Workflows

v2 Retry-Example (1)

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No description

Created: 2013-09-03

Credits: Aleksandra Pawlik

Hello World (1)

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One of the simplest workflows possible, outputting the String Constant "Hello world!"One of the simplest workflows possible. No workflow input ports, a single workflow output port "greeting", outputting "Hello, world!" as produced by the String Constant "hello".

Created: 2013-09-04

Credits: Raul Palma

Convert Taverna list of RExpr to R list - v2 (2)

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This workflow accepts a Taverna list of arbitrary R expressions and returns a single R expression representing an R list containing the original expressions. This workflow relies on the current Taverna behaviour of an R expression being represented by a list of strings containing the deparsed expression. If this changes, this workflow will likely break. The first BeanShell converts each R expression (actually a list of strings) to a single string. This uses implicit iteration to do this for...

Created: 2013-09-04 | Last updated: 2013-10-14

Credits: Jon Giddy BioVeL

BioVeL workshop reduced full workflow (1)

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The workflow is a reduced version of the main workflow. It can be used to call web services to support biodiversity research. It fetches data from GBIF. The occurrences are then used to create a model using OpenModeller, test the model and to project the model. The projection of the model is currently a "native projection" i.e. it uses the same layers as those used to create the model. The services within the workflow will allow non-native projections

Created: 2013-09-04

Credits: Katy Wolstencroft Alan Williams

Attributions:

Print R expression (3)

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This is a very small nested workflow to convert an R expression to the same textual representation that you see displayed when using the R command line.

Created: 2013-09-05 | Last updated: 2013-10-16

Credits: Jon Giddy

BioCyc:Pathway Scheme (1)

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The purpose of the workflow is to determine all the genes operating in BioCyc pathways that the input metabolite participates in. The overall idea is to generate a set of genes that potentially influence the levels of a metabolite due to the common pathways that they share.

Created: 2013-09-06

Credits: Harish Dharuri

BioCyc:Reaction Scheme (1)

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The purpose of this workflow is to determine all the enzymes/genes that participate in a radius of 2 reaction steps around a given metabolite. Broadly, the scheme involves the following steps: 1. determine all the reactions that the given metabolite participates in 2. determine all the compounds that participate in these reactions 3. filter certain compounds like H2O, ATP etc to avoid non-specific connections 4. determine all the reactions that the compounds passing through step 3 participate...

Created: 2013-09-06

Credits: Harish Dharuri

VOTable on the net maker for IMPEx (1)

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This simple workflow is a way to create a simple votable that uses the standards from IMPEx and provides an URL for the created VOTable enabling re-use of it through the IMPEx services

Created: 2013-09-10

Credits: David PS

Interpolate values on planetary models pro... (1)

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This is a simple workflow using one of the webservice provided by IMPEx. It calculates the value of different variables, at the cordinates provided, for a particular planetary model.

Created: 2013-09-10

Credits: David PS

Interpolate values on planetary models pro... (2)

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This is a simple workflow using one of the webservice provided by IMPEx. It calculates the value of different variables, at the cordinates that a spacecraft pass through for the time range provided, for a particular planetary model. The orbital values of the spacecraft are obtained by AMDA.

Created: 2013-09-10 | Last updated: 2013-09-10

Credits: David PS

Particle trajectories in the planetary mod... (1)

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This is a simple workflow using one of the webservice provided by IMPEx. It calculates the particle trajectories for the defined particle (initial position, velocity, mass and charge) for a particular planetary model.

Created: 2013-09-10

Credits: David PS

Vector field lines in the planetary models... (1)

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This is a simple workflow using one of the webservice provided by IMPEx. It calculates the field lines for the vector field requested for the starting points provided for a particular planetary model.

Created: 2013-09-10

Credits: David PS

Sphere lan-lot random points (1)

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It gest n lat-lon coordinates pairs as comma separated values. It uses a a random generator from http://www.random.org

Created: 2013-09-10

Credits: David PS

Interpolate n-randon points in a sphere on... (1)

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This is a workflow that uses 2 different services from IMPEx to calculate different variables at a certain radius for a particular planetary model.

Created: 2013-09-10

Credits: David PS

Attributions: Interpolate values on planetary models provided under IMPEx VOTable on the net maker for IMPEx Sphere lan-lot random points

Get Particle trajectories from starting po... (1)

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This is a workflow that uses 2 different services from IMPEx to calculate different variables at a certain radius for a particular planetary model.

