1. Details
Return full configuration details.
1.1. CURL sample
$ curl 'https://minerva-service.lcsb.uni.lu/minerva/api/configuration/' -X GET1.2. Response Fields
| Path | Type | Description |
|---|---|---|
|
|
list of annotators |
|
|
list of bieEntity fields that are used by annotators |
|
|
when minerva platform was built |
|
|
git hash used to build minerva platform |
|
|
version of the minerva platform |
|
|
list of available export image formats |
|
|
map of miriam types supported by minerva. Types are defined on https://identifiers.org/ |
|
|
list of map formats |
|
|
map with modification states |
|
|
list of configuration options |
|
|
list of overlay types |
|
|
map with privilege type available in the system |
|
|
list of reaction types |
|
|
list of basic unit types |
|
|
list of element types |
|
|
annotator name |
|
|
url address of assoiated database |
|
|
Java class responsible for annotating process |
|
|
Java classes that identify bioEntity types that can be annotated by the annotator |
|
|
short description of the annotator |
|
|
list of supported input fields, generated outputs that can be filled by annotator and configuration options |
|
|
identifier type. Either this or 'field' is required for INPUT/OUTPUT parameter |
|
|
bioEntity field. Either this or 'annotation_type' is required for INPUT/OUTPUT parameter |
|
|
name of the CONFIG parameter |
|
|
description of the parameter |
|
|
type of the CONFIG parameter |
|
|
name of the CONFIG parameter |
|
|
default value of the CONFIG parameter |
|
|
order position when listing parameters |
|
|
type of parameter (INPUT/OUTPUT/CONFIG) |
|
|
human readable name of the field |
|
|
unique name of the field |
|
|
Java class that identify type |
|
|
human readable name of the type |
|
|
Java class that identify parent type |
|
|
file extension |
|
|
human readable name of the format |
|
|
Java class that is responsible for export |
|
|
human readable name of the identifier type |
|
|
url to database homepage |
|
|
unique identifier used by identifiers.org to reference this type |
|
|
list of uris used by this identifier type |
|
|
human readable name of map format |
|
|
default file extension |
|
|
file extensions supported by parser |
|
|
Java class that is used for import/export from the map format |
|
|
human readable name of modification state type |
|
|
short name of the type |
|
|
human readable name of configuration option |
|
|
group of options where this configuration option belongs to |
|
|
TRUE/FALSE - is the option responsible for server side processing or frontend |
|
|
option type |
|
|
value of the configuration option |
|
|
type of the configuration option. Available options: ALLOW_AUTO_REGISTER, BIG_FILE_STORAGE_DIR, COOKIE_POLICY_URL, CORS_DOMAIN, CUSTOM_CSS, DEFAULT_MAP, EMAIL_ADDRESS, EMAIL_IMAP_SERVER, EMAIL_LOGIN, EMAIL_PASSWORD, EMAIL_SMTP_PORT, EMAIL_SMTP_SERVER, EMAIL_SSL_SERVER, LDAP_ADDRESS, LDAP_BASE_DN, LDAP_BIND_DN, LDAP_EMAIL_ATTRIBUTE, LDAP_FILTER, LDAP_FIRST_NAME_ATTRIBUTE, LDAP_LAST_NAME_ATTRIBUTE, LDAP_OBJECT_CLASS, LDAP_PASSWORD, LDAP_PORT, LDAP_SSL, LDAP_UID, LEFT_LOGO_IMG, LEFT_LOGO_LINK, LEFT_LOGO_TEXT, LEGEND_FILE_1, LEGEND_FILE_2, LEGEND_FILE_3, LEGEND_FILE_4, MATOMO_URL, MAX_COLOR_VAL, MINERVANET_AUTH_TOKEN, MINERVANET_URL, MINERVA_ROOT, MIN_COLOR_VAL, NEUTRAL_COLOR_VAL, ORCID_CLIENT_ID, ORCID_CLIENT_SECRET, OVERLAY_OPACITY, REQUEST_ACCOUNT_DEFAULT_CONTENT, REQUEST_ACCOUNT_DEFAULT_TITLE, REQUEST_ACCOUNT_EMAIL, REQUIRE_APPROVAL_FOR_AUTO_REGISTERED_USERS, RIGHT_LOGO_IMG, RIGHT_LOGO_LINK, RIGHT_LOGO_TEXT, SESSION_LENGTH, SIMPLE_COLOR_VAL, TERMS_OF_USE, USER_MANUAL_FILE, X_FRAME_DOMAIN |
|
|
name of the type |
|
|
human readable description of the privilege |
|
|
class of objects to which privilege applies |
|
|
type of the privilege value (ie. boolean) |
|
|
Java class that identify type |
|
|
human readable name of the type |
|
|
Java class that identify parent type |
|
|
human readable name of the type |
|
|
type identifier |
1.3. Sample Response
{
"options" : [ {
"idObject" : 15,
"type" : "DEFAULT_MAP",
"valueType" : "STRING",
"commonName" : "Default Project Id",
"isServerSide" : false,
"value" : "empty",
"group" : "Server configuration"
}, {
"idObject" : 25,
"type" : "LEFT_LOGO_IMG",
"valueType" : "URL",
"commonName" : "Left logo icon",
"isServerSide" : false,
"value" : "resources/images/udl.png",
"group" : "Legend and logo"
}, {
"idObject" : 26,
"type" : "LEFT_LOGO_LINK",
"valueType" : "URL",
"commonName" : "Left logo link (after click)",
"isServerSide" : false,
"value" : "http://wwwen.uni.lu/",
"group" : "Legend and logo"
}, {
"idObject" : 27,
"type" : "LEFT_LOGO_TEXT",
"valueType" : "STRING",
"commonName" : "Left logo description",
"isServerSide" : false,
"value" : "University of Luxembourg",
"group" : "Legend and logo"
}, {
"idObject" : 28,
"type" : "RIGHT_LOGO_IMG",
"valueType" : "URL",
"commonName" : "Right logo icon",
"isServerSide" : false,
"value" : "resources/images/lcsb.png",
"group" : "Legend and logo"
}, {
"idObject" : 29,
"type" : "RIGHT_LOGO_LINK",
"valueType" : "URL",
"commonName" : "Right logo link (after click)",
"isServerSide" : false,
"value" : "http://wwwen.uni.lu/lcsb/",
"group" : "Legend and logo"
}, {
"idObject" : 30,
"type" : "RIGHT_LOGO_TEXT",
"valueType" : "STRING",
"commonName" : "Right logo description",
"isServerSide" : false,
"value" : "LCSB - Luxembourg Centre for Systems Biomedicine",
"group" : "Legend and logo"
}, {
"idObject" : 9,
"type" : "REQUEST_ACCOUNT_EMAIL",
"valueType" : "EMAIL",
"commonName" : "Email used for requesting an account",
"isServerSide" : false,
"value" : "",
"group" : "Email notification details"
}, {
"idObject" : 19,
"type" : "X_FRAME_DOMAIN",
"valueType" : "URL",
"commonName" : "Domain allowed to connect via x-frame technology",
"isServerSide" : false,
"value" : "",
"group" : "Server configuration"
}, {
"idObject" : 22,
"type" : "CORS_DOMAIN",
"valueType" : "BOOLEAN",
"commonName" : "Disable CORS (when disabled 'ORIGIN' http header is required)",
"isServerSide" : false,
"value" : "false",
"group" : "Server configuration"
}, {
"idObject" : 23,
"type" : "BIG_FILE_STORAGE_DIR",
"valueType" : "STRING",
"commonName" : "Path to store big files",
"isServerSide" : false,
"value" : "minerva-big/",
"group" : "Server configuration"
}, {
"idObject" : 31,
"type" : "LEGEND_FILE_1",
"valueType" : "URL",
"commonName" : "Legend 1 image file",
"isServerSide" : false,
"value" : "resources/images/legend_a.png",
"group" : "Legend and logo"
}, {
"idObject" : 32,
"type" : "LEGEND_FILE_2",
