[transcript] => Array
(
[type] => string
[null] => 1
[default] =>
[length] => 100
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[_eventManager:protected] => CakeEventManager Object
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[Orthologs] => Orthologs Object
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[validate] => Array
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[validationDomain] =>
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[actsAs] =>
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[whitelist] => Array
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(
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[hasOne] => Array
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[hasAndBelongsToMany] => Array
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[__backOriginalAssociation] => Array
(
)
[__backContainableAssociation] => Array
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[__safeUpdateMode] =>
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[threaded] => 1
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[_eventManager:protected] => CakeEventManager Object
(
[_listeners:protected] => Array
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[Model.beforeFind] => Array
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[10] => Array
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[0] => Array
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[callable] => Array
(
[0] => BehaviorCollection Object
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[_methods:protected] => Array
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[_enabled:protected] => Array
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[1] => Array
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[Configuration] => Configuration Object
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[id] =>
[data] => Array
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[__backOriginalAssociation] => Array
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[_eventManager:protected] => CakeEventManager Object
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)
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(
)
[defaultPriority] => 10
)
[1] => trigger
)
[passParams] =>
)
[1] => Array
(
[callable] => Array
(
[0] => AdExperiments Object
*RECURSION*
[1] => afterDelete
)
[passParams] =>
)
)
)
)
[_isGlobal:protected] =>
)
[_validator:protected] =>
)
[FunctionalClustersExperiments] => FunctionalClustersExperiments Object
(
[name] => FunctionalClustersExperiments
[useTable] => functional_clusters_experiments
[useDbConfig] => default
[id] =>
[data] => Array
(
)
[schemaName] => db_plaza_public_dicots_05
[table] => functional_clusters_experiments
[primaryKey] => id
[_schema:protected] => Array
(
[exp_id] => Array
(
[type] => tinyinteger
[null] =>
[default] =>
[length] =>
[unsigned] =>
[key] => primary
)
[data_type] => Array
(
[type] => enum('GO','InterPro','MapMan')
[null] =>
[default] =>
[length] => 8
[key] => index
[collate] => latin1_swedish_ci
[charset] => latin1
)
[extra] => Array
(
[type] => string
[null] => 1
[default] =>
[length] => 30
[collate] => latin1_swedish_ci
[charset] => latin1
)
[min_genes_cluster] => Array
(
[type] => integer
[null] => 1
[default] =>
[length] =>
[unsigned] =>
)
[max_genes_cluster] => Array
(
[type] => integer
[null] => 1
[default] =>
[length] =>
[unsigned] =>
)
[max_cluster_size] => Array
(
[type] => integer
[null] => 1
[default] =>
[length] =>
[unsigned] =>
)
[e-value] => Array
(
[type] => float
[null] => 1
[default] =>
[length] =>
[unsigned] =>
)
[cluster_overlap] => Array
