User: Alan Williams

Name: Alan Williams

Joined: Monday 23 July 2007 @ 13:06:43 (GMT)

Last seen: Friday 10 February 2012 @ 20:04:51 (GMT)

Email (public): alanrw [at] cs.man.ac.uk

Website: Not specified

Location: Manchester, United Kingdom

17 Friends

5 Groups (admin)

8 Groups (member)

270 Workflows

13 Packs

19 Files

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Alan Williams has been credited 201 times

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Taverna 2 Original Uploader Alan Williams	Render gene via BioGPS (v1) Created: 10/02/12 @ 20:06:56 \| Last updated: 11/02/12 @ 01:32:07 Credits: Alan Williams License: Creative Commons Attribution-Share Alike 3.0 Unported License This workflow uses the REST API of BioGPS to list the plugins and then allow the user to select which plugin to use to display the input gene id Rating: 5.0 / 5 (1 rating) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 2 times \| Downloaded: 1 time Tags (1): biogps	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Example of explicit looping (v1) Created: 15/11/11 @ 10:45:45 \| Last updated: 15/11/11 @ 10:45:47 Credits: Alan Williams License: Creative Commons Attribution-Share Alike 3.0 Unported License This workflow demonstrates how a nested workflow can be called an explicit number of times. Note that the loop iterator does not need to be used in the logic of the loop contents. It can be used as a sentinel (see the conditional workflow) Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 14 times \| Downloaded: 14 times Tags (2): example \| looping	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Example of conditional invocation (v1) Created: 15/11/11 @ 10:20:10 \| Last updated: 15/11/11 @ 10:20:11 Credits: Alan Williams License: Creative Commons Attribution-Share Alike 3.0 Unported License This workflow demonstrates how nested workflows can be conditionally invoked Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 12 times \| Downloaded: 6 times Tags (2): condition \| example	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Simple Python example (v1) Created: 06/10/11 @ 14:58:34 \| Last updated: 06/10/11 @ 14:58:36 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License This workflow generates a random number within the range 0 to 100. The generation is done by a python script. The workflow assumes that python is in the path. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 31 times \| Downloaded: 17 times Tags (3): example \| python \| tool service	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Secure Web service call example (v1) Created: 14/07/11 @ 15:02:36 \| Last updated: 14/07/11 @ 15:02:38 Credits: Alex Nenadic License: Creative Commons Attribution 3.0 Unported License This is an example of a workflow that contains a call to a secure Web service that runs behind HTTPS and requires user to authenticate. The first thing you can expect to see is a pop up dialog asking if you trust the Web service to be invoked over HTTPS. You can use testuser/testpasswd as username and password for authentication when running the workflow. To see where the security is being configured, right-click the service in the diagram and select "Configure security" from the menu. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 22 times \| Downloaded: 12 times Tags (3): example \| secure services \| taverna	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Secure REST service call example (v1) Created: 14/07/11 @ 15:01:03 \| Last updated: 14/07/11 @ 15:01:05 Credits: Alex Nenadic License: Creative Commons Attribution 3.0 Unported License This is an example of a workflow that contains a call to a secure REST service that requires user to authenticate with HTTP Basic Authentication. You can use testuser/testpasswd as username and password for authentication when running the workflow. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 12 times \| Downloaded: 9 times Tags (4): example \| rest \| secure services \| taverna	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Unix tool for numerically adding two values. (v1) Created: 13/07/11 @ 10:24:40 \| Last updated: 13/07/11 @ 10:25:37 Credits: Alan Williams Steffen Möller License: Creative Commons Attribution 3.0 Unported License This workflow relies on a Unix system. It wraps the "bc" command line calculator. It downloads the calculation script from a URL. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 21 times \| Downloaded: 8 times Tags (3): example \| taverna \| tool service	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Unix tools with zip, unzip and diff (v1) Created: 13/07/11 @ 10:21:10 \| Last updated: 13/07/11 @ 10:22:52 Credits: Alan Williams Steffen Möller Attributions: Example for external tools with gzip and gunzip License: Creative Commons Attribution 3.0 Unported License This workflow only works on a Unix machine. This workflow takes a fixed URL from which a text file is downloaded (output as Original_file). That file is zipped (output as Zipped_File) and then unzipped again (output as Unzipped_File). The orginal file and the unzipped version are then diff'd/ Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 11 times \| Downloaded: 17 times Tags (3): example \| taverna \| tool service	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Unix tool service using string replacement (v1) Created: 13/07/11 @ 10:19:35 \| Last updated: 13/07/11 @ 10:19:37 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The tool service outputs a message that greets using the names specified on Greet's input ports. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 5 times Tags (3): example \| taverna \| tool service	View Download (v1)
Taverna 2 Original Uploader Alan Williams	A workflow version of the EMBOSS tutorial (v1) Created: 12/07/11 @ 15:55:06 \| Last updated: 12/07/11 @ 15:55:08 Credits: Tomoinn Attributions: A workflow version of the EMBOSS tutorial License: Creative Commons Attribution 3.0 Unported License Designed to show the use of EMBOSS based Soaplab services from Taverna, this workflow has no inputs as all initial values are specified as string constants. A sequence set is fetched using the seqret tool, then simultaneously scanned for predicted transmembrane regions and subjected to a multiple alignment using emma. This alignment is then plotted to a set of PNG images and also used to build a profile using the prophecy and prophet tools. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 15 times \| Downloaded: 3 times Tags (3): example \| soaplab \| taverna	View Download (v1)
Taverna 2 Original Uploader Alan Williams	BioMoby tutorial workflow (v1) Created: 12/07/11 @ 15:50:21 \| Last updated: 12/07/11 @ 15:50:22 Credits: EdwardKawas License: Creative Commons Attribution 3.0 Unported License A workflow from part of the BioMoby tutorial Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 11 times \| Downloaded: 5 times Tags (3): biomoby \| example \| taverna	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Demonstration of configurable iteration (v1) Created: 12/07/11 @ 14:40:22 \| Last updated: 12/07/11 @ 14:40:24 Credits: Alan Williams Tomoinn License: Creative Commons Attribution 3.0 Unported License This workflow shows the use of the iteration strategy editor to ensure that only relevant combinations of inputs are used during an implicit iteration. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 5 times \| Downloaded: 2 times Tags (3): example \| iteration \| taverna	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Fetch PDB flatfile from RCSB server (v1) Created: 12/07/11 @ 14:37:08 \| Last updated: 12/07/11 @ 14:37:10 Credits: Alan Williams Tomoinn License: Creative Commons Attribution 3.0 Unported License Given an identifier such as '1crn' fetches the PDB format flatfile from the RCSB Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 18 times \| Downloaded: 7 times Tags (3): example \| rcsb \| taverna	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Fetch today's xkcd comic (v1) Created: 12/07/11 @ 14:13:35 \| Last updated: 12/07/11 @ 14:13:36 Credits: Tomoinn Stian Soiland-Reyes Attributions: Fetch today's xkcd comic License: Creative Commons Attribution 3.0 Unported License Use the local services and some filtering operations to fetch the comic strip image from http://xkcd.com/ Based on the FetchDailyDilbert workflow. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 22 times \| Downloaded: 14 times Tags (4): example \| localworker \| taverna \| xkcd	View Download (v1)
Taverna 2 Original Uploader Alan Williams	GBSeq test (v1) Created: 12/07/11 @ 14:08:40 \| Last updated: 12/07/11 @ 14:08:41 Credits: Franck Tanoh Attributions: GBSeq test License: Creative Commons Attribution 3.0 Unported License This workflow retrieves nucleotide and protein sequences with the literature and references associated to them given a protein and a nucleotide id. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 1 time \| Downloaded: 4 times Tags (2): example \| taverna	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Pipelined list iteration (v1) Created: 12/07/11 @ 14:04:39 \| Last updated: 12/07/11 @ 14:04:41 Credits: Ian Dunlop Stian Soiland-Reyes Attributions: Pipelined list iteration License: Creative Commons Attribution 3.0 Unported License Perform multiple iterations of services in order to show pipelining Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 5 times \| Downloaded: 3 times Tags (3): example \| iteration \| taverna	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Retrieve sequence in EMBL format (v1) Created: 12/07/11 @ 14:01:17 \| Last updated: 12/07/11 @ 14:01:18 Credits: Franck Tanoh Attributions: Retrieve sequence in EMBL format License: Creative Commons Attribution 3.0 Unported License This workflow retrieves a sequence associated with its features in embl format Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 2 times \| Downloaded: 9 times Tags (3): example \| soaplab \| taverna	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Spreadsheet Import Example (v1) Created: 12/07/11 @ 13:57:34 \| Last updated: 12/07/11 @ 13:57:36 Credits: David Withers Attributions: Spreadsheed Data Import Example License: Creative Commons Attribution 3.0 Unported License Example using the SpreadsheetImport service to import data from an Excel spreadsheet. The workflow imports the file spreadsheet file WaterUse.xlsx and generates a graph from the date. The source data is from http://data.gov.uk/ Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 15 times \| Downloaded: 21 times Tags (3): example \| spreadsheet \| taverna	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Fetch Dragon images from BioMoby (v1) Created: 12/07/11 @ 13:52:04 \| Last updated: 12/07/11 @ 13:52:05 Credits: Tomoinn License: Creative Commons Attribution 3.0 Unported License Fetch images and annotations of snapdragons Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 4 times Tags (3): biomoby \| example \| taverna	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Multiple choice quiz (v1) Created: 12/07/11 @ 13:46:40 \| Last updated: 12/07/11 @ 13:46:42 Credits: Alan Williams George Attributions: Multiple choice quiz License: Creative Commons Attribution 3.0 Unported License A fun example workflow showing user-interaction and service looping Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 8 times \| Downloaded: 9 times Tags (4): example \| looping \| quiz \| taverna	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Example workflow for REST and XPath activities (v1) Created: 12/07/11 @ 13:07:58 \| Last updated: 12/07/11 @ 13:07:59 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License This workflow fetches weather forecast for the user-specified location. First of all it uses the provided location name to obtain a WOEID ("Where On Earth ID") of that location, then uses that unique identifier to fetch the weather forecast from Yahoo server. Multiple results may be obtained in case there is no unique translation of the location to a WOEID. REST activity is used to perform HTTP requests and fetch data from remote servers; XPath activity is then used to parse the XML data a... Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 16 times \| Downloaded: 9 times Tags (3): example \| rest \| taverna	View Download (v1)
Taverna 2 Original Uploader Alan Williams	EBI_InterproScan_NewServices (v1) Created: 12/07/11 @ 13:02:49 \| Last updated: 12/07/11 @ 13:02:50 Credits: Alan Williams Katy Wolstencroft Attributions: EBI_InterproScan_NewServices License: Creative Commons Attribution 3.0 Unported License This workflow performs an interproscan at the EBI on sequences provided as input. The output is provided as text, xml or png. This workflow uses the new EBI services, which are asynchronous and require looping over the nested workflow (Status) until the workflow has finished. Many of the EBI services now work in this way, so you can use this workflow as an example of the invocation pattern and looping configuration. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 7 times \| Downloaded: 4 times Tags (3): example \| looping \| taverna	View Download (v1)
Taverna 2 Original Uploader Alan Williams	BiomartAndEMBOSSDisease (v1) Created: 12/07/11 @ 12:54:05 \| Last updated: 12/07/11 @ 12:54:07 Credits: Katy Wolstencroft Attributions: BiomartAndEMBOSSAnalysis License: Creative Commons Attribution 3.0 Unported License This workflow retrieves all genes on human chromosome 22 that are associated with a disease and aligns the upstream regions with mouse and rat homologues. The alignments are plotted and corresponding sequence ids are also returned. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 7 times \| Downloaded: 4 times Tags (4): biomart \| emboss \| example \| taverna	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Dot viewing (v1) Created: 12/05/11 @ 17:25:39 License: Creative Commons Attribution-No Derivative Works 3.0 Unported License No description Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 8 times \| Downloaded: 3 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Population plot in R (v1) Created: 13/12/10 @ 16:28:15 \| Last updated: 13/12/10 @ 16:28:42 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License This workflow fetches the details of the countries in the world and then uses R to produce a histogram of the log of their population Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 52 times \| Downloaded: 31 times Tags (4): example \| r \| rshell \| taverna 2	View Download (v1)
