Workflow Entry: simple_xcms_pipeline

Created at: 14/07/08 @ 15:17:25 Last updated: 14/07/08 @ 15:19:02

Version 1 (of 1)

Version created on: 14/07/08 @ 15:17:25 by: Markf | Revision comments Expand

Last edited on: 14/07/08 @ 15:19:02 by: Markf

Title: simple_xcms_pipeline

Type: Taverna 1

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Description

A (very) simple demo pipeline that takes an experiment ID, gets the data from the (currently in beta) metware metabolomics datawarehouse and runs XCMS.

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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/335/download?version=1
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Workflow Components

Inputs (1)

Name	Description
experimentid

Processors (4)

Name	Type	Description
MetwareGetExperimentRaw	biomobywsdl	Get the raw data from a metware experiment
String	biomobyobject	a string
MetwareExperimentId	biomobyobject	A LSID pointing out a metware experiment
abwur_test_xcms	biomobywsdl	Test implementation of XCMS

Beanshells (0)

Outputs (1)

Name	Description
output

Links (5)

Source	Sink
MetwareExperimentId:mobyData	MetwareGetExperimentRaw:MetwareExperimentId(MetwareExperimentId)
String:mobyData	MetwareExperimentId:String(ExperimentId)
experimentid	String:value
MetwareGetExperimentRaw:MSRawCdfUrlSet(MSRawCdfUrlSet)	abwur_test_xcms:MSRawCdfUrlSet(MSRawCdfUrlSet)
abwur_test_xcms:output	output