(
[type] => integer
[null] => 1
[default] =>
[length] =>
[unsigned] =>
)
[has_tandems] => Array
(
[type] => boolean
[null] => 1
[default] =>
[length] => 1
)
)
[validate] => Array
(
)
[validationErrors] => Array
(
)
[validationDomain] =>
[tablePrefix] =>
[plugin] =>
[alias] => FunctionalClustersExperiments
[tableToModel] => Array
(
[functional_clusters_experiments] => FunctionalClustersExperiments
)
[cacheQueries] =>
[belongsTo] => Array
(
)
[hasOne] => Array
(
)
[hasMany] => Array
(
)
[hasAndBelongsToMany] => Array
(
)
[actsAs] =>
[Behaviors] => BehaviorCollection Object
(
[modelName] => FunctionalClustersExperiments
[_methods:protected] => Array
(
)
[_mappedMethods:protected] => Array
(
)
[_enabled:protected] => Array
(
)
[_loaded:protected] => Array
(
)
[defaultPriority] => 10
)
[whitelist] => Array
(
)
[cacheSources] => 1
[findQueryType] =>
[recursive] => 1
[order] =>
[virtualFields] => Array
(
)
[_associationKeys:protected] => Array
(
[belongsTo] => Array
(
[0] => className
[1] => foreignKey
[2] => conditions
[3] => fields
[4] => order
[5] => counterCache
)
[hasOne] => Array
(
[0] => className
[1] => foreignKey
[2] => conditions
[3] => fields
[4] => order
[5] => dependent
)
[hasMany] => Array
(
[0] => className
[1] => foreignKey
[2] => conditions
[3] => fields
[4] => order
[5] => limit
[6] => offset
[7] => dependent
[8] => exclusive
[9] => finderQuery
[10] => counterQuery
)
[hasAndBelongsToMany] => Array
(
[0] => className
[1] => joinTable
[2] => with
[3] => foreignKey
[4] => associationForeignKey
[5] => conditions
[6] => fields
[7] => order
[8] => limit
[9] => offset
[10] => unique
[11] => finderQuery
)
)
[_associations:protected] => Array
(
[0] => belongsTo
[1] => hasOne
[2] => hasMany
[3] => hasAndBelongsToMany
)
[__backAssociation] => Array
(
)
[__backInnerAssociation] => Array
(
)
[__backOriginalAssociation] => Array
(
)
[__backContainableAssociation] => Array
(
)
[__safeUpdateMode] =>
[useConsistentAfterFind] => 1
[_insertID:protected] =>
[_sourceConfigured:protected] => 1
[findMethods] => Array
(
[all] => 1
[first] => 1
[count] => 1
[neighbors] => 1
[list] => 1
[threaded] => 1
)
[_eventManager:protected] => CakeEventManager Object
(
[_listeners:protected] => Array
(
[Model.beforeFind] => Array
(
[10] => Array
(
[0] => Array
(
[callable] => Array
(
[0] => BehaviorCollection Object
(
[modelName] => FunctionalClustersExperiments
[_methods:protected] => Array
(
)
[_mappedMethods:protected] => Array
(
)
[_enabled:protected] => Array
(
)
[_loaded:protected] => Array
(
)
[defaultPriority] => 10
)
[1] => trigger
)
[passParams] =>
)
[1] => Array
(
[callable] => Array
(
[0] => FunctionalClustersExperiments Object
*RECURSION*
[1] => beforeFind
)
[passParams] => 1
)
)
)
[Model.afterFind] => Array
(
[10] => Array
(
[0] => Array
(
[callable] => Array
(
[0] => BehaviorCollection Object
(
[modelName] => FunctionalClustersExperiments
[_methods:protected] => Array
(
)
[_mappedMethods:protected] => Array
(
)
[_enabled:protected] => Array
(
)
[_loaded:protected] => Array
(
)
[defaultPriority] => 10
)
[1] => trigger
)
[passParams] =>
)
[1] => Array
(
[callable] => Array
(
[0] => FunctionalClustersExperiments Object
*RECURSION*
[1] => afterFind
)
[passParams] => 1
)
)
)
[Model.beforeValidate] => Array
(
[10] => Array
(
[0] => Array
(
[callable] => Array
(
[0] => BehaviorCollection Object
(
[modelName] => FunctionalClustersExperiments
[_methods:protected] => Array
(
)
[_mappedMethods:protected] => Array
(
)
[_enabled:protected] => Array
(
)
[_loaded:protected] => Array
(
)
[defaultPriority] => 10
)
[1] => trigger
)
[passParams] =>
)
[1] => Array
(
[callable] => Array
(