"valueType" : "URL",
"commonName" : "Legend 2 image file",
"isServerSide" : false,
"value" : "resources/images/legend_b.png",
"group" : "Legend and logo"
}, {
"idObject" : 33,
"type" : "LEGEND_FILE_3",
"valueType" : "URL",
"commonName" : "Legend 3 image file",
"isServerSide" : false,
"value" : "resources/images/legend_c.png",
"group" : "Legend and logo"
}, {
"idObject" : 34,
"type" : "LEGEND_FILE_4",
"valueType" : "URL",
"commonName" : "Legend 4 image file",
"isServerSide" : false,
"value" : "resources/images/legend_d.png",
"group" : "Legend and logo"
}, {
"idObject" : 13,
"type" : "USER_MANUAL_FILE",
"valueType" : "URL",
"commonName" : "User manual file",
"isServerSide" : false,
"value" : "resources/other/user_guide.pdf",
"group" : "Legend and logo"
}, {
"idObject" : 39,
"type" : "MIN_COLOR_VAL",
"valueType" : "COLOR",
"commonName" : "Overlay color for negative values",
"isServerSide" : false,
"value" : "FF0000",
"group" : "Overlays"
}, {
"idObject" : 40,
"type" : "MAX_COLOR_VAL",
"valueType" : "COLOR",
"commonName" : "Overlay color for positive values",
"isServerSide" : false,
"value" : "0000FF",
"group" : "Overlays"
}, {
"idObject" : 41,
"type" : "SIMPLE_COLOR_VAL",
"valueType" : "COLOR",
"commonName" : "Overlay color when no values are defined",
"isServerSide" : false,
"value" : "00FF00",
"group" : "Overlays"
}, {
"idObject" : 42,
"type" : "NEUTRAL_COLOR_VAL",
"valueType" : "COLOR",
"commonName" : "Overlay color for value=0",
"isServerSide" : false,
"value" : "FFFFFF",
"group" : "Overlays"
}, {
"idObject" : 43,
"type" : "OVERLAY_OPACITY",
"valueType" : "DOUBLE",
"commonName" : "Opacity used when drawing data overlays (value between 0.0-1.0)",
"isServerSide" : false,
"value" : "0.8",
"group" : "Overlays"
}, {
"idObject" : 11,
"type" : "REQUEST_ACCOUNT_DEFAULT_CONTENT",
"valueType" : "TEXT",
"commonName" : "Email content used for requesting an account",
"isServerSide" : false,
"value" : "Dear Disease map team,\nI would like to request an account in the system.\nKind regards",
"group" : "Email notification details"
}, {
"idObject" : 12,
"type" : "TERMS_OF_USE",
"valueType" : "URL",
"commonName" : "URL of platform's Terms of Service",
"isServerSide" : false,
"value" : "",
"group" : "Legend and logo"
}, {
"idObject" : 14,
"type" : "COOKIE_POLICY_URL",
"valueType" : "URL",
"commonName" : "Privacy policy (url)",
"isServerSide" : false,
"value" : "/minerva/default-cookie-policy.xhtml",
"group" : "Server configuration"
}, {
"idObject" : 1,
"type" : "SESSION_LENGTH",
"valueType" : "INTEGER",
"commonName" : "Max session inactivity time (in seconds)",
"isServerSide" : false,
"value" : "7200",
"group" : "Server configuration"
}, {
"idObject" : 16,
"type" : "MINERVA_ROOT",
"valueType" : "URL",
"commonName" : "Minerva root url",
"isServerSide" : false,
"value" : "",
"group" : "Server configuration"
}, {
"idObject" : 10,
"type" : "REQUEST_ACCOUNT_DEFAULT_TITLE",
"valueType" : "STRING",
"commonName" : "Email title used for requesting an account",
"isServerSide" : false,
"value" : "MINERVA account request",
"group" : "Email notification details"
}, {
"idObject" : 35,
"type" : "CUSTOM_CSS",
"valueType" : "TEXT",
"commonName" : "Custom CSS",
"isServerSide" : false,
"value" : "",
"group" : "Legend and logo"
}, {
"idObject" : 83,
"type" : "ORCID_CLIENT_ID",
"valueType" : "TEXT",
"commonName" : "Orcid Client ID",
"isServerSide" : false,
"value" : "",
"group" : "OAuth conifguration"
}, {
"idObject" : 84,
"type" : "ORCID_CLIENT_SECRET",
"valueType" : "PASSWORD",
"commonName" : "Orcid Client Secret",
"isServerSide" : false,
"group" : "OAuth conifguration"
}, {
"idObject" : 20,
"type" : "ALLOW_AUTO_REGISTER",
"valueType" : "BOOLEAN",
"commonName" : "Allow users to create accounts",
"isServerSide" : false,
"value" : "false",
"group" : "Server configuration"
}, {
"idObject" : 21,
"type" : "REQUIRE_APPROVAL_FOR_AUTO_REGISTERED_USERS",
"valueType" : "BOOLEAN",
"commonName" : "Require admin approval for auto-registered accounts",
"isServerSide" : false,
"value" : "true",
"group" : "Server configuration"
}, {
"idObject" : 91,
"type" : "MATOMO_URL",
"valueType" : "URL",
"commonName" : "Matomo tracking url (for example: https://cdn.matomo.cloud/atcomp.matomo.cloud/container_d9VKcbPg_dev_d48ac09b17cfa365367b6ce.js)",
"isServerSide" : false,
"value" : "",
"group" : "Server configuration"
} ],
"imageFormats" : [ {
"name" : "PNG image",
"handler" : "lcsb.mapviewer.converter.graphics.PngImageGenerator",
"extension" : "png"
}, {
"name" : "PDF image",
"handler" : "lcsb.mapviewer.converter.graphics.PdfImageGenerator",
"extension" : "pdf"
}, {
"name" : "SVG image",
"handler" : "lcsb.mapviewer.converter.graphics.SvgImageGenerator",
"extension" : "svg"
} ],
"modelFormats" : [ {
"name" : "CellDesigner SBML",
"handler" : "lcsb.mapviewer.converter.model.celldesigner.CellDesignerXmlParser",
"extension" : "xml",
"extensions" : [ "xml" ]
}, {
"name" : "SBGN-ML",
"handler" : "lcsb.mapviewer.converter.model.sbgnml.SbgnmlXmlConverter",
"extension" : "sbgn",
"extensions" : [ "sbgn" ]
}, {
"name" : "SBML",
"handler" : "lcsb.mapviewer.converter.model.sbml.SbmlParser",
"extension" : "xml",
"extensions" : [ "xml", "sbml" ]
}, {
"name" : "GPML",
"handler" : "lcsb.mapviewer.wikipathway.GpmlParser",
"extension" : "gpml",
"extensions" : [ "gpml" ]
} ],
"overlayTypes" : [ {
"name" : "GENERIC"
}, {
"name" : "GENETIC_VARIANT"
} ],
"elementTypes" : [ {
"className" : "lcsb.mapviewer.model.map.species.Element",
"name" : "Element",
"parentClass" : "lcsb.mapviewer.model.map.BioEntity"
}, {
"className" : "lcsb.mapviewer.model.map.compartment.Compartment",
"name" : "Compartment",
"parentClass" : "lcsb.mapviewer.model.map.species.Element"
}, {
"className" : "lcsb.mapviewer.model.map.species.Species",
"name" : "Species",
"parentClass" : "lcsb.mapviewer.model.map.species.Element"
}, {
"className" : "lcsb.mapviewer.model.map.compartment.LeftSquareCompartment",
"name" : "Compartment",
"parentClass" : "lcsb.mapviewer.model.map.compartment.Compartment"
}, {
"className" : "lcsb.mapviewer.model.map.compartment.BottomSquareCompartment",
"name" : "Compartment",
"parentClass" : "lcsb.mapviewer.model.map.compartment.Compartment"
}, {
"className" : "lcsb.mapviewer.model.map.compartment.RightSquareCompartment",
"name" : "Compartment",
"parentClass" : "lcsb.mapviewer.model.map.compartment.Compartment"
}, {
"className" : "lcsb.mapviewer.model.map.compartment.TopSquareCompartment",
"name" : "Compartment",
"parentClass" : "lcsb.mapviewer.model.map.compartment.Compartment"
}, {
