Skip navigation links
A B C D E G H I M N P S 

A

addCommand(String) - Method in class de.unirostock.sems.bives.webservice.client.BivesRequest
Adds another command.
addDocumentType(String) - Method in class de.unirostock.sems.bives.webservice.client.BivesSingleFileResponse
Adds another document type to the list of document types.
addError(String) - Method in class de.unirostock.sems.bives.webservice.client.BivesResponse
Adds an error.

B

baseUrl - Variable in class de.unirostock.sems.bives.webservice.client.impl.HttpBivesClient
The base url.
BivesClientException - Exception in de.unirostock.sems.bives.webservice.client.exception
The Class BivesClientException.
BivesClientException() - Constructor for exception de.unirostock.sems.bives.webservice.client.exception.BivesClientException
Instantiates a new bives client exception.
BivesClientException(String) - Constructor for exception de.unirostock.sems.bives.webservice.client.exception.BivesClientException
Instantiates a new bives client exception.
BivesClientException(Throwable) - Constructor for exception de.unirostock.sems.bives.webservice.client.exception.BivesClientException
Instantiates a new bives client exception.
BivesClientException(String, Throwable) - Constructor for exception de.unirostock.sems.bives.webservice.client.exception.BivesClientException
Instantiates a new bives client exception.
BivesClientException(String, Throwable, boolean, boolean) - Constructor for exception de.unirostock.sems.bives.webservice.client.exception.BivesClientException
Instantiates a new bives client exception.
BivesCommands - Interface in de.unirostock.sems.bives.webservice.client
The Interface BivesCommands providing some static command flags.
BivesComparisonCommands - Interface in de.unirostock.sems.bives.webservice.client
The Interface BivesComparisonCommands providing some static command flags for comparison of files.
BivesComparisonRequest - Class in de.unirostock.sems.bives.webservice.client
The Class BivesComparisonRequest to compare two versions using BiVeS web service.
BivesComparisonRequest() - Constructor for class de.unirostock.sems.bives.webservice.client.BivesComparisonRequest
The Constructor to create a comparison request.
BivesComparisonRequest(String, String) - Constructor for class de.unirostock.sems.bives.webservice.client.BivesComparisonRequest
The Constructor to create a comparison request.
BivesComparisonRequest(String, String, List<String>) - Constructor for class de.unirostock.sems.bives.webservice.client.BivesComparisonRequest
The Constructor to create a comparison request.
BivesComparisonResponse - Class in de.unirostock.sems.bives.webservice.client
The Class BivesComparisonResponse representing a response of a comparison request sent to the BiVeS web service.
BivesComparisonResponse() - Constructor for class de.unirostock.sems.bives.webservice.client.BivesComparisonResponse
 
BivesException - Exception in de.unirostock.sems.bives.webservice.client.exception
The Class BivesException.
BivesException() - Constructor for exception de.unirostock.sems.bives.webservice.client.exception.BivesException
Instantiates a new bives exception.
BivesException(String) - Constructor for exception de.unirostock.sems.bives.webservice.client.exception.BivesException
Instantiates a new bives exception.
BivesException(Throwable) - Constructor for exception de.unirostock.sems.bives.webservice.client.exception.BivesException
Instantiates a new bives exception.
BivesException(String, Throwable) - Constructor for exception de.unirostock.sems.bives.webservice.client.exception.BivesException
Instantiates a new bives exception.
BivesException(String, Throwable, boolean, boolean) - Constructor for exception de.unirostock.sems.bives.webservice.client.exception.BivesException
Instantiates a new bives exception.
BivesRequest - Class in de.unirostock.sems.bives.webservice.client
The Class BivesRequest to create a request for the BiVeS web service.
BivesRequest() - Constructor for class de.unirostock.sems.bives.webservice.client.BivesRequest
Instantiate a new request.
BivesResponse - Class in de.unirostock.sems.bives.webservice.client
The Class BivesResponse representing the response from a BiVeS web service.
BivesResponse() - Constructor for class de.unirostock.sems.bives.webservice.client.BivesResponse
The Constructor to create an BiVeS web service response.
bivesResults - Variable in class de.unirostock.sems.bives.webservice.client.BivesResponse
The bives results.
BivesSingleFileCommands - Interface in de.unirostock.sems.bives.webservice.client
The Interface BivesSingleFileCommands providing some static command flags to get information about certain files.
BivesSingleFileRequest - Class in de.unirostock.sems.bives.webservice.client
The Class BivesSingleFileRequest to retrieve some information of a single file from the BiVeS web service.
BivesSingleFileRequest() - Constructor for class de.unirostock.sems.bives.webservice.client.BivesSingleFileRequest
The Constructor to create a single-file-request.
BivesSingleFileRequest(String) - Constructor for class de.unirostock.sems.bives.webservice.client.BivesSingleFileRequest
The Constructor to create a single-file-request.
BivesSingleFileRequest(String, List<String>) - Constructor for class de.unirostock.sems.bives.webservice.client.BivesSingleFileRequest
The Constructor to create a single-file-request.
BivesSingleFileResponse - Class in de.unirostock.sems.bives.webservice.client
The Class BivesSingleFileResponse representing a response of a single-file-request sent to the BiVeS web service.
BivesSingleFileResponse() - Constructor for class de.unirostock.sems.bives.webservice.client.BivesSingleFileResponse
Instantiates a new bives single file response.
BivesWs - Interface in de.unirostock.sems.bives.webservice.client
The Interface to send a request to the BiVeS web service.

