Write pathway to disk

Created: 2008-11-14 14:21:12 Last updated: 2008-11-14 14:21:13

Download Workflow

Downloads and writes a pathway from WikiPathways to a local disk in the given file type.

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http://www.myexperiment.org/workflows/392/download?version=2
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Workflow Components

Inputs (4)

Name	Description
file_type	The type of the file to write. This can be one of: - gpml (xml format, for use in WikiPathways, PathVisio, Cytoscape) - png (rasterized image format) - svg (vector image format) - pdf (portable document format) - pwf (for use in Eu.Gene) - txt (a text file containing a list of external references for the genes/proteins/metabolites on the pathway)
revision	The version of the pathway to download. Use '0' for the latest revision.
file_name	The name of the file to write the pathway to, without the file extension (this will be derived form the file type).
pathway_id

Processors (6)

Name	Type	Description
concat_filetype	local
concat_dot	local
writeFile	beanshell
getPathwayAsOutput	local
getPathwayAs	arbitrarywsdl
getPathwayAs_input	local

Beanshells (1)

Name	Description	Inputs	Outputs
writeFile		data fileName

Outputs (1)

Name	Description
writtenFile	The file that was written.

Links (11)

Source	Sink
file_name	concat_dot:string1
concat_dot:output	concat_filetype:string1
file_type	concat_filetype:string2
concat_filetype:output	writeFile:fileName
file_type	getPathwayAs_input:fileType
getPathwayAsOutput:data	writeFile:data
pathway_id	getPathwayAs_input:pwId
revision	getPathwayAs_input:revision
getPathwayAs:parameters	getPathwayAsOutput:input
getPathwayAs_input:output	getPathwayAs:parameters
concat_filetype:output	writtenFile

Coordinations (0)

Information Workflow Type

Taverna 1

Information Uploader

Thomask...

Information License

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Information Version 2 (latest) (of 2)

Information Credits (1)

(People/Groups)

Thomaskelder

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Information Tags (5)

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Information Featured In Packs (1)

WikiPathways workflows

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Information Statistics

3482 viewings

2322 downloads

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Citations (0)

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Version History

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Write pathway to disk

Created by Thomaskelder on Tuesday 16 September 2008 11:20:54 (UTC)

Last edited by Thomaskelder on Tuesday 16 September 2008 11:35:55 (UTC)
Write pathway to disk

Created by Thomaskelder on Friday 14 November 2008 14:21:12 (UTC)

Revision comment:

Adapted workflow to stable identifiers on WikiPathways

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