[0] => FunctionalClustersExperiments Object
*RECURSION*
[1] => beforeValidate
)
[passParams] => 1
)
)
)
[Model.afterValidate] => Array
(
[10] => Array
(
[0] => Array
(
[callable] => Array
(
[0] => BehaviorCollection Object
(
[modelName] => FunctionalClustersExperiments
[_methods:protected] => Array
(
)
[_mappedMethods:protected] => Array
(
)
[_enabled:protected] => Array
(
)
[_loaded:protected] => Array
(
)
[defaultPriority] => 10
)
[1] => trigger
)
[passParams] =>
)
[1] => Array
(
[callable] => Array
(
[0] => FunctionalClustersExperiments Object
*RECURSION*
[1] => afterValidate
)
[passParams] =>
)
)
)
[Model.beforeSave] => Array
(
[10] => Array
(
[0] => Array
(
[callable] => Array
(
[0] => BehaviorCollection Object
(
[modelName] => FunctionalClustersExperiments
[_methods:protected] => Array
(
)
[_mappedMethods:protected] => Array
(
)
[_enabled:protected] => Array
(
)
[_loaded:protected] => Array
(
)
[defaultPriority] => 10
)
[1] => trigger
)
[passParams] =>
)
[1] => Array
(
[callable] => Array
(
[0] => FunctionalClustersExperiments Object
*RECURSION*
[1] => beforeSave
)
[passParams] => 1
)
)
)
[Model.afterSave] => Array
(
[10] => Array
(
[0] => Array
(
[callable] => Array
(
[0] => BehaviorCollection Object
(
[modelName] => FunctionalClustersExperiments
[_methods:protected] => Array
(
)
[_mappedMethods:protected] => Array
(
)
[_enabled:protected] => Array
(
)
[_loaded:protected] => Array
(
)
[defaultPriority] => 10
)
[1] => trigger
)
[passParams] =>
)
[1] => Array
(
[callable] => Array
(
[0] => FunctionalClustersExperiments Object
*RECURSION*
[1] => afterSave
)
[passParams] => 1
)
)
)
[Model.beforeDelete] => Array
(
[10] => Array
(
[0] => Array
(
[callable] => Array
(
[0] => BehaviorCollection Object
(
[modelName] => FunctionalClustersExperiments
[_methods:protected] => Array
(
)
[_mappedMethods:protected] => Array
(
)
[_enabled:protected] => Array
(
)
[_loaded:protected] => Array
(
)
[defaultPriority] => 10
)
[1] => trigger
)
[passParams] =>
)
[1] => Array
(
[callable] => Array
(
[0] => FunctionalClustersExperiments Object
*RECURSION*
[1] => beforeDelete
)
[passParams] => 1
)
)
)
[Model.afterDelete] => Array
(
[10] => Array
(
[0] => Array
(
[callable] => Array
(
[0] => BehaviorCollection Object
(
[modelName] => FunctionalClustersExperiments
[_methods:protected] => Array
(
)
[_mappedMethods:protected] => Array
(
)
[_enabled:protected] => Array
(
)
[_loaded:protected] => Array
(
)
[defaultPriority] => 10
)
[1] => trigger
)
[passParams] =>
)
[1] => Array
(
[callable] => Array
(
[0] => FunctionalClustersExperiments Object
*RECURSION*
[1] => afterDelete
)
[passParams] =>
)
)
)
)
[_isGlobal:protected] =>
)
[_validator:protected] =>
)
[Msa] => Msa Object
(
[name] => Msa
[useTable] => msa
[primaryKey] => msa_id
[useDbConfig] => default
[id] =>
[data] => Array
(
)
[schemaName] =>
[table] => msa
[_schema:protected] =>
[validate] => Array
(
)
[validationErrors] => Array
(
)
[validationDomain] =>
[plugin] =>
[alias] => Msa
[tableToModel] => Array
(
[msa] => Msa
)
[cacheQueries] =>
[belongsTo] => Array
(
)
[hasOne] => Array
(
)
[hasMany] => Array
(
)
[hasAndBelongsToMany] => Array
(
)
[actsAs] =>
[Behaviors] => BehaviorCollection Object
(
[modelName] => Msa
[_methods:protected] => Array
(
)
[_mappedMethods:protected] => Array
(
)
[_enabled:protected] => Array
(
)
[_loaded:protected] => Array
(
)
[defaultPriority] => 10
)
[whitelist] => Array
(
)
[cacheSources] => 1
[findQueryType] =>
[recursive] => 1
[order] =>
[virtualFields] => Array
(
)
[_associationKeys:protected] => Array
(
[belongsTo] => Array
(
[0] => className
[1] => foreignKey
[2] => conditions
[3] => fields
[4] => order