"className" : "lcsb.mapviewer.model.map.compartment.SquareCompartment",
"name" : "Compartment",
"parentClass" : "lcsb.mapviewer.model.map.compartment.Compartment"
}, {
"className" : "lcsb.mapviewer.model.map.compartment.OvalCompartment",
"name" : "Compartment",
"parentClass" : "lcsb.mapviewer.model.map.compartment.Compartment"
}, {
"className" : "lcsb.mapviewer.model.map.compartment.PathwayCompartment",
"name" : "Pathway",
"parentClass" : "lcsb.mapviewer.model.map.compartment.Compartment"
}, {
"className" : "lcsb.mapviewer.model.map.species.AntisenseRna",
"name" : "Antisense RNA",
"parentClass" : "lcsb.mapviewer.model.map.species.Species"
}, {
"className" : "lcsb.mapviewer.model.map.species.Chemical",
"name" : "Chemical",
"parentClass" : "lcsb.mapviewer.model.map.species.Species"
}, {
"className" : "lcsb.mapviewer.model.map.species.Complex",
"name" : "Complex",
"parentClass" : "lcsb.mapviewer.model.map.species.Species"
}, {
"className" : "lcsb.mapviewer.model.map.species.Degraded",
"name" : "Degraded",
"parentClass" : "lcsb.mapviewer.model.map.species.Species"
}, {
"className" : "lcsb.mapviewer.model.map.species.Drug",
"name" : "Drug",
"parentClass" : "lcsb.mapviewer.model.map.species.Species"
}, {
"className" : "lcsb.mapviewer.model.map.species.Gene",
"name" : "Gene",
"parentClass" : "lcsb.mapviewer.model.map.species.Species"
}, {
"className" : "lcsb.mapviewer.model.map.species.Phenotype",
"name" : "Phenotype",
"parentClass" : "lcsb.mapviewer.model.map.species.Species"
}, {
"className" : "lcsb.mapviewer.model.map.species.Protein",
"name" : "Protein",
"parentClass" : "lcsb.mapviewer.model.map.species.Species"
}, {
"className" : "lcsb.mapviewer.model.map.species.Rna",
"name" : "RNA",
"parentClass" : "lcsb.mapviewer.model.map.species.Species"
}, {
"className" : "lcsb.mapviewer.model.map.species.Unknown",
"name" : "Unknown",
"parentClass" : "lcsb.mapviewer.model.map.species.Species"
}, {
"className" : "lcsb.mapviewer.model.map.species.Ion",
"name" : "Ion",
"parentClass" : "lcsb.mapviewer.model.map.species.Chemical"
}, {
"className" : "lcsb.mapviewer.model.map.species.SimpleMolecule",
"name" : "Simple molecule",
"parentClass" : "lcsb.mapviewer.model.map.species.Chemical"
}, {
"className" : "lcsb.mapviewer.model.map.species.TruncatedProtein",
"name" : "Protein",
"parentClass" : "lcsb.mapviewer.model.map.species.Protein"
}, {
"className" : "lcsb.mapviewer.model.map.species.GenericProtein",
"name" : "Protein",
"parentClass" : "lcsb.mapviewer.model.map.species.Protein"
}, {
"className" : "lcsb.mapviewer.model.map.species.IonChannelProtein",
"name" : "Protein",
"parentClass" : "lcsb.mapviewer.model.map.species.Protein"
}, {
"className" : "lcsb.mapviewer.model.map.species.ReceptorProtein",
"name" : "Protein",
"parentClass" : "lcsb.mapviewer.model.map.species.Protein"
} ],
"reactionTypes" : [ {
"className" : "lcsb.mapviewer.model.map.reaction.Reaction",
"name" : "Generic Reaction",
"parentClass" : "lcsb.mapviewer.model.map.BioEntity"
}, {
"className" : "lcsb.mapviewer.model.map.reaction.type.CatalysisReaction",
"name" : "Catalysis",
"parentClass" : "lcsb.mapviewer.model.map.reaction.Reaction"
}, {
"className" : "lcsb.mapviewer.model.map.reaction.type.DissociationReaction",
"name" : "Dissociation",
"parentClass" : "lcsb.mapviewer.model.map.reaction.Reaction"
}, {
"className" : "lcsb.mapviewer.model.map.reaction.type.HeterodimerAssociationReaction",
"name" : "Heterodimer association",
"parentClass" : "lcsb.mapviewer.model.map.reaction.Reaction"
}, {
"className" : "lcsb.mapviewer.model.map.reaction.type.InhibitionReaction",
"name" : "Inhibition",
"parentClass" : "lcsb.mapviewer.model.map.reaction.Reaction"
}, {
"className" : "lcsb.mapviewer.model.map.reaction.type.KnownTransitionOmittedReaction",
"name" : "Known transition omitted",
"parentClass" : "lcsb.mapviewer.model.map.reaction.Reaction"
}, {
"className" : "lcsb.mapviewer.model.map.reaction.type.ModulationReaction",
"name" : "Modulation",
"parentClass" : "lcsb.mapviewer.model.map.reaction.Reaction"
}, {
"className" : "lcsb.mapviewer.model.map.reaction.type.NegativeInfluenceReaction",
"name" : "Negative influence",
"parentClass" : "lcsb.mapviewer.model.map.reaction.Reaction"
}, {
"className" : "lcsb.mapviewer.model.map.reaction.type.PhysicalStimulationReaction",
"name" : "Physical stimulation",
"parentClass" : "lcsb.mapviewer.model.map.reaction.Reaction"
}, {
"className" : "lcsb.mapviewer.model.map.reaction.type.PositiveInfluenceReaction",
"name" : "Positive influence",
"parentClass" : "lcsb.mapviewer.model.map.reaction.Reaction"
}, {
"className" : "lcsb.mapviewer.model.map.reaction.type.ReducedModulationReaction",
"name" : "Reduced modulation",
"parentClass" : "lcsb.mapviewer.model.map.reaction.Reaction"
}, {
"className" : "lcsb.mapviewer.model.map.reaction.type.ReducedPhysicalStimulationReaction",
"name" : "Reduced physical stimulation",
"parentClass" : "lcsb.mapviewer.model.map.reaction.Reaction"
}, {
"className" : "lcsb.mapviewer.model.map.reaction.type.ReducedTriggerReaction",
"name" : "Reduced trigger",
"parentClass" : "lcsb.mapviewer.model.map.reaction.Reaction"
}, {
"className" : "lcsb.mapviewer.model.map.reaction.type.StateTransitionReaction",
"name" : "State transition",
"parentClass" : "lcsb.mapviewer.model.map.reaction.Reaction"
}, {
"className" : "lcsb.mapviewer.model.map.reaction.type.TranscriptionReaction",
"name" : "Transcription",
"parentClass" : "lcsb.mapviewer.model.map.reaction.Reaction"
}, {
"className" : "lcsb.mapviewer.model.map.reaction.type.TranslationReaction",
"name" : "Translation",
"parentClass" : "lcsb.mapviewer.model.map.reaction.Reaction"
}, {
"className" : "lcsb.mapviewer.model.map.reaction.type.TransportReaction",
"name" : "Transport",
"parentClass" : "lcsb.mapviewer.model.map.reaction.Reaction"
}, {
"className" : "lcsb.mapviewer.model.map.reaction.type.TriggerReaction",
"name" : "Trigger",
"parentClass" : "lcsb.mapviewer.model.map.reaction.Reaction"
}, {
"className" : "lcsb.mapviewer.model.map.reaction.type.TruncationReaction",
"name" : "Truncation",
"parentClass" : "lcsb.mapviewer.model.map.reaction.Reaction"
}, {
"className" : "lcsb.mapviewer.model.map.reaction.type.UnknownCatalysisReaction",
"name" : "Unknown catalysis",
"parentClass" : "lcsb.mapviewer.model.map.reaction.Reaction"
}, {
"className" : "lcsb.mapviewer.model.map.reaction.type.UnknownInhibitionReaction",
"name" : "Unknown inhibition",
"parentClass" : "lcsb.mapviewer.model.map.reaction.Reaction"
}, {
"className" : "lcsb.mapviewer.model.map.reaction.type.UnknownNegativeInfluenceReaction",
