Workflow Entry: EBI_MUSCLE

Created at: 03/06/08 @ 06:16:22 Last updated: 03/06/08 @ 06:16:23

Version 1 (of 1)

Version created on: 03/06/08 @ 06:16:22 by: Hamish McWilliam | Revision comments Expand

Title: EBI_MUSCLE

Type: Taverna 1

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Description

Perform a multiple sequence alignment using the MUSCLE tool (see http://www.drive5.com/muscle/). The EBI’s WSMuscle web service (see http://www.ebi.ac.uk/Tools/webservices/services/muscle) is used.

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Download Workflow File/Package (SCUFL)

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Option 1:

Launch in Taverna

Note: you need to have both the WHIP Launcher and the Taverna myExperiment/WHIP plugin installed on your machine for this to work. See here for information.

Option 2:

Copy and paste this link into File > 'Open workflow location...'
http://www.myexperiment.org/workflows/221/download?version=1
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Workflow Components

Inputs (2)

Name	Description
Email_address	User e-mail address.
Sequences	Sequences to align, fasta format recommended.

Processors (7)

Name	Type	Description
runMuscle	arbitrarywsdl	Submit a MUSCLE analysis job (see http://www.ebi.ac.uk/Tools/webservices/services/muscle#runmuscle_params_content)
Job_params	local	Parameters for MUSCLE.
Contents_list	local	Wrap input data in list
Input_data	local	Add type to input sequences
Get_alignment	arbitrarywsdl	Get the results of a job (see http://www.ebi.ac.uk/Tools/webservices/services/muscle#poll_jobid_type)
Unpack_alignment	local	Convert byte[] from service into srting.
EBI_MUSCLE_poll_job	workflow	Check status of job.

Outputs (2)

Name	Description
MUSCLE_job_ID	EBI job identifier.
MUSCLE_alignment	Alignment produced by MUSCLE, in fasta format.

Links (10)

Sink	Source
runMuscle:content	Contents_list:output
Job_params:email	Email_address
Contents_list:WSArrayofData	Input_data:output
runMuscle:params	Job_params:output
Input_data:content	Sequences
Unpack_alignment:bytes	Get_alignment:output
EBI_MUSCLE_poll_job:Job_ID	runMuscle:jobid
MUSCLE_alignment	Unpack_alignment:string
Get_alignment:jobid	runMuscle:jobid
MUSCLE_job_ID	runMuscle:jobid