[5] => counterCache
)
[hasOne] => Array
(
[0] => className
[1] => foreignKey
[2] => conditions
[3] => fields
[4] => order
[5] => dependent
)
[hasMany] => Array
(
[0] => className
[1] => foreignKey
[2] => conditions
[3] => fields
[4] => order
[5] => limit
[6] => offset
[7] => dependent
[8] => exclusive
[9] => finderQuery
[10] => counterQuery
)
[hasAndBelongsToMany] => Array
(
[0] => className
[1] => joinTable
[2] => with
[3] => foreignKey
[4] => associationForeignKey
[5] => conditions
[6] => fields
[7] => order
[8] => limit
[9] => offset
[10] => unique
[11] => finderQuery
)
)
[_associations:protected] => Array
(
[0] => belongsTo
[1] => hasOne
[2] => hasMany
[3] => hasAndBelongsToMany
)
[__backAssociation] => Array
(
)
[__backInnerAssociation] => Array
(
)
[__backOriginalAssociation] => Array
(
)
[__backContainableAssociation] => Array
(
)
[__safeUpdateMode] =>
[useConsistentAfterFind] => 1
[_insertID:protected] =>
[_sourceConfigured:protected] =>
[findMethods] => Array
(
[all] => 1
[first] => 1
[count] => 1
[neighbors] => 1
[list] => 1
[threaded] => 1
)
[_eventManager:protected] =>
[_validator:protected] =>
)
[Trees] => Trees Object
(
[name] => Trees
[useTable] => trees
[useDbConfig] => default
[id] =>
[data] => Array
(
)
[schemaName] =>
[table] => trees
[primaryKey] => id
[_schema:protected] =>
[validate] => Array
(
)
[validationErrors] => Array
(
)
[validationDomain] =>
[plugin] =>
[alias] => Trees
[tableToModel] => Array
(
[trees] => Trees
)
[cacheQueries] =>
[belongsTo] => Array
(
)
[hasOne] => Array
(
)
[hasMany] => Array
(
)
[hasAndBelongsToMany] => Array
(
)
[actsAs] =>
[Behaviors] => BehaviorCollection Object
(
[modelName] => Trees
[_methods:protected] => Array
(
)
[_mappedMethods:protected] => Array
(
)
[_enabled:protected] => Array
(
)
[_loaded:protected] => Array
(
)
[defaultPriority] => 10
)
[whitelist] => Array
(
)
[cacheSources] => 1
[findQueryType] =>
[recursive] => 1
[order] =>
[virtualFields] => Array
(
)
[_associationKeys:protected] => Array
(
[belongsTo] => Array
(
[0] => className
[1] => foreignKey
[2] => conditions
[3] => fields
[4] => order
[5] => counterCache
)
[hasOne] => Array
(
[0] => className
[1] => foreignKey
[2] => conditions
[3] => fields
[4] => order
[5] => dependent
)
[hasMany] => Array
(
[0] => className
[1] => foreignKey
[2] => conditions
[3] => fields
[4] => order
[5] => limit
[6] => offset
[7] => dependent
[8] => exclusive
[9] => finderQuery
[10] => counterQuery
)
[hasAndBelongsToMany] => Array
(
[0] => className
[1] => joinTable
[2] => with
[3] => foreignKey
[4] => associationForeignKey
[5] => conditions
[6] => fields
[7] => order
[8] => limit
[9] => offset
[10] => unique
[11] => finderQuery
)
)
[_associations:protected] => Array
(
[0] => belongsTo
[1] => hasOne
[2] => hasMany
[3] => hasAndBelongsToMany
)
[__backAssociation] => Array
(
)
[__backInnerAssociation] => Array
(
)
[__backOriginalAssociation] => Array
(
)
[__backContainableAssociation] => Array
(
)
[__safeUpdateMode] =>
[useConsistentAfterFind] => 1
[_insertID:protected] =>
[_sourceConfigured:protected] =>
[findMethods] => Array
(
[all] => 1
[first] => 1
[count] => 1
[neighbors] => 1
[list] => 1
[threaded] => 1
)
[_eventManager:protected] =>
[_validator:protected] =>
)
)
controller Notice (8) : Trying to get property 'Configuration' of non-object [APP/Controller/Component/GenomeBrowserComponent.php , line 105 ]Code Context
//Construct url for synteny-scores
$species_tree = $this -> controller -> Configuration -> getBasicSpeciesTree ();
$species = 'egut'
$configuration_settings = array(
'annotation_directory' => 'GFF/%SPECIES%/',
'annotation_file_compressed' => 'true',