"name" : "Unknown negative influence",
"parentClass" : "lcsb.mapviewer.model.map.reaction.Reaction"
}, {
"className" : "lcsb.mapviewer.model.map.reaction.type.UnknownPositiveInfluenceReaction",
"name" : "Unknown positive influence",
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},
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},
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},
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},
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},
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},
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},
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},
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},
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},
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},
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},
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"homepage" : "http://opm.phar.umich.edu/",
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},
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},
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},
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},
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},
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},
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},
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},
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"registryIdentifier" : "MIR:00000147",
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},
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},
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"registryIdentifier" : "MIR:00000355",
"uris" : [ "urn:miriam:polbase", "http://identifiers.org/polbase/", "http://identifiers.org/polbase", "https://identifiers.org/polbase/", "https://identifiers.org/polbase" ]
},
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"registryIdentifier" : "MIR:00000335",
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},
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},
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},
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},
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},
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"homepage" : "http://www.proglycprot.org/",
"registryIdentifier" : "MIR:00000354",
"uris" : [ "urn:miriam:proglyc", "http://identifiers.org/proglyc/", "http://identifiers.org/proglyc", "https://identifiers.org/proglyc/", "https://identifiers.org/proglyc" ]
},
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"homepage" : "https://www.expasy.org/prosite/",
"registryIdentifier" : "MIR:00000032",
"uris" : [ "urn:miriam:prosite", "http://identifiers.org/prosite/", "http://identifiers.org/prosite", "https://identifiers.org/prosite/", "https://identifiers.org/prosite" ]
},
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"registryIdentifier" : "MIR:00000226",
"uris" : [ "urn:miriam:protclustdb", "http://identifiers.org/protclustdb/", "http://identifiers.org/protclustdb", "https://identifiers.org/protclustdb/", "https://identifiers.org/protclustdb" ]
},
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},
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"registryIdentifier" : "MIR:00000490",
"uris" : [ "urn:miriam:pdb.ligand", "http://identifiers.org/pdb.ligand/", "http://identifiers.org/pdb.ligand", "https://identifiers.org/pdb.ligand/", "https://identifiers.org/pdb.ligand" ]
},
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},
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"uris" : [ "urn:miriam:pr", "urn:miriam:obo.pr", "http://identifiers.org/pr/", "http://identifiers.org/PR", "https://identifiers.org/pr/", "https://identifiers.org/PR" ]
},
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"uris" : [ "urn:miriam:proteomicsdb.peptide", "http://identifiers.org/proteomicsdb.peptide/", "http://identifiers.org/proteomicsdb.peptide", "https://identifiers.org/proteomicsdb.peptide/", "https://identifiers.org/proteomicsdb.peptide" ]
},
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}
},
"unitTypes" : [ {
"name" : "ampere",
"id" : "AMPERE"
}, {
"name" : "avogadro",
"id" : "AVOGADRO"
}, {
"name" : "becquerel",
"id" : "BECQUEREL"
}, {
"name" : "candela",
"id" : "CANDELA"
}, {
"name" : "coulumb",
"id" : "COULUMB"
}, {
"name" : "dimensionless",
"id" : "DIMENSIONLESS"
}, {
"name" : "farad",
"id" : "FARAD"
}, {
"name" : "gram",
"id" : "GRAM"
}, {
"name" : "gray",
"id" : "GRAY"
}, {
"name" : "henry",
"id" : "HENRY"
}, {
"name" : "hertz",
"id" : "HERTZ"
}, {
"name" : "item",
"id" : "ITEM"
}, {
"name" : "joule",
"id" : "JOULE"
}, {
"name" : "katal",
"id" : "KATAL"
}, {
"name" : "kelvin",
"id" : "KELVIN"
}, {
"name" : "kilogram",
"id" : "KILOGRAM"
}, {
"name" : "litre",
"id" : "LITRE"
}, {
"name" : "lumen",
"id" : "LUMEN"
}, {
"name" : "lux",
"id" : "LUX"
}, {
"name" : "metre",
"id" : "METRE"
}, {
"name" : "mole",
"id" : "MOLE"
}, {
"name" : "newton",
"id" : "NEWTON"
}, {
"name" : "ohm",
"id" : "OHM"
}, {
"name" : "pascal",
"id" : "PASCAL"
}, {
"name" : "radian",
"id" : "RADIAN"
}, {
"name" : "second",
"id" : "SECOND"
}, {
"name" : "siemens",
"id" : "SIEMENS"
}, {
"name" : "sievert",
"id" : "SIEVERT"
}, {
"name" : "steradian",
"id" : "STERADIAN"
}, {
"name" : "tesla",
"id" : "TESLA"
}, {
"name" : "volt",
"id" : "VOLT"
}, {
"name" : "watt",
"id" : "WATT"
}, {
"name" : "weber",
"id" : "WEBER"
} ],
"modificationStateTypes" : {
"ACETYLATED" : {
"commonName" : "acetylated",
"abbreviation" : "Ac"
},
"DONT_CARE" : {
"commonName" : "unspecified",
"abbreviation" : "*"
},
"EMPTY" : {
"commonName" : "empty",
"abbreviation" : ""
},
"GLYCOSYLATED" : {
"commonName" : "glycosylated",
"abbreviation" : "G"
},
"HYDROXYLATED" : {
"commonName" : "hydroxylated",
"abbreviation" : "OH"
},
"METHYLATED" : {
"commonName" : "methylated",
"abbreviation" : "Me"
},
"MYRISTOYLATED" : {
"commonName" : "myristoylated",
"abbreviation" : "My"
},
"PALMYTOYLATED" : {
"commonName" : "palmytoylated",
"abbreviation" : "Pa"
},
"PHOSPHORYLATED" : {
"commonName" : "phosphorylated",
"abbreviation" : "P"
},
"PRENYLATED" : {
"commonName" : "prenylated",
"abbreviation" : "Pr"
},
"PROTONATED" : {
"commonName" : "protonated",
"abbreviation" : "H"
},
"SULFATED" : {
"commonName" : "sulfated",
"abbreviation" : "S"
},
"UBIQUITINATED" : {
"commonName" : "ubiquitinated",
"abbreviation" : "Ub"
},
"UNKNOWN" : {
"commonName" : "unknown",
"abbreviation" : "?"