Taverna 2 Original Uploader Alan Williams	R generic example (v1) Created: 29/11/10 @ 13:43:11 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License This workflow shows how string vectors can be used to transfer a complex R object (in this case a matrix) between Rshell services Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 10 times \| Downloaded: 11 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	R Text-file example (v1) Created: 29/11/10 @ 13:18:04 \| Last updated: 29/11/10 @ 13:18:05 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License This workflow contains two services. The file_writer uses a File in R to output a string. The file_reader uses a File in R to input a string, the contents of which are output. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 6 times \| Downloaded: 9 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	R PNG-value example (v2) Created: 29/11/10 @ 12:40:12 \| Last updated: 29/11/10 @ 13:13:11 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License This workflow produces a PNG plot on the figure port. Rating: 0.0 / 5 (0 ratings) \| Versions: 2 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 13 times \| Downloaded: 13 times Tags (4): example \| r \| rshell \| taverna 2	View Download (v2)
Taverna 2 Original Uploader Alan Williams	R integer vector example (v1) Created: 29/11/10 @ 10:15:37 \| Last updated: 29/11/10 @ 10:15:40 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License This workflow takes a list of integer values and returns a list containing 100 modulus the list's elements, and the sum of the input list's elements. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 8 times \| Downloaded: 20 times Tags (4): example \| r \| rshell \| taverna 2	View Download (v1)
Taverna 2 Original Uploader Alan Williams	R integer workflow (v1) Created: 29/11/10 @ 10:03:22 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License This workflow uses an Rshell service to calculate 100 modulus the integer input Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 5 times \| Downloaded: 6 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	R string vector example (v1) Created: 26/11/10 @ 18:06:35 \| Last updated: 26/11/10 @ 18:06:37 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The workflow takes a list of strings and outputs a list contains the lower-cased versions of the input elements, and also a concatenation of the input elements Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 19 times \| Downloaded: 13 times Tags (4): example \| r \| rshell \| taverna 2	View Download (v1)
Taverna 2 Original Uploader Alan Williams	R integer vector example (v1) Created: 26/11/10 @ 17:34:05 \| Last updated: 26/11/10 @ 17:34:08 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License This workflow takes a list of integer values and returns a list containing the square of the input list's elements, and the sum of the input list's elements. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 8 times \| Downloaded: 6 times Tags (4): example \| r \| rshell \| taverna 2	View Download (v1)
Taverna 2 Original Uploader Alan Williams	R numeric vector example (v1) Created: 26/11/10 @ 17:21:45 \| Last updated: 26/11/10 @ 17:21:48 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License This workflow takes a list of numbers and outputs a list containing the squares of the numbers and the sum of the numbers in the list Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 8 times \| Downloaded: 13 times Tags (4): example \| r \| rshell \| taverna 2	View Download (v1)
Taverna 2 Original Uploader Alan Williams	R logical vector workflow (v1) Created: 26/11/10 @ 17:06:00 \| Last updated: 26/11/10 @ 17:06:03 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The workflow returns a list containing the logical inversion of the logical vector input Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 8 times \| Downloaded: 10 times Tags (4): example \| r \| rshell \| taverna 2	View Download (v1)
Taverna 2 Original Uploader Alan Williams	R string workflow (v1) Created: 26/11/10 @ 16:47:02 \| Last updated: 26/11/10 @ 16:47:04 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License This workflow determines the lower case version of the input string. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 12 times \| Downloaded: 13 times Tags (4): example \| r \| rshell \| taverna 2	View Download (v1)
Taverna 2 Original Uploader Alan Williams	R numeric workflow (v1) Created: 26/11/10 @ 16:17:23 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License This workflow uses an Rshell service to calculate the square of a numeric inputThis workflow uses an Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 6 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	R logical workflow (v1) Created: 26/11/10 @ 15:44:15 \| Last updated: 26/11/10 @ 15:44:18 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License Checks what the logical_input is in R. For an logical_input of TRUE - is_false should be FALSE and is_true TRUE FALSE - is_false should be TRUE and is_true FALSE For any other input values, is_false and is_true should both be NA Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 10 times \| Downloaded: 12 times Tags (4): example \| r \| rshell \| taverna 2	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Basic example R workflow (v1) Created: 26/11/10 @ 15:13:46 \| Last updated: 26/11/10 @ 15:13:48 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License This workflow uses an R service running on localhost to calculate sin(0.45) Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 26 times \| Downloaded: 24 times Tags (4): example \| r \| rshell \| taverna2	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Ask - title and message parameters (v1) Created: 29/10/10 @ 16:40:48 License: Creative Commons Attribution 3.0 Unported License The ask service displays a prompt with 'Some title' and the prompt message 'Some message'. If the user presses cancel, then a service failure is generated. If the user presses OK then their input, even if it is empty, is passed to the answer port of the ask service and so to the output of the workflow. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 8 times \| Downloaded: 6 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Ask - just title parameter (v1) Created: 29/10/10 @ 16:40:35 \| Last updated: 29/10/10 @ 16:40:36 License: Creative Commons Attribution 3.0 Unported License The ask service displays a prompt with the title 'Some title' but no prompt message. If the user presses cancel, then a service failure is generated. If the user presses OK then their input, even if it is empty, is passed to the answer port of the ask service and so to the output of the workflow. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 8 times \| Downloaded: 8 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Ask - just message parameter (v1) Created: 29/10/10 @ 16:40:24 License: Creative Commons Attribution 3.0 Unported License The ask service displays a prompt with no title but with the prompt message 'Some message'. If the user presses cancel, then a service failure is generated. If the user presses OK then their input, even if it is empty, is passed to the answer port of the ask service and so to the output of the workflow. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 5 times \| Downloaded: 5 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Ask - no parameters (v1) Created: 29/10/10 @ 16:40:12 License: Creative Commons Attribution 3.0 Unported License The ask service displays a prompt with no title and no prompt message. If the user presses cancel, then a service failure is generated. If the user presses OK then their input, even if it is empty, is passed to the answer port of the ask service and so to the output of the workflow. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 5 times \| Downloaded: 9 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	String list union - yielding empty list (v1) Created: 29/10/10 @ 16:28:18 \| Last updated: 29/10/10 @ 16:28:19 License: Creative Commons Attribution 3.0 Unported License The string list union service takes in two empty lists [] and [] and returns an empty list []. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 8 times \| Downloaded: 10 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	String list union - yielding non-empty list (v1) Created: 29/10/10 @ 16:28:07 License: Creative Commons Attribution 3.0 Unported License The string list union service takes in ['a','b','c'] and ['a','e','c'] and returns a list equivalent to ['a','b','c','e']. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 9 times \| Downloaded: 7 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	String list intersection - yielding empty list (v1) Created: 29/10/10 @ 16:21:18 License: Creative Commons Attribution 3.0 Unported License The string list intersection service takes in ['a','b','c'] and ['x','y','z'] and returns the empty list []. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 5 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	String list intersection - yielding non empty list (v1) Created: 29/10/10 @ 16:21:03 License: Creative Commons Attribution 3.0 Unported License The string list intersection service takes in ['a','b','c'] and ['a','e','c] and returns the list ['a','c']. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 8 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	String list difference - yielding empty list (v1) Created: 29/10/10 @ 16:17:15 License: Creative Commons Attribution 3.0 Unported License The string list difference service takes in ['a','b','c'] and ['a','c','b'] and returns the empty list []. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 5 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	String list difference - yielding non-empty list (v1) Created: 29/10/10 @ 16:16:50 License: Creative Commons Attribution 3.0 Unported License The string list difference service takes in ['a','b','c'] and ['a','e','c'] and returns the list ['b','e']. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 6 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Split string into string list by regular expression - complicated regex (v2) Created: 29/10/10 @ 15:25:14 \| Last updated: 29/10/10 @ 15:32:11 License: Creative Commons Attribution 3.0 Unported License The split string into string list by regular expression takes the string 'boo:and:foo' and using the specified regular expression 'o.n' splits it into the list ['b','d:foo'] Rating:* 0.0 / 5 (0 ratings) \| Versions: 2 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 6 times \| Downloaded: 10 times This Workflow has no tags!	View Download (v2)
Taverna 2 Original Uploader Alan Williams	Split string into string list by regular expression - colon regex (v1) Created: 29/10/10 @ 15:25:04 License: Creative Commons Attribution 3.0 Unported License The split string into string list by regular expression takes the string 'boo:and:foo' and using the specified regular expression ':' splits it into the list ['boo','and','foo'] Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 5 times \| Downloaded: 16 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Split string into string list by regular expression - default regex (v1) Created: 29/10/10 @ 15:24:51 License: Creative Commons Attribution 3.0 Unported License The split string into string list by regular expression takes the string 'a,b,c' and using the default regular expression ',' splits it into the list ['a','b','c'] Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 8 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Pad numeral with leading 0s - too short targetlength (v1) Created: 29/10/10 @ 15:14:17 License: Creative Commons Attribution 3.0 Unported License The pad numeral with leading 0s takes the input '12' and because the specified target length of 1 is too short, yields the output '12'. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 7 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Pad numeral with leading 0s - specified targetlength (v1) Created: 29/10/10 @ 15:14:02 \| Last updated: 29/10/10 @ 15:14:03 License: Creative Commons Attribution 3.0 Unported License The pad numeral with leading 0s takes the input '12' and pads it to the specified target length of 4, yielding the output '0012'. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 6 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Pad numeral with leading 0s - default targetlength (v1) Created: 29/10/10 @ 15:13:52 \| Last updated: 29/10/10 @ 15:13:53 License: Creative Commons Attribution 3.0 Unported License The pad numeral with leading 0s takes the input '12' and pads it to the default target length of 7, yielding the output '0000012'. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 6 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	FIlter list of strings by regex extracting the matches (v1) Created: 29/10/10 @ 14:02:47 License: Creative Commons Attribution 3.0 Unported License The workflow examines the five element list split from the first service. For each element, if it contains an 'a' followed by two characters, then that triple is included in the output. Thus, for the input ['a','b','abcde','cdef','axy'], only 'abcde' and 'axy' contain a match and so ['abc', 'axy'] is output. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 5 times \| Downloaded: 7 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	FIlter list of strings by regex extracting the specified subgroup in the matches (v1) Created: 29/10/10 @ 14:02:28 License: Creative Commons Attribution 3.0 Unported License The workflow examines the five element list split from the first service. For each element, if it contains an 'a' followed by two characters, then the two characters after the 'a' are included in the output. Thus, for the input ['a','b','abcde','cdef','axy'], only 'abcde' and 'axy' contain a match and so ['bc', 'xy'] is output. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 5 times \| Downloaded: 7 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	FIlter list of strings by regex with an unsuitable regular expression (v1) Created: 29/10/10 @ 13:44:28 License: Creative Commons Attribution 3.0 Unported License The workflow filters the five element list split from the first service and returns an empty list as no elements match. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 9 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	FIlter list of strings by regex with a suitable regular expression (v1) Created: 29/10/10 @ 13:44:14 License: Creative Commons Attribution 3.0 Unported License The workflow filters the five element list split from the first service and returns the three elements that match the regular expression. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 5 times \| Downloaded: 22 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Concatenate two strings (v1) Created: 29/10/10 @ 13:37:41 License: Creative Commons Attribution 3.0 Unported License The concatenate two strings service takes the strings 'good' and 'bye' and returns the result 'goodbye'. