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Three Microbase responders used for the Identification of Microorganisms present in IonTorrent Data using SFF_Exctract MIRA or Ray and BLAST

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Three microbase responders are used to take .sff data from IonTorrent and report on the organisms present within the data. It also takes three JSON input messages. The first calls sff_extract python script, the next calls MIRA or Ray and the final responder calls BLAST. For more information including a user manual visit www.bioinformatix.co.uk

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Inputs (3)

Name	Description
jsonContent
json
json3

Processors (9)

Name	Type	Description
publishMessageJsonContent	wsdl	Wsdl http://54.228.222.4:8080/MicrobaseWS/services/notification?wsdl Wsdl Operation publishMessageJsonContent
publishMessageJsonContent_input	xmlsplitter
publishMessageJsonContent_output	xmlsplitter
topic_value	stringconstant	Value CommandLine
publisherId_value	stringconstant	Value MyTavernaWorkflow
Workflow2	workflow
responderId_value	stringconstant	Value GenericCommandLineProcessor_SNAPSHOT
Workflow1	workflow
Workflow1_2	workflow

Beanshells (0)

None

Outputs (2)

Name	Description
messageId
messageState

Datalinks (11)

Source	Sink
publishMessageJsonContent_input:output	publishMessageJsonContent:parameters
topic_value:value	publishMessageJsonContent_input:topic
publisherId_value:value	publishMessageJsonContent_input:publisherId
jsonContent	publishMessageJsonContent_input:jsonContent
publishMessageJsonContent:parameters	publishMessageJsonContent_output:input
responderId_value:value	Workflow2:responderId
publishMessageJsonContent_output:return	Workflow2:messageId
json	Workflow1:jsonContent
json3	Workflow1_2:jsonContent
publishMessageJsonContent_output:return	messageId
Workflow2:messageState	messageState

Coordinations (2)

Controller	Target
Workflow1	Workflow1_2
Workflow2	Workflow1

Workflow Type

Taverna 2

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Team A

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