}
},
"privilegeTypes" : {
"IS_ADMIN" : {
"commonName" : "Admin",
"objectType" : null,
"valueType" : "boolean"
},
"IS_CURATOR" : {
"commonName" : "Curator",
"objectType" : null,
"valueType" : "boolean"
},
"READ_PROJECT" : {
"commonName" : "View project",
"objectType" : "Project",
"valueType" : "boolean"
}
},
"version" : "Unknown",
"buildDate" : "Unknown",
"gitHash" : "Unknown",
"annotators" : [ {
"className" : "lcsb.mapviewer.annotation.services.annotators.PdbAnnotator",
"name" : "Protein Data Bank",
"description" : "",
"url" : "http://www.pdbe.org/",
"elementClassNames" : [ "lcsb.mapviewer.model.map.species.Protein", "lcsb.mapviewer.model.map.species.Rna", "lcsb.mapviewer.model.map.species.Gene" ],
"parameters" : [ {
"field" : null,
"annotation_type" : "UNIPROT",
"order" : 0,
"type" : "INPUT"
}, {
"field" : null,
"annotation_type" : "PDB",
"order" : 1,
"type" : "OUTPUT"
} ]
}, {
"className" : "lcsb.mapviewer.annotation.services.annotators.ReconAnnotator",
"name" : "Recon annotator",
"description" : "",
"url" : "https://www.vmh.life/",
"elementClassNames" : [ "lcsb.mapviewer.model.map.species.Chemical", "lcsb.mapviewer.model.map.reaction.Reaction" ],
"parameters" : [ {
"field" : "ABBREVIATION",
"annotation_type" : "VMH_METABOLITE",
"order" : 0,
"type" : "INPUT"
}, {
"field" : "NAME",
"annotation_type" : "VMH_METABOLITE",
"order" : 1,
"type" : "INPUT"
}, {
"field" : null,
"annotation_type" : "VMH_METABOLITE",
"order" : 2,
"type" : "INPUT"
}, {
"field" : null,
"annotation_type" : "EC",
"order" : 3,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "CHEBI",
"order" : 4,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "KEGG_COMPOUND",
"order" : 5,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "KEGG_REACTION",
"order" : 6,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "KEGG_ORTHOLOGY",
"order" : 7,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "PUBCHEM",
"order" : 8,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "HMDB",
"order" : 9,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "INCHI",
"order" : 10,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "INCHIKEY",
"order" : 11,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "COG",
"order" : 12,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "VMH_METABOLITE",
"order" : 13,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "VMH_REACTION",
"order" : 14,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "CHEMSPIDER",
"order" : 15,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "WIKIPEDIA",
"order" : 16,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "CAS",
"order" : 17,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "CHEMBL_COMPOUND",
"order" : 18,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "MESH_2012",
"order" : 19,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "RHEA",
"order" : 20,
"type" : "OUTPUT"
}, {
"field" : "ABBREVIATION",
"annotation_type" : null,
"order" : 21,
"type" : "OUTPUT"
}, {
"field" : "DESCRIPTION",
"annotation_type" : null,
"order" : 22,
"type" : "OUTPUT"
}, {
"field" : "FORMULA",
"annotation_type" : null,
"order" : 23,
"type" : "OUTPUT"
}, {
"field" : "MCS",
"annotation_type" : null,
"order" : 24,
"type" : "OUTPUT"
}, {
"field" : "CHARGE",
"annotation_type" : null,
"order" : 25,
"type" : "OUTPUT"
}, {
"field" : "SUBSYSTEM",
"annotation_type" : null,
"order" : 26,
"type" : "OUTPUT"
}, {
"field" : "SYNONYMS",
"annotation_type" : null,
"order" : 27,
"type" : "OUTPUT"
}, {
"field" : "SMILE",
"annotation_type" : null,
"order" : 28,
"type" : "OUTPUT"
} ]
}, {
"className" : "lcsb.mapviewer.annotation.services.annotators.UniprotAnnotator",
"name" : "Uniprot",
"description" : "",
"url" : "http://www.uniprot.org/",
"elementClassNames" : [ "lcsb.mapviewer.model.map.species.Protein", "lcsb.mapviewer.model.map.species.Gene", "lcsb.mapviewer.model.map.species.Rna" ],
"parameters" : [ {
"field" : null,
"annotation_type" : "UNIPROT",
"order" : 0,
"type" : "INPUT"
}, {
"field" : "NAME",
"annotation_type" : "UNIPROT",
"order" : 1,
"type" : "INPUT"
}, {
"field" : null,
"annotation_type" : "HGNC_SYMBOL",
"order" : 2,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "UNIPROT",
"order" : 3,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "EC",
"order" : 4,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "STRING",
"order" : 5,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "ENTREZ",
"order" : 6,
"type" : "OUTPUT"
} ]
}, {
"className" : "lcsb.mapviewer.annotation.services.annotators.BrendaAnnotator",
"name" : "BRENDA",
"description" : "",
"url" : "http://www.brenda-enzymes.org",
"elementClassNames" : [ "lcsb.mapviewer.model.map.species.Protein", "lcsb.mapviewer.model.map.species.Gene", "lcsb.mapviewer.model.map.species.Rna" ],
"parameters" : [ {
"field" : null,
"annotation_type" : "TAIR_LOCUS",
"order" : 0,
"type" : "INPUT"
}, {
"field" : null,
"annotation_type" : "UNIPROT",
"order" : 1,
"type" : "INPUT"
}, {
"field" : null,
"annotation_type" : "BRENDA",
"order" : 2,
"type" : "OUTPUT"
} ]
}, {
"className" : "lcsb.mapviewer.annotation.services.annotators.CazyAnnotator",
"name" : "CAZy",
"description" : "",
"url" : "http://commonchemistry.org",
"elementClassNames" : [ "lcsb.mapviewer.model.map.species.Protein", "lcsb.mapviewer.model.map.species.Gene", "lcsb.mapviewer.model.map.species.Rna" ],
"parameters" : [ {
"field" : null,
"annotation_type" : "TAIR_LOCUS",
"order" : 0,
"type" : "INPUT"
}, {
"field" : null,
"annotation_type" : "UNIPROT",
"order" : 1,
"type" : "INPUT"
}, {
"field" : null,
"annotation_type" : "CAZY",
"order" : 2,
"type" : "OUTPUT"
} ]
}, {
"className" : "lcsb.mapviewer.annotation.services.annotators.ChebiAnnotator",
"name" : "Chebi",
"description" : "",
"url" : "http://www.ebi.ac.uk/chebi/",
"elementClassNames" : [ "lcsb.mapviewer.model.map.species.Chemical" ],
"parameters" : [ {
"field" : null,
"annotation_type" : "CHEBI",
"order" : 0,
"type" : "INPUT"
}, {
"field" : "NAME",
"annotation_type" : null,
"order" : 1,
"type" : "INPUT"
}, {
"field" : "FULL_NAME",
"annotation_type" : null,
"order" : 2,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "INCHI",
"order" : 3,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "INCHIKEY",
"order" : 4,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "STITCH",
"order" : 5,
"type" : "OUTPUT"
}, {
"field" : "SMILE",
"annotation_type" : null,
"order" : 6,
"type" : "OUTPUT"
}, {
"field" : "SYNONYMS",
"annotation_type" : null,
"order" : 7,
"type" : "OUTPUT"
} ]
}, {
"className" : "lcsb.mapviewer.annotation.services.annotators.CopyMissingCellDesignerMiriamDataAnnotator",
"name" : "CellDesigner copy issue",