Created: 2013-09-10

Credits: David PS

Attributions: Sphere lan-lot random points Particle trajectories in the planetary models provided under IMPEx VOTable on the net maker for IMPEx Interpolate n-randon points in a sphere on a planetary models provided under IMPEx

Refresh SPI after plugin installation (1)

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This workflow hacks into Taverna's plugin system to force update the net.sf.taverna.t2.workbench.views.results.saveactions.SaveAllResultsSPIRegistry SPI, which means it is possible to install/update the Taverna PROV plugin without restarting. This is needed to enable live update of this plugin, because there is a bug in Taverna 2.4 and below where the SPI registries are not updated correctly after installation of a plugin.

Created: 2013-09-10

Credits: Stian Soiland-Reyes

Plane cut on planetary models provided und... (1)

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This is a simple workflow using one of the webservice provided by IMPEx. It calculates the value of a plane for different variables for a particular planetary model.

Created: 2013-09-11

Credits: David PS

PDL workflow for a VAMDC collision service (2)

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Example to show how to use a PDL description file implementation of a VAMDC collision asynchronous service

Created: 2013-09-11 | Last updated: 2013-10-31

Credits: Julian Garrido

Using PDL description and PDL smart descri... (1)

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This workflow call the same service using two different PDL descriptions. In the first case, the PDL_service artifact is set up to work with a rest service. In the second case, the PDL_service artifact is set up to work with a rest service but a votable is expected and processed according to the PDL description. It allows providing columns from the votable as output ports.

Created: 2013-09-11

Credits: Julian Garrido

Example Workflow (1)

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This is an example workflow

Created: 2013-09-13

Produce vo table from helio catalogue (Cat... (1)

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A simple query of the Helio Event Catalogue (http://msslkz.mssl.ucl.ac.uk/helio_hec/HelioTavernaService?wsdl). User can enter catalogue name, time start, time end and desired paramter(s).

Created: 2014-01-13

Credits: Eoincar

Produce vo table from helio catalogue (Cat... (1)

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A simple query of the Helio Event Catalogue (http://msslkz.mssl.ucl.ac.uk/helio_hec/HelioTavernaService?wsdl). User can enter catalogue name, time start, time end, the desired parameter, parameter to order by, and limit on the search result.

Created: 2014-01-13

Credits: Eoincar

Produce vo table from helio catalogue (Cat... (1)

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A simple query of the Helio Event Catalogue (http://msslkz.mssl.ucl.ac.uk/helio_hec/HelioTavernaService?wsdl). User can enter catalogue name, time start, time end, and an SQL condition on the query.

Created: 2014-01-13

Credits: Eoincar

Produce time interval from single time (1)

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Produce a time interval from a single input time.

Created: 2014-01-13

Credits: Eoincar

CME froward propagation (1)

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Ballistic propagation of CME is the SHEBA propagation model. CME speed and speed error produces an estimated time of arrival at desired location.Constructed by David Perez Suarez.

Created: 2014-01-13

Credits: Eoincar

Average solar wind speed at ACE (1)

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This routine returns the average solar wind speed from ACE data given an input time interval.

Created: 2014-01-13

Credits: Eoincar

Test sharing 2 (1)

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bla,bla

Created: 2014-01-16

Credits: quevedo79 Francisco Quevedo

Simple FASTA workflow (1)

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A simple Taverna workflo

Created: 2014-01-22

Credits: Aleksandra Pawlik Katy Wolstencroft Alan Williams

simple fasta workflow (1)

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workflow using services

Created: 2014-01-22

Credits: Ruth Eberhardt Aleksandra Pawlik

Test (1)

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A Simple work flow to gain experiance in using Tavern

Created: 2014-01-22

Credits: Gregory Prescott Anthony A Numan Uddin Joanne Stonehouse Cranfield Course - January 2014

Taverna Workflow -1 (1)

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P15409

Created: 2014-01-22

Credits: Zoe Ward

P15409 (1)

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worflow to demostrate how to use Taverna with service anel or catalogue

Created: 2014-01-22

Credits: Lilly Hueber

PDF Read (1)

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Read a PDF from a URL

Created: 2014-01-24

Credits: Robert Haines Alan Williams

Empty list output and a value (1)

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Simply returns a port, depth 1, with nothing in it and a port, depth 0, with a constant.

Created: 2014-01-24

Credits: Robert Haines Alan Williams

Empty list output (1)

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Simply returns a single port, depth 1, with nothing in it.

Created: 2014-01-24

Credits: Robert Haines Alan Williams

SimpleTest (1)

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This is a simple test workflow. It has only one node that takes an input (a string) and return a string of the form processed(input).

Created: 2014-01-28 | Last updated: 2014-01-28

Credits: Gab

Test interaction page in myExperiment (9)

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This workflow demonstrates the feasibility of storing interaction pages in myExperiment

Created: 2014-02-04 | Last updated: 2014-02-06

Credits: Jon Giddy

PhotoHawk - PAE (1)

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This workflow provides a comparison result for 2 raw images based on PhotoHawk tool (http://datascience.github.io/photohawk/). The result is measured using PAE metric (http://purl.org/DP/quality/measures#7).