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 10 times \| Downloaded: 11 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Concatenate two strings - empty strings (v1) Created: 29/10/10 @ 13:36:45 \| Last updated: 29/10/10 @ 13:36:46 License: Creative Commons Attribution 3.0 Unported License The concatenate two strings service takes two empty strings and returns an empty string. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 7 times \| Downloaded: 7 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Byte Array to string - non empty value (v1) Created: 29/10/10 @ 13:26:10 \| Last updated: 29/10/10 @ 13:31:19 License: Creative Commons Attribution 3.0 Unported License The beanshell converts the string 'hello' to a byte array which is then converted back to the string 'hello' by the Byte_Array_to_string service. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 5 times \| Downloaded: 6 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Byte Array to string - empty value (v1) Created: 29/10/10 @ 13:25:51 \| Last updated: 29/10/10 @ 13:27:38 License: Creative Commons Attribution 3.0 Unported License The beanshell converts the empty string '' to a byte array which is then converted back to the empty string '' by the Byte_Array_To_string service. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 6 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Echo_with_occasional_failure (v1) Created: 29/10/10 @ 12:32:38 \| Last updated: 29/10/10 @ 12:33:42 License: Creative Commons Attribution 3.0 Unported License The Sometimes_Fails service mostly echoes the string 'hello' to the out port. Sometimes, it throws a service failure. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 5 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Always fails - two parameters (v1) Created: 29/10/10 @ 12:05:36 \| Last updated: 29/10/10 @ 12:08:47 License: Creative Commons Attribution 3.0 Unported License The always fails service generates a service failure when two parameter values are supplied. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 5 times \| Downloaded: 6 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Always fails - one parameter (v1) Created: 29/10/10 @ 12:05:15 \| Last updated: 29/10/10 @ 12:07:52 License: Creative Commons Attribution 3.0 Unported License The always fails service generates a service failure when one parameter value is supplied. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 5 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Always fails - no parameters (v1) Created: 29/10/10 @ 12:04:47 \| Last updated: 29/10/10 @ 12:06:27 License: Creative Commons Attribution 3.0 Unported License The always fails service generates a service failure when no parameter values are supplied. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 7 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Get web page from URL - url and base (v1) Created: 29/10/10 @ 11:42:15 \| Last updated: 29/10/10 @ 11:42:16 License: Creative Commons Attribution 3.0 Unported License Fetches a web page from http://www.mygrid.org.uk/tools with the base parameter as "http://www.mygrid.org.uk" and the url as "/tools". Note that when viewed, the HTML may not be rendered correctly. However, the HTML may be viewed by rendering the result as plain text. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 8 times \| Downloaded: 8 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Get web page from URL - just url (v1) Created: 29/10/10 @ 11:41:21 License: Creative Commons Attribution 3.0 Unported License Fetches a web page from http://www.mygrid.org.uk/tools using just the url parameter of the service. Note that when viewed, the HTML may not be rendered correctly. However, the HTML may be viewed by rendering the result as plain text. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 7 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Get image URLs from HTML document and output the results (v1) Created: 29/10/10 @ 11:39:00 License: Creative Commons Attribution 3.0 Unported License Retrieve the web page at http://www.mygrid.org.uk, examine it for images and output the images. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 5 times \| Downloaded: 6 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Get image URLs from HTTP document - no images (v1) Created: 29/10/10 @ 10:18:37 \| Last updated: 29/10/10 @ 10:19:21 License: Creative Commons Attribution 3.0 Unported License Retrieve the web page at http://www.mygrid.org.uk/usermanual1.7/user_gettings_started.html and examine it for images. The workflow should return an empty list. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 5 times \| Downloaded: 6 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Get image from URL - url and base specified (v1) Created: 29/10/10 @ 10:15:17 \| Last updated: 29/10/10 @ 10:15:18 License: Creative Commons Attribution 3.0 Unported License Retrieve the image at http://www.mygrid.org.uk/files/2008/09/dragon-workflow.png using both the url and base parameters Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 5 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Get image from URL - only url specified (v1) Created: 29/10/10 @ 10:13:23 License: Creative Commons Attribution 3.0 Unported License Retrieve the image at http://www.mygrid.org.uk/files/2008/09/dragon-workflow.png using just the url parameter Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 7 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Remove duplicate strings (v1) Created: 29/10/10 @ 10:10:37 License: Creative Commons Attribution 3.0 Unported License The remove duplicate strings service takes the list ['a','b','c','b','a','d'], strips out duplicate strings and outputs the result ['a','b','c','d']. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 5 times \| Downloaded: 7 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Remove duplicate strings - empty list (v1) Created: 29/10/10 @ 10:09:24 \| Last updated: 29/10/10 @ 10:09:25 License: Creative Commons Attribution 3.0 Unported License The remove duplicate strings service takes the empty list [] and outputs the result []. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 6 times \| Downloaded: 8 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Merge string list to string - empty list (v1) Created: 28/10/10 @ 17:15:43 License: Creative Commons Attribution 3.0 Unported License The merge string list to string service takes an empty list [] and outputs an empty string ''. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 6 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Merge string list to a string - default separator (v1) Created: 28/10/10 @ 17:14:12 License: Creative Commons Attribution 3.0 Unported License The merge string list to string service takes the list ['a','b','c'] and outputs the string 'a b c'. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 5 times \| Downloaded: 7 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Merge string list to string - colon separator (v1) Created: 28/10/10 @ 17:12:43 License: Creative Commons Attribution 3.0 Unported License The merge string list to string service takes the list ['a','b','c'] and using the separator ':' outputs the string 'a:b:c'. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 8 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Flatten list (v1) Created: 28/10/10 @ 16:51:27 \| Last updated: 28/10/10 @ 16:56:42 License: Creative Commons Attribution 3.0 Unported License The flatten_list service takes the list [['a'], ['b'], ['c'], ['d']] and outputs the list ['a', 'b', 'c', 'd', 'e']. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 6 times \| Downloaded: 6 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Write text file - specified value (v1) Created: 28/10/10 @ 16:46:31 License: Creative Commons Attribution 3.0 Unported License The beanshell creates an empty temporary file. The filepath to the temporary file is then passed to the Write_text_file service which writes 'hello' into the file. 'hello' is also output by the service. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 6 times \| Downloaded: 18 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Write text file - overwriting content (v1) Created: 28/10/10 @ 16:45:04 License: Creative Commons Attribution 3.0 Unported License The beanshell creates an empty temporary file. The filepath to the temporary file is then passed to the Write_text_file A service which writes the string 'hello' into the file. After service A has run, service B writes 'goodbye' into the file. The file is then read by the Read_Text_File service and its content, 'goodbye', output by the workflow. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 7 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Write text file - empty string value (v1) Created: 28/10/10 @ 16:40:28 License: Creative Commons Attribution 3.0 Unported License The beanshell creates an empty temporary file. The filepath to the temporary file is then passed to the Write_text_file service which writes the empty string '' into the file. '' is also output by the service. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 5 times \| Downloaded: 9 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Read text file - several lines (v1) Created: 28/10/10 @ 16:34:56 License: Creative Commons Attribution 3.0 Unported License The beanshell write the string 'hello' four times separated by a new lineto a temporary file. The filepath to the temporary file is then passed to the Read_text_file service which reads the file and outputs the string 'hello hello hello hello'. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 6 times \| Downloaded: 15 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Read text file (v1) Created: 28/10/10 @ 16:33:35 License: Creative Commons Attribution 3.0 Unported License The beanshell write the string 'hello' to a temporary file. The filepath to the temporary file is then passed to the Read_text_file service which reads the file and outputs the string 'hello'. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 8 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Read text file - empty file (v1) Created: 28/10/10 @ 16:32:28 \| Last updated: 28/10/10 @ 16:32:29 License: Creative Commons Attribution 3.0 Unported License The beanshell creates an empty temporary file. The filepath to the temporary file is then passed to the Read_text_file service which reads the file and outputs the empty string ''. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 9 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	List files by regex - single match (v1) Created: 28/10/10 @ 16:29:51 License: Creative Commons Attribution 3.0 Unported License The create_temporary_directory beanshell creates a temporary directory and outputs the path to that directory. The populate_directory beanshell creates several files within the temporary directory. Once the directory has been populated, it is examined by the List_files_by_regex service and the file path to the one file matching 'c.' i.e. starting with 'c' is output. Rating:* 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 6 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	List files by regex - several answers (v1) Created: 28/10/10 @ 15:32:39 License: Creative Commons Attribution 3.0 Unported License The create_temporary_directory beanshell creates a temporary directory and outputs the path to that directory. The populate_directory beanshell creates several files within the temporary directory. Once the directory has been populated, it is examined by the List_files_by_regex service and the file paths matching the regular expression '.i.', i.e. those containing an 'i', are output. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 5 times \| Downloaded: 6 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	List files by regex - no matches (v1) Created: 28/10/10 @ 15:30:54 License: Creative Commons Attribution 3.0 Unported License The create_temporary_directory beanshell creates a temporary directory and outputs the path to that directory. The populate_directory beanshell creates several files within the temporary directory. Once the directory has been populated, it is examined by the List_files_by_regex service. Since no files match the regular expression 'x.' i.e. no files have a name that starts with 'x', an empty list is output. Rating:* 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 5 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	List files by regex - empty directory (v1) Created: 28/10/10 @ 15:29:22 \| Last updated: 28/10/10 @ 15:29:23 License: Creative Commons Attribution 3.0 Unported License The create_temporary_directory beanshell creates a temporary directory and outputs the path to that directory. The empty directory is examined by the List_files_by_regex service. Since there are no files, an empty list is output. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 9 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	List files by extension - single match (v1) Created: 28/10/10 @ 15:24:19 \| Last updated: 28/10/10 @ 15:24:20 License: Creative Commons Attribution 3.0 Unported License The create_temporary_directory beanshell creates a temporary directory and outputs the path to that directory. The populate_directory beanshell creates several files within the temporary directory. Once the directory has been populated, it is examined by the List_files_by_extension service and the file path to the one file ending in ".bin" is output. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 5 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	List files by extension - several matches (v1) Created: 28/10/10 @ 15:21:24 \| Last updated: 28/10/10 @ 15:22:55 License: Creative Commons Attribution 3.0 Unported License The create_temporary_directory beanshell creates a temporary directory and outputs the path to that directory. The populate_directory beanshell creates several files within the temporary directory. Once the directory has been populated, it is examined by the List_files_by_extension service and the file paths to the three files ending in ".png" are output. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 6 times \| Downloaded: 7 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	List files by extension - no matches (v1) Created: 28/10/10 @ 15:18:53 \| Last updated: 28/10/10 @ 15:18:54 License: Creative Commons Attribution 3.0 Unported License The create_temporary_directory beanshell creates a temporary directory and outputs the path to that directory. The populate_directory beanshell creates several files within the temporary directory. Once the directory has been populated, it is examined by the List_files_by_extension service. Since no files end in ".fred", an empty list is output. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 6 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	List files by extension - empty directory (v1) Created: 28/10/10 @ 15:17:35 License: Creative Commons Attribution 3.0 Unported License The create_temporary_directory beanshell creates a temporary directory and outputs the path to that directory. The empty directory is examined by the List_files_by_extension service. Since no files end in ".png", an empty list is output. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 7 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Get Environment Variables as XML (v1) Created: 28/10/10 @ 15:15:24 License: Creative Commons Attribution 3.0 Unported License The Get_Environment_Variables_as_XML service returns an XML file containing a set of property elements each of which contains the name and value of an environment variable.The Get_Environment_Variables_as_XML service returns an XML file containing Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 6 times \| Downloaded: 11 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Execute cmd line app - unix - /bin/ls of temporary directory (v1) Created: 28/10/10 @ 14:53:06 \| Last updated: 28/10/10 @ 14:54:03 License: Creative Commons Attribution 3.0 Unported License Note that this workflow only works on Unix systems. The get_temporary_directory beanshell returns the path to the directory in which temporary files are held. This value is passed to the args port of the execute_cmd_line_app service. The command port of that service has been defaulted to '/bin/ls'. The execute_cmd_line_app service runs the /bin/ls command on the temporary directory. The result is passed to its result port and then to the output port of the workflow. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 6 times \| Downloaded: 8 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Execute cmd line app - unix - /bin/ls -R of temporary directory (v1) Created: 28/10/10 @ 14:50:13 \| Last updated: 28/10/10 @ 14:50:58 License: Creative Commons Attribution 3.0 Unported License Note that this workflow only works on Unix systems. The get_temporary_directory beanshell returns the path to the directory in which temporary files are held. This value is passed to the create_and_populate_list beanshell which creates a list of '-R' and the path. The resultant list is passed to the args port of the Execute_cmd_line_app service. The command port of that service has been defaulted to '/bin/ls'. The execute_cmd_line_app service runs the /bin/ls -R command on the temporary ... Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 5 times \| Downloaded: 14 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Concatenate files - multiple files (v1) Created: 28/10/10 @ 14:44:17 License: Creative Commons Attribution 3.0 Unported License The workflow splits the string 'a,b,c,d,e' into its five elements and saves the individual strings to five temporary files. The file paths to those files are then output by the create_and_populate_temporary_file beanshell. The create_temporary_file beanshell creates a file to which the concatentation can be written. The concatenate_files service concatenates the five files and writes the result to the temporary output file. Because the displayresults port has no value, the results are not... Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 5 times \| Downloaded: 6 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Concatenate files - echo results but no files (v1) Created: 28/10/10 @ 14:42:17 License: Creative Commons Attribution 3.0 Unported License The split_string_into_string_list_by_regular_expresson outputs an empty list since the string to be split is defaulted to ''. As there are no input values, the create_and_populate_temporary_file generates an empty list. The create_temporary_file beanshell creates a file to which the concatentation can be written. The concatenate_files service does not write anything to the temporary output file. Because the displayresults port has been given a default value of 'true', the empty string is ... Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 10 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Concatenate files - echo results and multiple files (v1) Created: 28/10/10 @ 14:39:24 License: Creative Commons Attribution 3.0 Unported License The workflow splits the string 'a,b,c,d,e' into its five elements and saves the individual strings to five temporary files. The file paths to those files are then output by the create_and_populate_temporary_file beanshell. The create_temporary_file beanshell creates a file to which the concatentation can be written. The concatenate_files service concatenates the five files and writes the result to the temporary output file. Because the displayresults port has been given a default value of... Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 7 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Transcribe DNA (v1) Created: 28/10/10 @ 14:28:29 License: Creative Commons Attribution-No Derivative Works 3.0 Unported License The Transcribe DNA service takes the DNA sequence, here defaulted to 'gatcctccat' and outputs the corresponding transcribed RNA sequence, in this example, 'gauccuccau'. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 10 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Reverse complement DNA (v1) Created: 28/10/10 @ 14:26:57 License: Creative Commons Attribution 3.0 Unported License The Reverse Complement DNA service takes the DNA sequence, here defaulted to 'gatcctccat' and outputs the corresponding reverse complement sequence, in this example, 'atggaggatc'. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 6 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Read SwissProt file (v1) Created: 28/10/10 @ 14:24:51 \| Last updated: 28/10/10 @ 14:25:36 License: Creative Commons Attribution 3.0 Unported License The Read_SwissProt_file service reads the file at the swiss_prot_file_url and converts the SwissProt data into Agave format. The result is then sent to the workflow's swiss_prot_data port. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 5 times \| Downloaded: 9 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Read GenBank file (v1) Created: 28/10/10 @ 14:20:12 \| Last updated: 28/10/10 @ 14:20:51 License: Creative Commons Attribution 3.0 Unported License The Read_GenBank_file service reads the file at the genbank_file_url and converts the GenBank data into Agave format. The result is then sent to the workflow's gen_bank_data port. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 8 times \| Downloaded: 6 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Encode byte[] to base64 (v1) Created: 28/10/10 @ 14:18:06 License: Creative Commons Attribution 3.0 Unported License The encode byte[] to base 64 service encodes the bytes representing (in the local character set) 'hello'. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 13 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Decode base64 to byte[] (v1) Created: 28/10/10 @ 14:16:22 License: Creative Commons Attribution 3.0 Unported License The decode base64 to byte[] service decodes the base64 string. The byte array is then converted into the string 'Hello world'. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 7 times \| Downloaded: 14 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Example workflow for REST and XPath activities (v1) Created: 13/09/10 @ 14:27:25 \| Last updated: 13/09/10 @ 14:31:33 Credits: Sergejs Aleksejevs License: Creative Commons Attribution 3.0 Unported License Note that this workflow depends upon the REST and XPath plugins. This workflow fetches weather forecast for the user-specified location. First of all it uses the provided location name to obtain a WOEID ("Where On Earth ID") of that location, then uses that unique identifier to fetch the weather forecast from Yahoo server. Multiple results may be obtained in case there is no unique translation of the location to a WOEID. REST activity is used to perform HTTP requests and fetch d... Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 83 times \| Downloaded: 47 times Tags (4): example \| rest \| weather \| xpath	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Multiple choice quiz (v1) Created: 06/09/10 @ 17:12:15 Credits: George Attributions: Multiple Choice Quiz License: Creative Commons Attribution 3.0 Unported License A fun example workflow showing user-interaction and service looping Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 54 times \| Downloaded: 41 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Spreadsheed Data Import Example (v1) Created: 13/07/10 @ 12:50:54 \| Last updated: 13/07/10 @ 12:50:55 Credits: David Withers License: Creative Commons Attribution 3.0 Unported License Example using the SpreadsheetImport service to import data from an Excel spreadsheet. The workflow imports the file spreadsheet file WaterUse.xlsx and generates a graph from the date. The source data is from http://data.gov.uk/ Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 54 times \| Downloaded: 27 times Tags (3): example \| spreadsheet \| taverna2	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Retrieve sequence in EMBL format (v1) Created: 04/07/10 @ 18:39:07 \| Last updated: 04/07/10 @ 18:39:09 Credits: Franck Tanoh License: Creative Commons Attribution 3.0 Unported License This workflow retrieves a sequence associated with its features in embl format Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 36 times \| Downloaded: 23 times Tags (2): example \| taverna2	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Pipelined list iteration (v1) Created: 04/07/10 @ 18:37:58 \| Last updated: 04/07/10 @ 18:38:00 Credits: Ian Dunlop Stian Soiland-Reyes License: Creative Commons Attribution 3.0 Unported License Perform multiple iterations of services in order to show pipelining Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 66 times \| Downloaded: 22 times Tags (2): example \| taverna2	View Download (v1)
Taverna 2 Original Uploader Alan Williams	GBSeq test (v1) Created: 04/07/10 @ 18:36:58 \| Last updated: 04/07/10 @ 18:37:00 Credits: Franck Tanoh License: Creative Commons Attribution 3.0 Unported License This workflow retrieves nucleotide and protein sequences with the literature and references associated to them given a protein and a nucleotide id. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 21 times \| Downloaded: 13 times Tags (2): example \| taverna2	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Fetch today's xkcd comic (v1) Created: 04/07/10 @ 18:35:59 \| Last updated: 04/07/10 @ 18:36:00 Credits: Tomoinn Stian Soiland-Reyes License: Creative Commons Attribution 3.0 Unported License Use the local java plugins and some filtering operations to fetch the comic strip image from http://xkcd.com/ Based on the FetchDailyDilbert workflow. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 129 times \| Downloaded: 96 times Tags (2): example \| taverna2	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Fetch PDB flatfile from RCSB server (v1) Created: 04/07/10 @ 18:34:57 \| Last updated: 04/07/10 @ 18:34:59 Credits: Tomoinn License: Creative Commons Attribution 3.0 Unported License Given an identifier such as '1crn' fetches the PDB format flatfile from the RCSB Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 67 times \| Downloaded: 26 times Tags (2): example \| taverna2	View Download (v1)
Taverna 2 Original Uploader Alan Williams	EBI_InterProScan for Taverna 2 (v1) Created: 04/07/10 @ 18:33:54 \| Last updated: 04/07/10 @ 18:33:55 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License Perform an InterProScan analysis of a protein sequence using the EBI’s WSInterProScan service (see http://www.ebi.ac.uk/Tools/webservices/services/interproscan). The input sequence to use and the user e-mail address are inputs, the other parameters for the analysis (see Job_params) are allowed to default. InterProScan searches a protein sequence against the protein family and domain signature databases integrated into InterPro (see http://www.ebi.ac.uk/interpro/). A set of matches to the sig... Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 19 times \| Downloaded: 11 times Tags (2): example \| taverna2	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Demonstration of configurable iteration (v1) Created: 04/07/10 @ 18:32:58 \| Last updated: 04/07/10 @ 18:33:00 Credits: Tomoinn License: Creative Commons Attribution 3.0 Unported License This workflow shows the use of the iteration strategy editor to ensure that only relevant combinations of inputs are used during an implicit iteration. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 42 times \| Downloaded: 23 times Tags (2): example \| taverna2	View Download (v1)
Taverna 2 Original Uploader Alan Williams	BioMoby tutorial workflow (v1) Created: 04/07/10 @ 18:31:57 \| Last updated: 04/07/10 @ 18:31:59 Credits: EdwardKawas License: Creative Commons Attribution 3.0 Unported License A workflow from part of the BioMoby tutorial Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 37 times \| Downloaded: 25 times Tags (2): example \| taverna2	View Download (v1)
Taverna 2 Original Uploader Alan Williams	BiomartAndEMBOSSAnalysis (v1) Created: 04/07/10 @ 18:30:58 \| Last updated: 04/07/10 @ 18:31:00 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License Using Biomart and EMBOSS soaplab services, This workflow retrieves a number of sequences from 3 species: mouse, human, rat; align them, and returns a plot of the alignment result. Corresponding sequence ids are also returned. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 24 times \| Downloaded: 11 times Tags (2): example \| taverna2	View Download (v1)
Taverna 2 Original Uploader Alan Williams	A workflow version of the EMBOSS tutorial (v1) Created: 04/07/10 @ 18:29:33 \| Last updated: 04/07/10 @ 18:29:34 Credits: Tomoinn License: Creative Commons Attribution 3.0 Unported License Designed to show the use of EMBOSS based Soaplab services from Taverna, this workflow has no inputs as all initial values are specified as string constants. A sequence set is fetched using the seqret tool, then simultaneously scanned for predicted transmembrane regions and subjected to a multiple alignment using emma. This alignment is then plotted to a set of PNG images and also used to build a profile using the prophecy and prophet tools. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 51 times \| Downloaded: 15 times Tags (2): example \| taverna2	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Fetch Dragon images from BioMoby (v2) Created: 15/12/09 @ 22:33:09 \| Last updated: 14/07/10 @ 16:41:23 Credits: EdwardKawas License: Creative Commons Attribution 3.0 Unported License Fetch images and annotations of snapdragons Rating: 0.0 / 5 (0 ratings) \| Versions: 2 \| Reviews: 0 \| Comments: 1 \| Citations: 0 Viewed: 121 times \| Downloaded: 44 times This Workflow has no tags!	View Download (v2)