"description" : "",
"url" : "https://minerva.pages.uni.lu/doc/",
"elementClassNames" : [ "lcsb.mapviewer.model.map.species.Element" ],
"parameters" : [ {
"field" : "NAME",
"annotation_type" : null,
"order" : 0,
"type" : "INPUT"
} ]
}, {
"className" : "lcsb.mapviewer.annotation.services.annotators.EnsemblAnnotator",
"name" : "Ensembl",
"description" : "",
"url" : "https://www.ensembl.org/",
"elementClassNames" : [ "lcsb.mapviewer.model.map.species.Protein", "lcsb.mapviewer.model.map.species.Rna", "lcsb.mapviewer.model.map.species.Gene" ],
"parameters" : [ {
"field" : null,
"annotation_type" : "ENSEMBL",
"order" : 0,
"type" : "INPUT"
}, {
"field" : null,
"annotation_type" : "ENTREZ",
"order" : 1,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "HGNC",
"order" : 2,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "HGNC_SYMBOL",
"order" : 3,
"type" : "OUTPUT"
}, {
"field" : "FULL_NAME",
"annotation_type" : null,
"order" : 4,
"type" : "OUTPUT"
}, {
"field" : "SYMBOL",
"annotation_type" : null,
"order" : 5,
"type" : "OUTPUT"
}, {
"field" : "SYNONYMS",
"annotation_type" : null,
"order" : 6,
"type" : "OUTPUT"
} ]
}, {
"className" : "lcsb.mapviewer.annotation.services.annotators.EntrezAnnotator",
"name" : "Entrez Gene",
"description" : "",
"url" : "http://www.ncbi.nlm.nih.gov/gene",
"elementClassNames" : [ "lcsb.mapviewer.model.map.species.Protein", "lcsb.mapviewer.model.map.species.Rna", "lcsb.mapviewer.model.map.species.Gene" ],
"parameters" : [ {
"field" : null,
"annotation_type" : "ENTREZ",
"order" : 0,
"type" : "INPUT"
}, {
"field" : null,
"annotation_type" : "ENSEMBL",
"order" : 1,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "HGNC",
"order" : 2,
"type" : "OUTPUT"
}, {
"field" : "FULL_NAME",
"annotation_type" : null,
"order" : 3,
"type" : "OUTPUT"
}, {
"field" : "DESCRIPTION",
"annotation_type" : null,
"order" : 4,
"type" : "OUTPUT"
}, {
"field" : "SYMBOL",
"annotation_type" : null,
"order" : 5,
"type" : "OUTPUT"
}, {
"field" : "SYNONYMS",
"annotation_type" : null,
"order" : 6,
"type" : "OUTPUT"
} ]
}, {
"className" : "lcsb.mapviewer.annotation.services.annotators.GoAnnotator",
"name" : "Gene Ontology",
"description" : "",
"url" : "http://amigo.geneontology.org/amigo",
"elementClassNames" : [ "lcsb.mapviewer.model.map.species.Phenotype", "lcsb.mapviewer.model.map.compartment.Compartment", "lcsb.mapviewer.model.map.species.Complex" ],
"parameters" : [ {
"field" : null,
"annotation_type" : "GO",
"order" : 0,
"type" : "INPUT"
}, {
"field" : "FULL_NAME",
"annotation_type" : null,
"order" : 1,
"type" : "OUTPUT"
}, {
"field" : "DESCRIPTION",
"annotation_type" : null,
"order" : 2,
"type" : "OUTPUT"
} ]
}, {
"className" : "lcsb.mapviewer.annotation.services.annotators.HgncAnnotator",
"name" : "HGNC",
"description" : "",
"url" : "http://www.genenames.org",
"elementClassNames" : [ "lcsb.mapviewer.model.map.species.Protein", "lcsb.mapviewer.model.map.species.Rna", "lcsb.mapviewer.model.map.species.Gene" ],
"parameters" : [ {
"field" : null,
"annotation_type" : "HGNC_SYMBOL",
"order" : 0,
"type" : "INPUT"
}, {
"field" : null,
"annotation_type" : "HGNC",
"order" : 1,
"type" : "INPUT"
}, {
"field" : "NAME",
"annotation_type" : "HGNC_SYMBOL",
"order" : 2,
"type" : "INPUT"
}, {
"field" : null,
"annotation_type" : "ENSEMBL",
"order" : 3,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "ENTREZ",
"order" : 4,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "HGNC",
"order" : 5,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "HGNC_SYMBOL",
"order" : 6,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "REFSEQ",
"order" : 7,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "UNIPROT",
"order" : 8,
"type" : "OUTPUT"
}, {
"field" : "SYMBOL",
"annotation_type" : null,
"order" : 9,
"type" : "OUTPUT"
}, {
"field" : "PREVIOUS_SYMBOLS",
"annotation_type" : null,
"order" : 10,
"type" : "OUTPUT"
}, {
"field" : "SYNONYMS",
"annotation_type" : null,
"order" : 11,
"type" : "OUTPUT"
}, {
"field" : "NAME",
"annotation_type" : null,
"order" : 12,
"type" : "OUTPUT"
}, {
"field" : "FULL_NAME",
"annotation_type" : null,
"order" : 13,
"type" : "OUTPUT"
} ]
}, {
"className" : "lcsb.mapviewer.annotation.services.annotators.KeggAnnotator",
"name" : "KEGG",
"description" : "Annotations extracted from KEGG ENZYME Database based on species EC numbers. Annotation include relevant publications and homologous genes for given EC numbers.",
"url" : "https://www.genome.jp/kegg/",
"elementClassNames" : [ "lcsb.mapviewer.model.map.species.Protein", "lcsb.mapviewer.model.map.species.Gene", "lcsb.mapviewer.model.map.species.Rna" ],
"parameters" : [ {
"field" : null,
"annotation_type" : "TAIR_LOCUS",
"order" : 0,
"type" : "INPUT"
}, {
"field" : null,
"annotation_type" : "UNIPROT",
"order" : 1,
"type" : "INPUT"
}, {
"field" : null,
"annotation_type" : "EC",
"order" : 2,
"type" : "INPUT"
}, {
"field" : null,
"annotation_type" : "PUBMED",
"order" : 3,
"type" : "OUTPUT"
}, {
"field" : null,
"annotation_type" : "TAIR_LOCUS",
"order" : 4,
"type" : "OUTPUT"
}, {
"type" : "CONFIG",
"name" : "KEGG_ORGANISM_IDENTIFIER",
"commonName" : "KEGG organism identifier",
"inputType" : "java.lang.String",
"description" : "Space-delimited list of organisms codes for which homologous genes (final GENE section in the KEGG enzyme record) should be imported. Currently only ATH (final Arabidopsis Thaliana) is supported.",
"value" : "",
"order" : 5
} ]
}, {
"className" : "lcsb.mapviewer.annotation.services.annotators.TairAnnotator",
"name" : "TAIR",
"description" : "",
"url" : "http://arabidopsis.org/index.jsp",
"elementClassNames" : [ "lcsb.mapviewer.model.map.species.Protein", "lcsb.mapviewer.model.map.species.Gene", "lcsb.mapviewer.model.map.species.Rna" ],
"parameters" : [ {
"field" : null,
"annotation_type" : "TAIR_LOCUS",
"order" : 0,
"type" : "INPUT"
}, {
"field" : null,
"annotation_type" : "UNIPROT",
"order" : 1,
"type" : "OUTPUT"
} ]
} ],
"bioEntityFields" : [ {
"commonName" : "Abbreviation",
"name" : "ABBREVIATION"
}, {
"commonName" : "Charge",
"name" : "CHARGE"
}, {
"commonName" : "Description",
"name" : "DESCRIPTION"
}, {
"commonName" : "Formula",
"name" : "FORMULA"
}, {
"commonName" : "Full name",
"name" : "FULL_NAME"
}, {
"commonName" : "Name",
"name" : "NAME"
}, {
"commonName" : "Mechanical Confidence Score",
"name" : "MCS"
}, {
"commonName" : "Previous Symbols",
"name" : "PREVIOUS_SYMBOLS"
}, {
"commonName" : "Smile",
"name" : "SMILE"
}, {
"commonName" : "Symbol",
"name" : "SYMBOL"
}, {
"commonName" : "Synonyms",
"name" : "SYNONYMS"
}, {
"commonName" : "Subsystem",
"name" : "SUBSYSTEM"
} ]
}2. List configuration options
List configuration options.