C

COMMAND_COMPONENT_HIERARCHY_DOT - Static variable in interface de.unirostock.sems.bives.webservice.client.BivesComparisonCommands
get the component hierarchy encoded in DOT (only available for CellML files)
COMMAND_COMPONENT_HIERARCHY_GRAPHML - Static variable in interface de.unirostock.sems.bives.webservice.client.BivesComparisonCommands
get the component hierarchy encoded in GraphML (only available for CellML files)
COMMAND_COMPONENT_HIERARCHY_JSON - Static variable in interface de.unirostock.sems.bives.webservice.client.BivesComparisonCommands
get the component hierarchy encoded in JSON (only available for CellML files)
COMMAND_DOCUMENT_TYPE - Static variable in interface de.unirostock.sems.bives.webservice.client.BivesSingleFileCommands
get the document type of the file
COMMAND_FORCE_CELLML - Static variable in interface de.unirostock.sems.bives.webservice.client.BivesCommands
force CellML file interpretation
COMMAND_FORCE_REGULAR - Static variable in interface de.unirostock.sems.bives.webservice.client.BivesCommands
force regular file interpretation (don't try to read as SBML or CellML)
COMMAND_FORCE_SBML - Static variable in interface de.unirostock.sems.bives.webservice.client.BivesCommands
force SBML file interpretation
COMMAND_META - Static variable in interface de.unirostock.sems.bives.webservice.client.BivesSingleFileCommands
get some meta information about the file
COMMAND_REACTIONS_DOT - Static variable in interface de.unirostock.sems.bives.webservice.client.BivesComparisonCommands
get the reaction network encoded in DOT
COMMAND_REACTIONS_GRAPHML - Static variable in interface de.unirostock.sems.bives.webservice.client.BivesComparisonCommands
get the reaction network encoded in GraphML
COMMAND_REACTIONS_JSON - Static variable in interface de.unirostock.sems.bives.webservice.client.BivesComparisonCommands
get the reaction network encoded in JSON
COMMAND_REPORT_HTML - Static variable in interface de.unirostock.sems.bives.webservice.client.BivesComparisonCommands
get the human readable report encoded in HTML
COMMAND_REPORT_MARKDOWN - Static variable in interface de.unirostock.sems.bives.webservice.client.BivesComparisonCommands
get the human readable report encoded in MarkDown
COMMAND_REPORT_RESTRUCTURED_TEXT - Static variable in interface de.unirostock.sems.bives.webservice.client.BivesComparisonCommands
get the human readable report encoded in reStructuredText
COMMAND_SET_LOG_STACKTRACE - Static variable in interface de.unirostock.sems.bives.webservice.client.BivesCommands
just intended to help server administrators to fix issues
COMMAND_SET_VERBOSE - Static variable in interface de.unirostock.sems.bives.webservice.client.BivesCommands
just intended to help server administrators to fix problems
COMMAND_SINGLE_FILE_COMPONENT_HIERARCHY_DOT - Static variable in interface de.unirostock.sems.bives.webservice.client.BivesSingleFileCommands
get the component hierarchy encoded in DOT (only available for CellML files)
COMMAND_SINGLE_FILE_COMPONENT_HIERARCHY_GRAPHML - Static variable in interface de.unirostock.sems.bives.webservice.client.BivesSingleFileCommands
get the component hierarchy encoded in GraphML (only available for CellML files)
COMMAND_SINGLE_FILE_COMPONENT_HIERARCHY_JSON - Static variable in interface de.unirostock.sems.bives.webservice.client.BivesSingleFileCommands
get the component hierarchy encoded in JSON (only available for CellML files)
COMMAND_SINGLE_FILE_REACTIONS_DOT - Static variable in interface de.unirostock.sems.bives.webservice.client.BivesSingleFileCommands
get the reaction network encoded in DOT
COMMAND_SINGLE_FILE_REACTIONS_GRAPHML - Static variable in interface de.unirostock.sems.bives.webservice.client.BivesSingleFileCommands
get the reaction network encoded in GraphML
COMMAND_SINGLE_FILE_REACTIONS_JSON - Static variable in interface de.unirostock.sems.bives.webservice.client.BivesSingleFileCommands
get the reaction network encoded in JSON
COMMAND_SINGLE_FLATTEN - Static variable in interface de.unirostock.sems.bives.webservice.client.BivesSingleFileCommands
get the flattened model
COMMAND_XML_DIFF - Static variable in interface de.unirostock.sems.bives.webservice.client.BivesComparisonCommands
get the diff encoded in xml
commands - Variable in class de.unirostock.sems.bives.webservice.client.BivesRequest
The commands.