'annotation_file_extension' => 'gff3',
'annotation_file_prefix' => 'annotation.all_transcripts.all_features',
'data_url' => 'https://ftp.psb.ugent.be/pub/plaza/plaza_public_dicots_05/',
'genomes_directory' => 'Genomes',
'genomes_file_compressed' => 'true',
'genomes_file_extension' => 'fasta'
)
$base_data_url = 'https://ftp.psb.ugent.be/pub/plaza/plaza_public_dicots_05/'
$genome_dir_url = 'https://ftp.psb.ugent.be/pub/plaza/plaza_public_dicots_05/Genomes/'
$annotation_dir_url = 'https://ftp.psb.ugent.be/pub/plaza/plaza_public_dicots_05/GFF/egut/'
$genome_file_name = 'egut.fasta.gz'
$annotation_file_name = 'annotation.all_transcripts.all_features.egut.gff3.gz'
$genome_file_url = 'https://ftp.psb.ugent.be/pub/plaza/plaza_public_dicots_05/Genomes/egut.fasta.gz'
$annotation_file_url = 'https://ftp.psb.ugent.be/pub/plaza/plaza_public_dicots_05/GFF/egut/annotation.all_transcripts.all_features.egut.gff3.gz' GenomeBrowserComponent::getValidatedDataSettings() - APP/Controller/Component/GenomeBrowserComponent.php, line 105
DataUtilsComponent::getSidebarToolsInfo() - APP/Controller/Component/DataUtilsComponent.php, line 65
AppController::beforeRender() - APP/Controller/AppController.php, line 94
CakeEventManager::dispatch() - CORE/Cake/Event/CakeEventManager.php, line 243
Controller::render() - CORE/Cake/Controller/Controller.php, line 936
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 200
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 167
[main] - APP/webroot/index.php, line 151
Errors
Call to a member function getBasicSpeciesTree() on null
Error:
An Internal Error Has Occurred.
Stack Trace
APP/Controller/Component/DataUtilsComponent.php line 65 → GenomeBrowserComponent->getValidatedDataSettings() $default_hom_gf_type_id = $this -> GeneFamilies -> getHomologyCodingGeneFamilyType ();
$full_gene_info = $AnnotationModel -> getFullGeneInfo ( $gene_id );
pr ( $this -> controller );
$igv_genome_browser_info = $this -> GenomeBrowser -> getValidatedDataSettings ( $full_gene_info [ 'species' ],);
APP/Controller/AppController.php line 94 → DataUtilsComponent->getSidebarToolsInfo() $identifier = isset(( $this -> viewVars )[ "sidebar_information" ][ "id" ])?( $this -> viewVars )[ "sidebar_information" ][ "id" ]: null ;
if( $type === "gene_id" ){
$this -> set ( "sidebar" , "gene_sidebar" );
$this -> set ( "sidebar_info" , $this -> DataUtils -> getSidebarToolsInfo ( $identifier ));
}
CORE/Cake/Event/CakeEventManager.php line 243 → AppController->beforeRender() if ( $listener [ 'passParams' ] === true ) {
$result = call_user_func_array ( $listener [ 'callable' ], $event -> data );
} else {
$result = call_user_func ( $listener [ 'callable' ], $event );
}
CORE/Cake/Controller/Controller.php line 936 → CakeEventManager->dispatch() */
public function render ( $view = null , $layout = null ) {
$event = new CakeEvent ( 'Controller.beforeRender' , $this );
$this -> getEventManager ()-> dispatch ( $event );
if ( $event -> isStopped ()) {
CORE/Cake/Routing/Dispatcher.php line 200 → Controller->render() }
if ( $render && $controller -> autoRender ) {
$response = $controller -> render ();
} elseif (!( $result instanceof CakeResponse ) && $response -> body () === null ) {
CORE/Cake/Routing/Dispatcher.php line 167 → Dispatcher->_invoke() ));
}
$response = $this -> _invoke ( $controller , $request );
if (isset( $request -> params [ 'return' ])) {
APP/webroot/index.php line 151 → Dispatcher->dispatch() App :: uses ( 'Dispatcher' , 'Routing' );
$Dispatcher = new Dispatcher ();
$Dispatcher -> dispatch (new CakeRequest (), new CakeResponse (array( 'charset' => Configure :: read ( 'App.encoding' ))));