2.1. CURL sample
$ curl 'https://minerva-service.lcsb.uni.lu/minerva/api/configuration/options/' -X GET2.2. Response Fields
| Path | Type | Description |
|---|---|---|
|
|
list of options |
|
|
human readable name of configuration option |
|
|
group of options where this configuration option belongs to |
|
|
TRUE/FALSE - is the option responsible for server side processing or frontend |
|
|
option type |
|
|
value of the configuration option |
|
|
type of the configuration option. Available options: ALLOW_AUTO_REGISTER, BIG_FILE_STORAGE_DIR, COOKIE_POLICY_URL, CORS_DOMAIN, CUSTOM_CSS, DEFAULT_MAP, EMAIL_ADDRESS, EMAIL_IMAP_SERVER, EMAIL_LOGIN, EMAIL_PASSWORD, EMAIL_SMTP_PORT, EMAIL_SMTP_SERVER, EMAIL_SSL_SERVER, LDAP_ADDRESS, LDAP_BASE_DN, LDAP_BIND_DN, LDAP_EMAIL_ATTRIBUTE, LDAP_FILTER, LDAP_FIRST_NAME_ATTRIBUTE, LDAP_LAST_NAME_ATTRIBUTE, LDAP_OBJECT_CLASS, LDAP_PASSWORD, LDAP_PORT, LDAP_SSL, LDAP_UID, LEFT_LOGO_IMG, LEFT_LOGO_LINK, LEFT_LOGO_TEXT, LEGEND_FILE_1, LEGEND_FILE_2, LEGEND_FILE_3, LEGEND_FILE_4, MATOMO_URL, MAX_COLOR_VAL, MINERVANET_AUTH_TOKEN, MINERVANET_URL, MINERVA_ROOT, MIN_COLOR_VAL, NEUTRAL_COLOR_VAL, ORCID_CLIENT_ID, ORCID_CLIENT_SECRET, OVERLAY_OPACITY, REQUEST_ACCOUNT_DEFAULT_CONTENT, REQUEST_ACCOUNT_DEFAULT_TITLE, REQUEST_ACCOUNT_EMAIL, REQUIRE_APPROVAL_FOR_AUTO_REGISTERED_USERS, RIGHT_LOGO_IMG, RIGHT_LOGO_LINK, RIGHT_LOGO_TEXT, SESSION_LENGTH, SIMPLE_COLOR_VAL, TERMS_OF_USE, USER_MANUAL_FILE, X_FRAME_DOMAIN |
2.3. Sample Response
[ {
"idObject" : 15,
"type" : "DEFAULT_MAP",
"valueType" : "STRING",
"commonName" : "Default Project Id",
"isServerSide" : false,
"value" : "empty",
"group" : "Server configuration"
}, {
"idObject" : 25,
"type" : "LEFT_LOGO_IMG",
"valueType" : "URL",
"commonName" : "Left logo icon",
"isServerSide" : false,
"value" : "resources/images/udl.png",
"group" : "Legend and logo"
}, {
"idObject" : 26,
"type" : "LEFT_LOGO_LINK",
"valueType" : "URL",
"commonName" : "Left logo link (after click)",
"isServerSide" : false,
"value" : "http://wwwen.uni.lu/",
"group" : "Legend and logo"
}, {
"idObject" : 27,
"type" : "LEFT_LOGO_TEXT",
"valueType" : "STRING",
"commonName" : "Left logo description",
"isServerSide" : false,
"value" : "University of Luxembourg",
"group" : "Legend and logo"
}, {
"idObject" : 28,
"type" : "RIGHT_LOGO_IMG",
"valueType" : "URL",
"commonName" : "Right logo icon",
"isServerSide" : false,
"value" : "resources/images/lcsb.png",
"group" : "Legend and logo"
}, {
"idObject" : 29,
"type" : "RIGHT_LOGO_LINK",
"valueType" : "URL",
"commonName" : "Right logo link (after click)",
"isServerSide" : false,
"value" : "http://wwwen.uni.lu/lcsb/",
"group" : "Legend and logo"
}, {
"idObject" : 30,
"type" : "RIGHT_LOGO_TEXT",
"valueType" : "STRING",
"commonName" : "Right logo description",
"isServerSide" : false,
"value" : "LCSB - Luxembourg Centre for Systems Biomedicine",
"group" : "Legend and logo"
}, {
"idObject" : 9,
"type" : "REQUEST_ACCOUNT_EMAIL",
"valueType" : "EMAIL",
"commonName" : "Email used for requesting an account",
"isServerSide" : false,
"value" : "",
"group" : "Email notification details"
}, {
"idObject" : 19,
"type" : "X_FRAME_DOMAIN",
"valueType" : "URL",
"commonName" : "Domain allowed to connect via x-frame technology",
"isServerSide" : false,
"value" : "",
"group" : "Server configuration"
}, {
"idObject" : 22,
"type" : "CORS_DOMAIN",
"valueType" : "BOOLEAN",
"commonName" : "Disable CORS (when disabled 'ORIGIN' http header is required)",
"isServerSide" : false,
"value" : "false",
"group" : "Server configuration"
}, {
"idObject" : 23,
"type" : "BIG_FILE_STORAGE_DIR",
"valueType" : "STRING",
"commonName" : "Path to store big files",
"isServerSide" : false,
"value" : "minerva-big/",
"group" : "Server configuration"
}, {
"idObject" : 31,
"type" : "LEGEND_FILE_1",
"valueType" : "URL",
"commonName" : "Legend 1 image file",
"isServerSide" : false,
"value" : "resources/images/legend_a.png",
"group" : "Legend and logo"
}, {
"idObject" : 32,
"type" : "LEGEND_FILE_2",
"valueType" : "URL",
"commonName" : "Legend 2 image file",
"isServerSide" : false,
"value" : "resources/images/legend_b.png",
"group" : "Legend and logo"
}, {
"idObject" : 33,
"type" : "LEGEND_FILE_3",
"valueType" : "URL",
"commonName" : "Legend 3 image file",
"isServerSide" : false,
"value" : "resources/images/legend_c.png",
"group" : "Legend and logo"
}, {
"idObject" : 34,
"type" : "LEGEND_FILE_4",
"valueType" : "URL",
"commonName" : "Legend 4 image file",
"isServerSide" : false,
"value" : "resources/images/legend_d.png",
"group" : "Legend and logo"
}, {
"idObject" : 13,
"type" : "USER_MANUAL_FILE",
"valueType" : "URL",
"commonName" : "User manual file",
"isServerSide" : false,
"value" : "resources/other/user_guide.pdf",
"group" : "Legend and logo"
}, {
"idObject" : 39,
"type" : "MIN_COLOR_VAL",
"valueType" : "COLOR",
"commonName" : "Overlay color for negative values",
"isServerSide" : false,
"value" : "FF0000",
"group" : "Overlays"
}, {
"idObject" : 40,
"type" : "MAX_COLOR_VAL",
"valueType" : "COLOR",
"commonName" : "Overlay color for positive values",
"isServerSide" : false,
"value" : "0000FF",
"group" : "Overlays"
}, {
"idObject" : 41,