D

de.unirostock.sems.bives.webservice.client - package de.unirostock.sems.bives.webservice.client
 
de.unirostock.sems.bives.webservice.client.exception - package de.unirostock.sems.bives.webservice.client.exception
 
de.unirostock.sems.bives.webservice.client.impl - package de.unirostock.sems.bives.webservice.client.impl
 
documentTypes - Variable in class de.unirostock.sems.bives.webservice.client.BivesSingleFileResponse
The document types.

E

error - Variable in class de.unirostock.sems.bives.webservice.client.BivesResponse
The errors.

G

getCommands() - Method in class de.unirostock.sems.bives.webservice.client.BivesRequest
Gets the commands.
getDocumentTypes() - Method in class de.unirostock.sems.bives.webservice.client.BivesSingleFileResponse
Gets the document types.
getErrors() - Method in class de.unirostock.sems.bives.webservice.client.BivesResponse
Gets the errors.
getMeta() - Method in class de.unirostock.sems.bives.webservice.client.BivesSingleFileResponse
Gets the meta informations.
getModels() - Method in class de.unirostock.sems.bives.webservice.client.BivesRequest
Gets the models.
getNodeStats() - Method in class de.unirostock.sems.bives.webservice.client.BivesSingleFileResponse
Gets the node statistics as a map: NODE_NAME => OCCURRENCES.
getResult(String) - Method in class de.unirostock.sems.bives.webservice.client.BivesResponse
Gets a result.

H

hasError() - Method in class de.unirostock.sems.bives.webservice.client.BivesResponse
Checks for errors.
HttpBivesClient - Class in de.unirostock.sems.bives.webservice.client.impl
The Implementation of a BiVeS web service Client.
HttpBivesClient(String) - Constructor for class de.unirostock.sems.bives.webservice.client.impl.HttpBivesClient
The Constructor.

I

isReady() - Method in class de.unirostock.sems.bives.webservice.client.BivesComparisonRequest
Checks if the request is ready.
isReady() - Method in class de.unirostock.sems.bives.webservice.client.BivesRequest
Checks if is this request is ready.
isReady() - Method in class de.unirostock.sems.bives.webservice.client.BivesSingleFileRequest
Checks if the request is ready.

M

meta - Variable in class de.unirostock.sems.bives.webservice.client.BivesSingleFileResponse
The meta informations.
models - Variable in class de.unirostock.sems.bives.webservice.client.BivesRequest
The models.

N

nodeStats - Variable in class de.unirostock.sems.bives.webservice.client.BivesSingleFileResponse
The node statistics.

P

performRequest(BivesSingleFileRequest) - Method in interface de.unirostock.sems.bives.webservice.client.BivesWs
Perform a single-file-request.
performRequest(BivesComparisonRequest) - Method in interface de.unirostock.sems.bives.webservice.client.BivesWs
Perform comparison request.
performRequest(BivesRequest, BivesResponse) - Method in class de.unirostock.sems.bives.webservice.client.impl.HttpBivesClient
Performs the request.
performRequest(BivesSingleFileRequest) - Method in class de.unirostock.sems.bives.webservice.client.impl.HttpBivesClient
 
performRequest(BivesComparisonRequest) - Method in class de.unirostock.sems.bives.webservice.client.impl.HttpBivesClient
 
postProcess() - Method in class de.unirostock.sems.bives.webservice.client.BivesComparisonResponse
 
postProcess() - Method in class de.unirostock.sems.bives.webservice.client.BivesResponse
Post process a response.
postProcess() - Method in class de.unirostock.sems.bives.webservice.client.BivesSingleFileResponse
 

S

setDocumentTypes(List<String>) - Method in class de.unirostock.sems.bives.webservice.client.BivesSingleFileResponse
Sets the document types.
setMeta(String, String) - Method in class de.unirostock.sems.bives.webservice.client.BivesSingleFileResponse
Sets the meta informations.
setModel(String) - Method in class de.unirostock.sems.bives.webservice.client.BivesSingleFileRequest
Sets the model.
setModels(String, String) - Method in class de.unirostock.sems.bives.webservice.client.BivesComparisonRequest
Sets the models.
setNodeStats(String, int) - Method in class de.unirostock.sems.bives.webservice.client.BivesSingleFileResponse
Sets the statistics for a certain node type.
setResult(String, String) - Method in class de.unirostock.sems.bives.webservice.client.BivesResponse
Sets a result.
A B C D E G H I M N P S 
Skip navigation links

Copyright © 2019 SEMS (Simulation Experiment Management for Systems Biology). All rights reserved.