Created: 2014-02-05

Credits: Artur Kulmukhametov

PhotoHawk - MSE (1)

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This workflow provides a comparison result for 2 raw images based on PhotoHawk tool (http://datascience.github.io/photohawk/). The result is measured using MSE metric (http://purl.org/DP/quality/measures#6).

Created: 2014-02-05

Credits: Artur Kulmukhametov

PhotoHawk - MAE (1)

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This workflow provides a comparison result for 2 raw images based on PhotoHawk tool (http://datascience.github.io/photohawk/). The result is measured using MAE metric (http://purl.org/DP/quality/measures#5).

Created: 2014-02-05

Credits: Artur Kulmukhametov

PhotoHawk - AE (1)

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This workflow provides a comparison result for 2 raw images based on PhotoHawk tool (http://datascience.github.io/photohawk/). The result is measured using AE metric (http://purl.org/DP/quality/measures#4).

Created: 2014-02-05

Credits: Artur Kulmukhametov

PhotoHawk - SSIM (1)

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This workflow provides a comparison result for 2 raw images based on PhotoHawk tool (http://datascience.github.io/photohawk/). The result is measured using SSIM metric (http://purl.org/DP/quality/measures#15).

Created: 2014-02-05

Credits: Artur Kulmukhametov

RTCalc Retention Time Prediction and Outli... (1)

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This workflow takes as input a pepXML file from PeptideProphet, applied RTCalc and outputs a filtered list of peptides based on the retention time Z-scores.

Created: 2014-02-06 | Last updated: 2014-02-06

Credits: Magnus Palmblad Sonja Holl

workflow1 (1)

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No description

Created: 2014-02-11

Credits: axel jean-caurant

Propagation of type II associated CME usin... (3)

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No description

Created: 2014-02-11 | Last updated: 2014-02-17

Credits: Eoincar Anja Le Blanc David PS HELIO

Attributions: When did the fastest type II CME happened?

Curves Exploration (1)

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Exploration of curves of cubes that contain galaxy observations

Created: 2014-02-12

Credits: Julian Garrido

Converts any ImageMagick supported image f... (1)

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SCAPE Migration Component

Created: 2014-02-12

Credits: Markus Plangg

Imagemagick convert - tiff/png/bmp/jpeg2ti... (2)

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Converts tiff to tiff/png/bmp/jpeg using imagemagick convert with the provided compression

Created: 2014-02-14 | Last updated: 2014-11-06

Credits: Markus Plangg

Imagemagick convert - image2tiff - compres... (1)

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Converts images supported by imagemagick to tiff using imagemagick convert with the provided compression

Created: 2014-02-14

Credits: Markus Plangg

Secure_Web_service_call_example (5)

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No description

Created: 2014-02-26 | Last updated: 2014-02-27

Invocation of instrument capability service (1)

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Simple invocation of the instrument capability service (ICS). Also shows what tables and table fields are available for searching.

Created: 2014-02-27

Credits: Eoincar

Instrument Capability Service Invocation w... (1)

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This workflow is an invocation ofthe Instrument Capability Service using the HELIO plugin built by Kevin Benson

Created: 2014-02-27

Helio Feature Catalogue Invocation (1)

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Simple invocation of the helio feature catalogue using the service located at Paris Observatory

Created: 2014-02-27

Credits: Eoincar

Invocation of instrument location service (1)

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Invocation of the Instrument Location Service (ILS) located in Paris Observatory.

Created: 2014-02-27

Credits: Eoincar

Analysis of diseases correlated to pathway... (3)

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No description

Created: 2014-02-28 | Last updated: 2014-02-28

Credits: Massimo La Rosa Antonino Fiannaca

Attributions: NCBI Gi to Kegg Pathway Descriptions get_Disease_Id_by_Pathway

Pathways and Gene annotations for QTL region (7)

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This workflow searches for genes which reside in a QTL (Quantitative Trait Loci) region in the mouse, Mus musculus. The workflow requires an input of: a chromosome name or number; a QTL start base pair position; QTL end base pair position. Data is then extracted from BioMart to annotate each of the genes found in this region. The Entrez and UniProt identifiers are then sent to KEGG to obtain KEGG gene identifiers. The KEGG gene identifiers are then used to searcg for pathways in the KEGG path...

Created: 2009-11-19 | Last updated: 2012-09-07

Credits: Paul Fisher

BioAID_ProteinDiscovery (8)

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The workflow extracts protein names from documents retrieved from MedLine based on a user Query (cf Apache Lucene syntax). The protein names are filtered by checking if there exists a valid UniProt ID for the given protein name.

Created: 2010-05-10 | Last updated: 2013-08-16

Credits: Marco Roos AID