Taverna 2 Original Uploader Alan Williams	Retrieve sequence in EMBL format (v1) Created: 15/12/09 @ 22:17:56 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License This workflow retrieves a sequence associated with its features in embl format Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 97 times \| Downloaded: 40 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Pipelined list iteration (v1) Created: 15/12/09 @ 22:17:11 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License Perform multiple iterations of services in order to show pipelining Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 74 times \| Downloaded: 17 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	GBSeq test (v1) Created: 15/12/09 @ 22:16:23 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License This workflow retrieves nucleotide and protein sequences with the literature and references associated to them given a protein and a nucleotide id. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 43 times \| Downloaded: 17 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Fetch today's xkcd comic (v1) Created: 15/12/09 @ 22:15:21 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License Use the local java plugins and some filtering operations to fetch the comic strip image from http://xkcd.com/ Based on the FetchDailyDilbert workflow. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 88 times \| Downloaded: 52 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Fetch PDB flatfile from RCSB server (v1) Created: 15/12/09 @ 22:14:39 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License Given an identifier such as '1crn' fetches the PDB format flatfile from the RCSB Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 31 times \| Downloaded: 16 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	EBI_InterProScan_T2 (v1) Created: 15/12/09 @ 22:13:44 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License Perform an InterProScan analysis of a protein sequence using the EBI’s WSInterProScan service (see http://www.ebi.ac.uk/Tools/webservices/services/interproscan). The input sequence to use and the user e-mail address are inputs, the other parameters for the analysis (see Job_params) are allowed to default. InterProScan searches a protein sequence against the protein family and domain signature databases integrated into InterPro (see http://www.ebi.ac.uk/interpro/). A set of matches to the sig... Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 37 times \| Downloaded: 16 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Demonstration of configurable iteration (v1) Created: 15/12/09 @ 22:12:50 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License This workflow shows the use of the iteration strategy editor to ensure that only relevant combinations of inputs are used during an implicit iteration. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 43 times \| Downloaded: 18 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	BiomartAndEMBOSSAnalysis (v1) Created: 15/12/09 @ 22:12:00 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License Using Biomart and EMBOSS soaplab services, This workflow retrieves a number of sequences from 3 species: mouse, human, rat; align them, and returns a plot of the alignment result. Corresponding sequence ids are also returned. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 58 times \| Downloaded: 29 times This Workflow has no tags!	View Download (v1)
Taverna 2 Original Uploader Alan Williams	A workflow version of the EMBOSS tutorial (v1) Created: 15/12/09 @ 22:10:36 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License Designed to show the use of EMBOSS based Soaplab services from Taverna, this workflow has no inputs as all initial values are specified as string constants. A sequence set is fetched using the seqret tool, then simultaneously scanned for predicted transmembrane regions and subjected to a multiple alignment using emma. This alignment is then plotted to a set of PNG images and also used to build a profile using the prophecy and prophet tools. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 60 times \| Downloaded: 32 times Tags (1): example	View Download (v1)
Taverna 1 Original Uploader Alan Williams	BiomartAndEMBOSSAnalysis (v4) Created: 15/09/09 @ 15:11:11 License: Creative Commons Attribution 3.0 Unported License Using Biomart and EMBOSS soaplab services, This workflow retrieves a number of sequences from 3 species: mouse, human, rat; align them, and returns a plot of the alignment result. Corresponding sequence ids are also returned. Rating: 0.0 / 5 (0 ratings) \| Versions: 4 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 1080 times \| Downloaded: 373 times Tags (6): bioinformatics \| biomart \| emboss \| example \| mygrid \| taverna	View Download (v4)
Taverna 1 Original Uploader Alan Williams	Retrieve sequence in EMBL format (v3) Created: 17/06/09 @ 16:51:32 Credits: Franck Tanoh Tomoinn Stuart Owen License: Creative Commons Attribution 3.0 Unported License This workflow retrieves a sequence associated with its features in embl format Rating: 0.0 / 5 (0 ratings) \| Versions: 3 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 300 times \| Downloaded: 98 times Tags (8): bioinformatics \| example \| mygrid \| rendering \| retrieval \| sequence \| soaplab \| taverna	View Download (v3)
Taverna 1 Original Uploader Alan Williams	Extract elements from a list - extraction of nested lists (v1) Created: 29/09/08 @ 13:28:49 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The extract_elements_from_a_list is passed the list [['a','b','c', 'd'], ['e','f','g','h'],['i','j','k','l'],['m','n','o','p']] with fromIndex of 1 and toIndex of 3 and depth 2, will output the list [['e','f','g','h'],['i','j','k','l']] as it is the outermost list i.e. that with depth 2 that is considered. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 47 times \| Downloaded: 22 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Extract elements from a list - extraction in nested lists (v1) Created: 29/09/08 @ 13:28:23 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The extract_elements_from_a_list is passed the list [['a','b','c', 'd'], ['e','f','g','h'],['i','j','k','l'],['m','n','o','p']] with fromIndex of 1 and toIndex of 3 and the default depth of 1, will output the list [['b','c'], ['f','g'],['j','k'],['n','o'']] as it is the list with depth 1 e.g. ['e','f','g','h'] that are considered. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 28 times \| Downloaded: 20 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Extract elements from a list - single element extraction (v1) Created: 29/09/08 @ 13:27:51 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The extract_elements_from_a_list is passed the list ['a','b','c','d','e']. The fromIndex is 2 and the toIndex is 3, so the service outputs the single element list ['c']. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 38 times \| Downloaded: 27 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Extract elements from a list - full extraction (v1) Created: 29/09/08 @ 13:27:21 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The extract_elements_from_a_list is passed the list ['a','b','c','d','e']. The fromIndex is 0 and the toIndex is 5, so the service outputs an identical list. Rating: 5.0 / 5 (1 rating) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 62 times \| Downloaded: 36 times Tags (5): example \| examples \| loacal worker \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Flatten list - three depth (v2) Created: 29/09/08 @ 11:47:05 \| Last updated: 30/09/08 @ 14:38:09 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The flatten_list service takes the list [[['a']], [['b']], [['c']], [['d']],[['e']]] and, using a flatten depth of 3, outputs the list ['a', 'b', 'c', 'd','e']. Rating: 0.0 / 5 (0 ratings) \| Versions: 2 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 41 times \| Downloaded: 31 times Tags (3): example \| localworker \| mygrid	View Download (v2)
Taverna 1 Original Uploader Alan Williams	Flatten list - two depth (v1) Created: 29/09/08 @ 11:46:16 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The flatten_list service takes the list [[['a']], [['b']], [['c']], [['d']]] and, using the default flatten depth of 2, outputs the list [['a'], ['b'], ['c'], ['d'], ['e']]. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 24 times \| Downloaded: 22 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Echo_with_occasional_failure-1 (v1) Created: 29/09/08 @ 10:52:54 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The echo_with_occasional_failure service mostly echoes the string 'hello' to the out port. Sometimes, it throws a service failure. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 22 times \| Downloaded: 17 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Write text file - overwriting content (v1) Created: 27/09/08 @ 17:41:23 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The beanshell creates an empty temporary file. The filepath to the temporary file is then passed to the Write_text_file A service which writes the string 'hello' into the file. After service A has run, service B writes 'goodbye' into the file. The file is then read by the Read_Text_File service and its content, 'goodbye', output by the workflow. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 41 times \| Downloaded: 29 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Write text file - empty string value (v1) Created: 27/09/08 @ 17:40:48 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The beanshell creates an empty temporary file. The filepath to the temporary file is then passed to the Write_text_file service which writes the empty string '' into the file. '' is also output by the service. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 19 times \| Downloaded: 19 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Write text file - specified value (v1) Created: 27/09/08 @ 17:40:07 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The beanshell creates an empty temporary file. The filepath to the temporary file is then passed to the Write_text_file service which writes 'hello' into the file. 'hello' is also output by the service. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 27 times \| Downloaded: 25 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Warn - title and message parameters (v1) Created: 27/09/08 @ 17:38:47 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The warn service displays a warning dialog with 'Some title' and message 'Some message'. When the user presses OK the string 'answer' is passed to the answer port of the warn service and so to the output of the workflow. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 17 times \| Downloaded: 18 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Warn - message parameter (v1) Created: 27/09/08 @ 17:38:20 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The warn service displays a warning dialog with no title but message 'Some message'. When the user presses OK the string 'answer' is passed to the answer port of the warn service and so to the output of the workflow. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 14 times \| Downloaded: 18 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Warn - title parameter (v1) Created: 27/09/08 @ 17:37:54 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The warn service displays a warning dialog with 'Some title' but no message. When the user presses OK the string 'answer' is passed to the answer port of the warn service and so to the output of the workflow. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 15 times \| Downloaded: 18 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Warn - no parameters (v1) Created: 27/09/08 @ 17:37:28 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The warn service displays a prompt with no title or message. When the user presses OK the string 'answer' is passed to the answer port of the warn service and so to the output of the workflow. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 14 times \| Downloaded: 18 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Transform XML - output file by extension (v1) Created: 27/09/08 @ 17:36:43 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The get_xml_file_from_web service downloads an example xml from myExperiment. The content of that file is then saved to a temporary file by create_and_populate_xml_file. The path to the temporary file is passed to the inFileURL port of Transform_XML. The get_xslt_file_from_web service downloads an example xslt file from myExperiment. The content of that file is then saved to a temporary file by create_and_populate_xslt_file. The path to the temporary file is passed to the xslFileURL port... Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 34 times \| Downloaded: 22 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Transform XML - explicit output file (v1) Created: 27/09/08 @ 17:36:13 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The get_xml_file_from_web service downloads an example xml from myExperiment. The content of that file is then saved to a temporary file by create_and_populate_xml_file. The path to the temporary file is passed to the inFileURL port of Transform_XML. The get_xslt_file_from_web service downloads an example xslt file from myExperiment. The content of that file is then saved to a temporary file by create_and_populate_xslt_file. The path to the temporary file is passed to the xslFileURL port... Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 46 times \| Downloaded: 35 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Transform XML - no output file (v1) Created: 27/09/08 @ 17:35:33 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The get_xml_file_from_web service downloads an example xml from myExperiment. The content of that file is then saved to a temporary file by create_and_populate_xml_file. The path to the temporary file is passed to the inFileURL port of Transform_XML. The get_xslt_file_from_web service downloads an example xslt file from myExperiment. The content of that file is then saved to a temporary file by create_and_populate_xslt_file. The path to the temporary file is passed to the xslFileURL port... Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 39 times \| Downloaded: 27 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Transcribe DNA (v1) Created: 27/09/08 @ 17:34:40 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The Transcribe DNA service takes the DNA sequence, here defaulted to 'gatcctccat' and outputs the corresponding transcribed RNA sequence, in this example, 'gauccuccau'. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 31 times \| Downloaded: 21 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Test always fails - two parameters (v1) Created: 27/09/08 @ 17:34:09 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The test always fails service generates a service failure when two parameter values are supplied. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 14 times \| Downloaded: 23 times Tags (4): example \| expected-to-fail \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Test always fails - one parameter (v1) Created: 27/09/08 @ 17:33:33 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The test always fails service generates a service failure when one parameter value is supplied. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 14 times \| Downloaded: 20 times Tags (4): example \| expected-to-fail \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Test always fails - no parameters (v1) Created: 27/09/08 @ 17:32:53 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The test always fails service generates a service failure when no parameter values are supplied. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 16 times \| Downloaded: 21 times Tags (4): example \| expected-to-fail \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Tell - title and message parameters (v1) Created: 27/09/08 @ 17:31:37 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The tell service displays an informative dialog with no title but with message 'Some message'. When the user presses OK the string 'answer' is passed to the answer port of the tell service and so to the output of the workflow. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 20 times \| Downloaded: 18 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Tell - message parameter (v1) Created: 27/09/08 @ 17:30:42 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The tell service displays an informative dialog with no title but with message 'Some message'. When the user presses OK the string 'answer' is passed to the answer port of the tell service and so to the output of the workflow. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 17 times \| Downloaded: 18 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Tell - title parameter (v1) Created: 27/09/08 @ 17:30:13 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The tell service displays an informative dialog with 'Some title' but no message. When the user presses OK the string 'answer' is passed to the answer port of the tell service and so to the output of the workflow. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 15 times \| Downloaded: 19 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Tell - no parameters (v1) Created: 27/09/08 @ 17:29:45 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The tell service displays an informative dialog with no title or message. When the user presses OK the string 'answer' is passed to the answer port of the tell service and so to the output of the workflow. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 14 times \| Downloaded: 17 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	String list union - yielding empty list (v1) Created: 27/09/08 @ 17:29:15 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The string list union service takes in two empty lists [] and [] and returns an empty list []. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 17 times \| Downloaded: 19 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	String list union - yielding non-empty list (v1) Created: 27/09/08 @ 17:28:46 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The string list union service takes in ['a','b','c'] and ['a','e','c'] and returns a list equivalent to ['a','b','c','e']. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 20 times \| Downloaded: 18 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	String list intersection - yielding empty list (v1) Created: 27/09/08 @ 17:28:04 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The string list intersection service takes in ['a','b','c'] and ['x','y','z'] and returns the empty list []. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 15 times \| Downloaded: 18 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	String list intersection - yielding non empty list (v1) Created: 27/09/08 @ 17:27:21 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The string list intersection service takes in ['a','b','c'] and ['a','e','c] and returns the list ['a','c']. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 16 times \| Downloaded: 18 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	String list difference - yielding empty list (v1) Created: 27/09/08 @ 17:26:37 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The string list difference service takes in ['a','b','c'] and ['a','c','b'] and returns the empty list []. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 18 times \| Downloaded: 17 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	String list difference - yielding non-empty list (v1) Created: 27/09/08 @ 17:25:57 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The string list difference service takes in ['a','b','c'] and ['a','e','c'] and returns the list ['b','e']. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 16 times \| Downloaded: 20 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Split string into string list by regular expression - character regex (v1) Created: 27/09/08 @ 17:25:20 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The split string into string list by regular expression takes the string 'boo:and:foo' and using the specified regular expression 'o' splits it into the list ['b','',':and:f'] Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 17 times \| Downloaded: 29 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Split string into string list by regular expression - colon regex (v1) Created: 27/09/08 @ 17:24:44 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The split string into string list by regular expression takes the string 'boo:and:foo' and using the specified regular expression ':' splits it into the list ['boo','and','foo'] Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 22 times \| Downloaded: 24 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Split string into string list by regular expression - default regex (v1) Created: 27/09/08 @ 17:24:13 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The split string into string list by regular expression takes the string 'a,b,c' and using the default regular expression ',' splits it into the list ['a','b','c'] Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 20 times \| Downloaded: 21 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Select - single element list (v1) Created: 27/09/08 @ 17:23:38 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The split_string_into_string_list_by_regular_expression parses the string 'a' and outputs the list ['a']. The select service displays a dialog with 'Some title' and 'Some message'. The user is only able to select the value 'a'. When the user presses OK 'a' is passed to the answer port of the select service and so to the output of the workflow. If the user clicks Cancel then a service failure is generated. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 18 times \| Downloaded: 20 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Select - title and message parameters (v1) Created: 27/09/08 @ 17:23:04 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The split_string_into_string_list_by_regular_expression parses the string 'a,b,c,d,e' and outputs the list ['a','b','c','d','e']. The select service displays a dialog with ''Some title' and 'Some message'. The user is able to select from the values ['a','b','c','d',e']. When the user presses OK the value the user selected is passed to the answer port of the select service and so to the output of the workflow. If the user clicks Cancel then a service failure is generated. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 15 times \| Downloaded: 18 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Select - message parameter (v1) Created: 27/09/08 @ 17:22:32 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The split_string_into_string_list_by_regular_expression parses the string 'a,b,c,d,e' and outputs the list ['a','b','c','d','e']. The select service displays a dialog with no title but with 'Some message'. The user is able to select from the values ['a','b','c','d',e']. When the user presses OK the value the user selected is passed to the answer port of the select service and so to the output of the workflow. If the user clicks Cancel then a service failure is generated. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 16 times \| Downloaded: 18 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Select - title parameter (v1) Created: 27/09/08 @ 17:22:04 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The split_string_into_string_list_by_regular_expression parses the string 'a,b,c,d,e' and outputs the list ['a','b','c','d','e']. The select service displays a dialog with 'Some title' but no message. The user is able to select from the values ['a','b','c','d',e']. When the user presses OK the value the user selected is passed to the answer port of the select service and so to the output of the workflow. If the user clicks Cancel then a service failure is generated. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 18 times \| Downloaded: 18 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Select - no title or message parameters (v1) Created: 27/09/08 @ 17:21:37 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The split_string_into_string_list_by_regular_expression parses the string 'a,b,c,d,e' and outputs the list ['a','b','c','d','e']. The select service displays a dialog with no title or message. The user is able to select from the values ['a','b','c','d',e']. When the user presses OK the value the user selected is passed to the answer port of the select service and so to the output of the workflow. If the user clicks Cancel then a service failure is generated. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 18 times \| Downloaded: 18 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Reverse complement DNA (v1) Created: 27/09/08 @ 17:21:03 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The Reverse Complement DNA service takes the DNA sequence, here defaulted to 'gatcctccat' and outputs the corresponding reverse complement sequence, in this example, 'atggaggatc'. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 27 times \| Downloaded: 30 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Remove duplicate strings - empty list (v1) Created: 27/09/08 @ 17:20:32 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The remove duplicate strings service takes the empty list [] and outputs the result []. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 17 times \| Downloaded: 22 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Remove duplicate strings (v1) Created: 27/09/08 @ 17:19:50 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The remove duplicate strings service takes the list ['a','b','c','b','a','d'], strips out duplicate strings and outputs the result ['a','b','c','d']. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 18 times \| Downloaded: 23 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Read text file - empty file (v1) Created: 27/09/08 @ 17:19:17 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The beanshell creates an empty temporary file. The filepath to the temporary file is then passed to the Read_text_file service which reads the file and outputs the empty string ''. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 21 times \| Downloaded: 19 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Read text file - several lines (v1) Created: 27/09/08 @ 17:18:46 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The beanshell write the string 'hello' four times separated by a new lineto a temporary file. The filepath to the temporary file is then passed to the Read_text_file service which reads the file and outputs the string 'hello hello hello hello'. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 26 times \| Downloaded: 24 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Read text file (v1) Created: 27/09/08 @ 17:18:07 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The beanshell write the string 'hello' to a temporary file. The filepath to the temporary file is then passed to the Read_text_file service which reads the file and outputs the string 'hello'. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 25 times \| Downloaded: 28 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Read SwissProt file (v1) Created: 27/09/08 @ 17:17:24 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The Get_web_page_from_URL downloads a file from myExperiment that contains SwissProt data. That data is then saved to a temporary file generated by the create_and_populate_temporary_file beanshell. The path to the temporary file is then passed to the Read_SwissProt_file service. That service reads the file and converts the SwissProt data into Agave format. The result is then sent to the workflow's out port. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 25 times \| Downloaded: 21 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Read GenBank file (v1) Created: 27/09/08 @ 17:16:45 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The Get_web_page_from_URL downloads a file from myExperiment that contains GenBank data. That data is then saved to a temporary file generated by the create_and_populate_temporary_file beanshell. The path to the temporary file is then passed to the Read_GenBank_file service. That service reads the file and converts the GenBank data into Agave format. The result is then sent to the workflow's out port. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 40 times \| Downloaded: 32 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Pad numeral with leading 0s - too short targetlength (v1) Created: 27/09/08 @ 17:16:08 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The pad numeral with leading 0s takes the input '12' and because the specified target length of 1 is too short, yields the output '12'. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 15 times \| Downloaded: 17 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Pad numeral with leading 0s - specified targetlength (v1) Created: 27/09/08 @ 17:15:38 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The pad numeral with leading 0s takes the input '12' and pads it to the specified target length of 4, yielding the output '0012'. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 15 times \| Downloaded: 18 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Pad numeral with leading 0s - default targetlength (v1) Created: 27/09/08 @ 17:15:02 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The pad numeral with leading 0s takes the input '12' and pads it to the default target length of 7, yielding the output '0000012'. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 15 times \| Downloaded: 18 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Merge string list to string - empty list (v1) Created: 27/09/08 @ 17:14:32 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The merge string list to string service takes an empty list [] and outputs an empty string ''. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 20 times \| Downloaded: 21 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Merge string list to string - colon separator (v1) Created: 27/09/08 @ 17:13:59 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The merge string list to string service takes the list ['a','b','c'] and using the separator ':' outputs the string 'a:b:c'. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 21 times \| Downloaded: 24 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Merge string list to string - default separator (v1) Created: 27/09/08 @ 17:13:27 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The merge string list to string service takes the list ['a','b','c'] and outputs the string 'a b c'. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 19 times \| Downloaded: 20 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	List files by regex - empty directory (v1) Created: 27/09/08 @ 17:12:38 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The create_temporary_directory beanshell creates a temporary directory and outputs the path to that directory. The empty directory is examined by the List_files_by_regex service. Since there are no files, an empty list is output. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 15 times \| Downloaded: 19 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	List files by regex - no answer (v1) Created: 27/09/08 @ 17:12:08 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The create_temporary_directory beanshell creates a temporary directory and outputs the path to that directory. The populate_directory beanshell creates several files within the temporary directory. Once the directory has been populated, it is examined by the List_files_by_regex service. Since no files match the regular expression 'x.' i.e. no files have a name that starts with 'x', an empty list is output. Rating:* 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 18 times \| Downloaded: 21 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	List files by regex - single answer (v1) Created: 27/09/08 @ 17:11:34 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The create_temporary_directory beanshell creates a temporary directory and outputs the path to that directory. The populate_directory beanshell creates several files within the temporary directory. Once the directory has been populated, it is examined by the List_files_by_regex service and the file path to the one file matching 'c.' i.e. starting with 'c' is output. Rating:* 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 18 times \| Downloaded: 17 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	List files by regex - several answers (v1) Created: 27/09/08 @ 17:11:01 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The create_temporary_directory beanshell creates a temporary directory and outputs the path to that directory. The populate_directory beanshell creates several files within the temporary directory. Once the directory has been populated, it is examined by the List_files_by_regex service and the file paths matching the regular expression '.i.', i.e. those containing an 'i', are output. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 18 times \| Downloaded: 20 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	List files by extension - empty directory (v1) Created: 27/09/08 @ 17:09:50 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The create_temporary_directory beanshell creates a temporary directory and outputs the path to that directory. The empty directory is examined by the List_files_by_extension service. Since no files end in ".png", an empty list is output. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 14 times \| Downloaded: 18 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	List files by extension - no answer (v1) Created: 27/09/08 @ 17:09:11 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The create_temporary_directory beanshell creates a temporary directory and outputs the path to that directory. The populate_directory beanshell creates several files within the temporary directory. Once the directory has been populated, it is examined by the List_files_by_extension service. Since no files end in ".fred", an empty list is output. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 15 times \| Downloaded: 19 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	List files by extension - single answer (v1) Created: 27/09/08 @ 17:08:34 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The create_temporary_directory beanshell creates a temporary directory and outputs the path to that directory. The populate_directory beanshell creates several files within the temporary directory. Once the directory has been populated, it is examined by the List_files_by_extension service and the file path to the one file ending in ".bin" is output. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 18 times \| Downloaded: 19 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	List files by extension - several answers (v1) Created: 27/09/08 @ 17:07:44 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The create_temporary_directory beanshell creates a temporary directory and outputs the path to that directory. The populate_directory beanshell creates several files within the temporary directory. Once the directory has been populated, it is examined by the List_files_by_extension service and the file paths to the three files ending in ".png" are output. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 26 times \| Downloaded: 21 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Get web page from URL - url and base (v1) Created: 27/09/08 @ 17:07:08 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License Fetches a web page from http://www.mygrid.org.uk/tools with the base parameter as "http://www.mygrid.org.uk" and the url as "/tools". Note that when viewed, the HTML may not be rendered correctly. However, the HTML may be viewed by rendering the result as plain text. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 27 times \| Downloaded: 23 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Get web page from URL - just url (v1) Created: 27/09/08 @ 17:06:26 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License Fetches a web page from http://www.mygrid.org.uk/tools using just the url parameter of the service. Note that when viewed, the HTML may not be rendered correctly. However, the HTML may be viewed by rendering the result as plain text. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 21 times \| Downloaded: 24 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Get image URLs from HTML document and output the results (v1) Created: 27/09/08 @ 17:05:30 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License Retrieve the web page at http://www.mygrid.org.uk, examine it for images and output the images. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 30 times \| Downloaded: 29 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Get image URLs from HTTP document (v1) Created: 27/09/08 @ 17:03:55 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License Retrieve the web page at http://www.mygrid.org.uk/usermanual1.7/user_gettings_started.html and examine it for images. The workflow should return an empty list. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 17 times \| Downloaded: 24 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Get image from URL - url and base specified (v1) Created: 27/09/08 @ 17:03:20 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License Retrieve the image at http://www.mygrid.org.uk/files/2008/09/dragon-workflow.png using both the url and base parameters Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 17 times \| Downloaded: 18 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Get image from URL - only url specified (v1) Created: 27/09/08 @ 17:02:41 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License Retrieve the image at http://www.mygrid.org.uk/files/2008/09/dragon-workflow.png using just the url parameter Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 25 times \| Downloaded: 34 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	FIlter list of strings by regex extracting the specified group in the matches (v1) Created: 27/09/08 @ 17:01:08 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The workflow examines the five element list split from the first service. For each element, if it contains an 'a' followed by two characters, the second character after the 'a' is included in the output. Thus, for the input ['a','b','abcde','cdef','axy'], only 'abcde' and 'axy' contain a match and so ['c', 'y'] is output. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 17 times \| Downloaded: 23 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	FIlter list of strings by regex extracting the specified group in the matches (v1) Created: 27/09/08 @ 17:00:19 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The workflow examines the five element list split from the first service. For each element, if it contains an 'a' followed by two characters, then the two characters after the 'a' are included in the output. Thus, for the input ['a','b','abcde','cdef','axy'], only 'abcde' and 'axy' contain a match and so ['bc', 'xy'] is output. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 17 times \| Downloaded: 23 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	FIlter list of strings by regex extracting the specified group in the matches (v1) Created: 27/09/08 @ 16:59:41 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The workflow examines the five element list split from the first service. For each element, if it contains an 'a' followed by two characters, then that triple is included in the output. Thus, for the input ['a','b','abcde','cdef','axy'], only 'abcde' and 'axy' contain a match and so ['abc', 'axy'] is output. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 24 times \| Downloaded: 21 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	FIlter list of strings by regex with an unsuitable regular expression (v1) Created: 27/09/08 @ 16:59:01 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The workflow filters the five element list split from the first service and returns an empty list as no elements match. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 18 times \| Downloaded: 18 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	FIlter list of strings by regex with a suitable regular expression (v1) Created: 27/09/08 @ 16:58:25 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The workflow filters the five element list split from the first service and returns the three elements that match the regular expression. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 27 times \| Downloaded: 27 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Fail if true - non true value (v1) Created: 27/09/08 @ 16:57:48 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The fail if true service executes without an exception if given a value that is not true e.g. 'fred'. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 15 times \| Downloaded: 18 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Fail if true - false value (v1) Created: 27/09/08 @ 16:57:09 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The fail if true service executes without an exception if given the value 'false'. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 15 times \| Downloaded: 19 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Fail if true - true value (v1) Created: 27/09/08 @ 16:56:32 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The fail if true service throws an exception when passed the value true. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 17 times \| Downloaded: 20 times Tags (4): example \| expected-to-fail \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Fail if false - non false value (v1) Created: 27/09/08 @ 16:55:35 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The fail if true service executes without an exception if given a non-false value such as 'fred'. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 14 times \| Downloaded: 19 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Fail if false - true value (v1) Created: 27/09/08 @ 16:54:53 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The fail if true service executes without an exception if given the value 'true'. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 16 times \| Downloaded: 20 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Fail if false - false value (v1) Created: 27/09/08 @ 16:54:07 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The fail if true service throws an exception if given the value 'false'. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 24 times \| Downloaded: 23 times Tags (4): example \| expected-to-fail \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Execute cmd line app - unix - /bin/ls -R of temporary directory (v1) Created: 27/09/08 @ 16:52:59 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License Note that this workflow only works on Unix systems. The get_temporary_directory beanshell returns the path to the directory in which temporary files are held. This value is passed to the create_and_populate_list beanshell which creates a list of '-R' and the path. The resultant list is passed to the args port of the Execute_cmd_line_app service. The command port of that service has been defaulted to '/bin/ls'. The execute_cmd_line_app service runs the /bin/ls -R command on the temporary ... Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 37 times \| Downloaded: 26 times Tags (4): example \| localworker \| mygrid \| unix-only	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Execute cmd line app - unix - /bin/ls of temporary directory (v1) Created: 27/09/08 @ 16:52:16 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License Note that this workflow only works on Unix systems. The get_temporary_directory beanshell returns the path to the directory in which temporary files are held. This value is passed to the args port of the execute_cmd_line_app service. The command port of that service has been defaulted to '/bin/ls'. The execute_cmd_line_app service runs the /bin/ls command on the temporary directory. The result is passed to its result port and then to the out port of the workflow. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 36 times \| Downloaded: 40 times Tags (4): example \| localworker \| mygrid \| unix-only	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Encode byte[] to base64 (v1) Created: 27/09/08 @ 16:51:08 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The encode byte[] to base 64 service encodes the bytes representing (in the local character set) 'hello'. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 31 times \| Downloaded: 32 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Decode base64 to byte[] (v1) Created: 27/09/08 @ 16:50:22 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The decode base64 to byte[] service decodes the base64 string. The byte array is then converted into the string 'Hello world'. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 28 times \| Downloaded: 49 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Create lots of strings (v1) Created: 27/09/08 @ 16:46:38 \| Last updated: 27/09/08 @ 16:48:00 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The create lots of strings service returns a list containing a large number of strings. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 22 times \| Downloaded: 23 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Concatenate two strings - empty strings (v1) Created: 27/09/08 @ 16:45:57 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The concatenate two strings service takes two empty strings and returns an empty string. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 19 times \| Downloaded: 21 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Concatenate two strings (v1) Created: 27/09/08 @ 16:45:08 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The concatenate two strings service takes the strings 'good' and 'bye' and returns the result 'goodbye'. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 24 times \| Downloaded: 24 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Concatenate files - multiple files (v1) Created: 27/09/08 @ 16:43:43 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The workflow splits the string 'a,b,c,d,e' into its five elements and saves the individual strings to five temporary files. The file paths to those files are then output by the create_and_populate_temporary_file beanshell. The create_temporary_file beanshell creates a file to which the concatentation can be written. The concatenate_files service concatenates the five files and writes the result to the temporary output file. Because the displayresults port has no value, the results are not... Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 33 times \| Downloaded: 20 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Concatenate files - echo results but no files (v1) Created: 27/09/08 @ 16:42:40 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The split_string_into_string_list_by_regular_expresson outputs an empty list since the string to be split is defaulted to ''. As there are no input values, the create_and_populate_temporary_file generates an empty list. The create_temporary_file beanshell creates a file to which the concatentation can be written. The concatenate_files service does not write anything to the temporary output file. Because the displayresults port has been given a default value of 'true', the empty string is ... Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 26 times \| Downloaded: 23 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Concatenate files - echo results and multiple files (v1) Created: 27/09/08 @ 16:41:51 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The workflow splits the string 'a,b,c,d,e' into its five elements and saves the individual strings to five temporary files. The file paths to those files are then output by the create_and_populate_temporary_file beanshell. The create_temporary_file beanshell creates a file to which the concatentation can be written. The concatenate_files service concatenates the five files and writes the result to the temporary output file. Because the displayresults port has been given a default value of... Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 41 times \| Downloaded: 22 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Choose - single element list (v1) Created: 27/09/08 @ 16:40:51 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The split_string_into_string_list_by_regular_expression parses the string 'a' and outputs the list ['a']. The choose service displays a dialog with 'Some title' and 'Some message'. The user is only able to choose the value 'a'. When the user presses OK 'a' is passed to the answer port of the choose service and so to the output of the workflow. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 18 times \| Downloaded: 21 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Choose - title and message parameters (v1) Created: 27/09/08 @ 16:40:10 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The split_string_into_string_list_by_regular_expression parses the string 'a,b,c,d,e' and outputs the list ['a','b','c','d','e']. The choose service displays a dialog with 'Some title' and with 'Some message'. The user is able to choose from the values ['a','b','c','d',e']. When the user presses OK the value the user chose is passed to the answer port of the choose service and so to the output of the workflow. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 22 times \| Downloaded: 18 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Choose - title parameter (v1) Created: 27/09/08 @ 16:38:43 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The split_string_into_string_list_by_regular_expression parses the string 'a,b,c,d,e' and outputs the list ['a','b','c','d','e']. The choose service displays a dialog with 'Some title' but no message. The user is able to choose from the values ['a','b','c','d',e']. When the user presses OK the value the user chose is passed to the answer port of the choose service and so to the output of the workflow. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 17 times \| Downloaded: 20 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Choose - no title or message parameters (v1) Created: 27/09/08 @ 16:37:50 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The split_string_into_string_list_by_regular_expression parses the string 'a,b,c,d,e' and outputs the list ['a','b','c','d','e']. The choose service displays a dialog with no title or message. The user is able to choose from the values ['a','b','c','d',e']. When the user presses OK the value the user chose is passed to the answer port of the choose service and so to the output of the workflow. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 19 times \| Downloaded: 18 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Byte[] to string - empty value (v1) Created: 27/09/08 @ 16:37:04 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The beanshell converts the empty string '' to a byte array which is then converted back to the empty string '' by the Byte[]_to_string service. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 27 times \| Downloaded: 22 times Tags (3): example \| localworker \| mygrid	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Byte[] to string - non empty value (v1) Created: 27/09/08 @ 16:36:09 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The beanshell converts the string 'hello' to a byte array which is then converted back to the string 'hello' by the Byte[]_to_string service. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 18 times \| Downloaded: 21 times Tags (2): example \| localworker	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Ask - title and message parameters (v1) Created: 27/09/08 @ 16:35:15 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The ask service displays a prompt with 'Some title' and the prompt message 'Some message'. If the user presses cancel, then a service failure is generated. If the user presses OK then their input, even if it is empty, is passed to the answer port of the ask service and so to the output of the workflow. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 22 times \| Downloaded: 19 times Tags (2): example \| localworker	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Ask - just message parameter (v1) Created: 27/09/08 @ 16:34:35 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The ask service displays a prompt with no title but with the prompt message 'Some message'. If the user presses cancel, then a service failure is generated. If the user presses OK then their input, even if it is empty, is passed to the answer port of the ask service and so to the output of the workflow. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 30 times \| Downloaded: 20 times Tags (2): example \| localworker	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Ask - just title parameter (v1) Created: 27/09/08 @ 16:33:49 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The ask service displays a prompt with the title 'Some title' but no prompt message. If the user presses cancel, then a service failure is generated. If the user presses OK then their input, even if it is empty, is passed to the answer port of the ask service and so to the output of the workflow. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 21 times \| Downloaded: 21 times Tags (2): example \| localworker	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Ask - no parameters (v1) Created: 27/09/08 @ 16:33:03 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The ask service displays a prompt with no title and no prompt message. If the user presses cancel, then a service failure is generated. If the user presses OK then their input, even if it is empty, is passed to the answer port of the ask service and so to the output of the workflow. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 30 times \| Downloaded: 28 times Tags (2): example \| localworker	View Download (v1)
Taverna 1 Original Uploader Alan Williams	GBSeq test (v2) Created: 05/03/08 @ 14:15:35 \| Last updated: 31/03/08 @ 15:55:09 Credits: Franck Tanoh License: Creative Commons Attribution 3.0 Unported License This workflow retrieves nucleotide and protein sequences with the literature and references associated to them given a protein and a nucleotide id. Rating: 0.0 / 5 (0 ratings) \| Versions: 2 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 222 times \| Downloaded: 87 times Tags (9): bioinformatics \| example \| mygrid \| ncbi \| nucleotide \| protein \| retrieval \| shim \| taverna	View Download (v2)
Taverna 1 Original Uploader Alan Williams	Fetch PDB flatfile from RCSB server (v1) Created: 05/03/08 @ 14:13:24 \| Last updated: 31/03/08 @ 16:01:41 Credits: Tomoinn License: Creative Commons Attribution 3.0 Unported License Given an identifier such as '1crn' fetches the PDB format flatfile and returns the corresponding 3D image of the protein. Rating: 3.0 / 5 (1 rating) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 270 times \| Downloaded: 103 times Tags (8): bioinformatics \| example \| mygrid \| pdb \| protein \| protein structure \| rcsb \| taverna	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Demonstration of configurable iteration (v1) Created: 05/03/08 @ 14:10:51 \| Last updated: 25/03/08 @ 14:40:27 Credits: Tomoinn License: Creative Commons Attribution 3.0 Unported License This workflow shows the use of the iteration strategy editor to ensure that only relevant combinations of inputs are used during an implicit iteration. Rating: 4.0 / 5 (1 rating) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 258 times \| Downloaded: 145 times Tags (5): design pattern \| example \| iteration \| mygrid \| taverna	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Fetch Dragon images from BioMoby (v3) Created: 05/03/08 @ 14:09:35 \| Last updated: 14/07/10 @ 16:46:37 Credits: Tomoinn License: Creative Commons Attribution 3.0 Unported License Fetch images and annotations of snapdragons Rating: 0.0 / 5 (0 ratings) \| Versions: 3 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 297 times \| Downloaded: 105 times Tags (8): annotation \| bioinformatics \| biomoby \| example \| image \| mygrid \| snapdragon \| taverna	View Download (v3)
Taverna 1 Original Uploader Alan Williams	Fetch today's xkcd comic (v1) Created: 05/03/08 @ 14:08:52 \| Last updated: 07/04/08 @ 13:54:04 Credits: Tomoinn Stian Soiland-Reyes Attributions: License: Creative Commons Attribution 3.0 Unported License Use the local java plugins and some filtering operations to fetch the comic strip image from http://xkcd.com/ Based on the FetchDailyDilbert workflow. Rating: 4.5 / 5 (2 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 462 times \| Downloaded: 174 times Tags (4): example \| mygrid \| taverna \| xkcd	View Download (v1)
Taverna 1 Original Uploader Alan Williams	A workflow version of the EMBOSS tutorial (v1) Created: 05/03/08 @ 14:05:20 \| Last updated: 25/03/08 @ 14:43:35 Credits: Tomoinn License: Creative Commons Attribution 3.0 Unported License Designed to show the use of EMBOSS based Soaplab services from Taverna, this workflow has no inputs as all initial values are specified as string constants. A sequence set is fetched using the seqret tool, then simultaneously scanned for predicted transmembrane regions and subjected to a multiple alignment using emma. This alignment is then plotted to a set of PNG images and also used to build a profile using the prophecy and prophet tools. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 378 times \| Downloaded: 127 times Tags (4): emboss \| example \| mygrid \| taverna	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Example of a conditional execution workflow (v1) Created: 05/03/08 @ 13:55:45 \| Last updated: 25/03/08 @ 14:46:12 Credits: Tomoinn License: Creative Commons Attribution 3.0 Unported License If the input is true then the string 'foo' is emited, if false then 'bar'. Just a simple example to show how the monster works, so to speak. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 1 \| Citations: 0 Viewed: 1495 times \| Downloaded: 447 times Tags (5): condition \| design pattern \| example \| mygrid \| taverna	View Download (v1)