"type" : "SIMPLE_COLOR_VAL",
"valueType" : "COLOR",
"commonName" : "Overlay color when no values are defined",
"isServerSide" : false,
"value" : "00FF00",
"group" : "Overlays"
}, {
"idObject" : 42,
"type" : "NEUTRAL_COLOR_VAL",
"valueType" : "COLOR",
"commonName" : "Overlay color for value=0",
"isServerSide" : false,
"value" : "FFFFFF",
"group" : "Overlays"
}, {
"idObject" : 43,
"type" : "OVERLAY_OPACITY",
"valueType" : "DOUBLE",
"commonName" : "Opacity used when drawing data overlays (value between 0.0-1.0)",
"isServerSide" : false,
"value" : "0.8",
"group" : "Overlays"
}, {
"idObject" : 11,
"type" : "REQUEST_ACCOUNT_DEFAULT_CONTENT",
"valueType" : "TEXT",
"commonName" : "Email content used for requesting an account",
"isServerSide" : false,
"value" : "Dear Disease map team,\nI would like to request an account in the system.\nKind regards",
"group" : "Email notification details"
}, {
"idObject" : 12,
"type" : "TERMS_OF_USE",
"valueType" : "URL",
"commonName" : "URL of platform's Terms of Service",
"isServerSide" : false,
"value" : "",
"group" : "Legend and logo"
}, {
"idObject" : 14,
"type" : "COOKIE_POLICY_URL",
"valueType" : "URL",
"commonName" : "Privacy policy (url)",
"isServerSide" : false,
"value" : "/minerva/default-cookie-policy.xhtml",
"group" : "Server configuration"
}, {
"idObject" : 1,
"type" : "SESSION_LENGTH",
"valueType" : "INTEGER",
"commonName" : "Max session inactivity time (in seconds)",
"isServerSide" : false,
"value" : "7200",
"group" : "Server configuration"
}, {
"idObject" : 16,
"type" : "MINERVA_ROOT",
"valueType" : "URL",
"commonName" : "Minerva root url",
"isServerSide" : false,
"value" : "",
"group" : "Server configuration"
}, {
"idObject" : 10,
"type" : "REQUEST_ACCOUNT_DEFAULT_TITLE",
"valueType" : "STRING",
"commonName" : "Email title used for requesting an account",
"isServerSide" : false,
"value" : "MINERVA account request",
"group" : "Email notification details"
}, {
"idObject" : 35,
"type" : "CUSTOM_CSS",
"valueType" : "TEXT",
"commonName" : "Custom CSS",
"isServerSide" : false,
"value" : "",
"group" : "Legend and logo"
}, {
"idObject" : 83,
"type" : "ORCID_CLIENT_ID",
"valueType" : "TEXT",
"commonName" : "Orcid Client ID",
"isServerSide" : false,
"value" : "",
"group" : "OAuth conifguration"
}, {
"idObject" : 84,
"type" : "ORCID_CLIENT_SECRET",
"valueType" : "PASSWORD",
"commonName" : "Orcid Client Secret",
"isServerSide" : false,
"group" : "OAuth conifguration"
}, {
"idObject" : 20,
"type" : "ALLOW_AUTO_REGISTER",
"valueType" : "BOOLEAN",
"commonName" : "Allow users to create accounts",
"isServerSide" : false,
"value" : "false",
"group" : "Server configuration"
}, {
"idObject" : 21,
"type" : "REQUIRE_APPROVAL_FOR_AUTO_REGISTERED_USERS",
"valueType" : "BOOLEAN",
"commonName" : "Require admin approval for auto-registered accounts",
"isServerSide" : false,
"value" : "true",
"group" : "Server configuration"
}, {
"idObject" : 91,
"type" : "MATOMO_URL",
"valueType" : "URL",
"commonName" : "Matomo tracking url (for example: https://cdn.matomo.cloud/atcomp.matomo.cloud/container_d9VKcbPg_dev_d48ac09b17cfa365367b6ce.js)",
"isServerSide" : false,
"value" : "",
"group" : "Server configuration"
} ]3. Modify configuration option
Modify configuration option.
3.1. CURL sample
$ curl 'https://minerva-service.lcsb.uni.lu/minerva/api/configuration/options/EMAIL_SMTP_PORT' -X PATCH \
-d '{"option":{"value":"25"}}' \
--cookie "MINERVA_AUTH_TOKEN=xxxxxxxx" \
-H 'Content-Type: application/json'3.2. Path Parameters
| Parameter | Description |
|---|---|
|
option type |
3.3. Request Fields
| Path | Type | Description |
|---|---|---|
|
|
new option value |
3.4. Response Fields
| Path | Type | Description |
|---|---|---|
|
|
human readable name of configuration option |
|
|
group of options where this configuration option belongs to |
|
|
TRUE/FALSE - is the option responsible for server side processing or frontend |
|
|
option type |
|
|
value of the configuration option |
|
|
type of the configuration option. Available options: ALLOW_AUTO_REGISTER, BIG_FILE_STORAGE_DIR, COOKIE_POLICY_URL, CORS_DOMAIN, CUSTOM_CSS, DEFAULT_MAP, EMAIL_ADDRESS, EMAIL_IMAP_SERVER, EMAIL_LOGIN, EMAIL_PASSWORD, EMAIL_SMTP_PORT, EMAIL_SMTP_SERVER, EMAIL_SSL_SERVER, LDAP_ADDRESS, LDAP_BASE_DN, LDAP_BIND_DN, LDAP_EMAIL_ATTRIBUTE, LDAP_FILTER, LDAP_FIRST_NAME_ATTRIBUTE, LDAP_LAST_NAME_ATTRIBUTE, LDAP_OBJECT_CLASS, LDAP_PASSWORD, LDAP_PORT, LDAP_SSL, LDAP_UID, LEFT_LOGO_IMG, LEFT_LOGO_LINK, LEFT_LOGO_TEXT, LEGEND_FILE_1, LEGEND_FILE_2, LEGEND_FILE_3, LEGEND_FILE_4, MATOMO_URL, MAX_COLOR_VAL, MINERVANET_AUTH_TOKEN, MINERVANET_URL, MINERVA_ROOT, MIN_COLOR_VAL, NEUTRAL_COLOR_VAL, ORCID_CLIENT_ID, ORCID_CLIENT_SECRET, OVERLAY_OPACITY, REQUEST_ACCOUNT_DEFAULT_CONTENT, REQUEST_ACCOUNT_DEFAULT_TITLE, REQUEST_ACCOUNT_EMAIL, REQUIRE_APPROVAL_FOR_AUTO_REGISTERED_USERS, RIGHT_LOGO_IMG, RIGHT_LOGO_LINK, RIGHT_LOGO_TEXT, SESSION_LENGTH, SIMPLE_COLOR_VAL, TERMS_OF_USE, USER_MANUAL_FILE, X_FRAME_DOMAIN |
3.5. Sample Response
{
"idObject" : 8,
"type" : "EMAIL_SMTP_PORT",
"valueType" : "INTEGER",
"commonName" : "SMTP port",
"isServerSide" : true,
"value" : "25",
"group" : "Email notification details"
}