Donal FellowsSchool of Computer Science, The University of Manchester

SCAPE Developer WorkshopBrno, 19–21 November 2013

Taverna ComponentsThe Basics

• Something that can be put into a workflow• Well described

• What the component does• Where to find it

• Behaves “well” • Conforms to agreed good practice policy

• Curated • Someone looks after it

• Produces and consumes data in agreed formats• Fails in described ways

• Meaningful error messages• Produces agreed type of provenance

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Taverna Components Are…

This work was partially supported by the SCAPE Project.The SCAPE project is co funded by the European Union under FP7 ICT 2009.4.1 (Grant Agreement number 270137).‐ ‐

• Implemented by Workflows• Collect Components in Families

• Groups similar components together• Families share common Profile

• Defines what it means to be a family member• Profiles inherit from Base Profile

• Defines semantics of workflows and standard annotations

• Store in a Registry• We use myExperiment as the shared Registry

• Use a local registry on your filesystem when developing new components

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Components Model

This work was partially supported by the SCAPE Project.The SCAPE project is co funded by the European Union under FP7 ICT 2009.4.1 (Grant Agreement number 270137).‐ ‐

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Component Architecture

This work was partially supported by the SCAPE Project.The SCAPE project is co funded by the European Union under FP7 ICT 2009.4.1 (Grant Agreement number 270137).‐ ‐

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Finding Components

This work was partially supported by the SCAPE Project.The SCAPE project is co funded by the European Union under FP7 ICT 2009.4.1 (Grant Agreement number 270137).‐ ‐

Online on myExperiment

Within Taverna

• Make sure you have the right version of the tools!

• Out Now: Taverna Workbench 2.4 with Plugin• Component Plugin 1.1.2

• Out Very Soon: Taverna Workbench 2.5• Incorporated as core functionality

• Out Very Soon: Taverna Server 2.5.1 or later• 2.5.2 will have provenance support

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Supported Versions

This work was partially supported by the SCAPE Project.The SCAPE project is co funded by the European Union under FP7 ICT 2009.4.1 (Grant Agreement number 270137).‐ ‐

1. Decide what you want to do…• “Combine measures documents”

2. Create a workflow to do it• Don’t forget to annotate!

3. Turn it into a component1. “Components” Menu2. “Create component…”3. Choose registry, family and name

• You may need to create a family (see next slide)

4. Any final adjustments before publication? Do now5. Save component, providing a description

4. If it is public, share component with SCAPE via myExperiment website

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Making a Component

This work was partially supported by the SCAPE Project.The SCAPE project is co funded by the European Union under FP7 ICT 2009.4.1 (Grant Agreement number 270137).‐ ‐

1. “Components” “Create family…”2. Select registry and profile

TIP: You can create profiles from the “Components”menu by importing them from myExperiment

3. Provide a name and description4. If it is a family on a public repository, set the sharing

policy and license5. If you want to share your family with SCAPE, you do

that via the myExperiment web interface

TIP: Try to avoid creating families unless there’s a functional reason

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Creating a Component Family

This work was partially supported by the SCAPE Project.The SCAPE project is co funded by the European Union under FP7 ICT 2009.4.1 (Grant Agreement number 270137).‐ ‐

• Import the Family into service panel• “Import new services”• “Component service…”• Pick registry and family

• See that family members are now available

• Drag the component across (or right-click and “add” from menu) to add to your workflow

TIP: Private components will not be usable by others or by the execution platform (got to read the component definition to run it!)

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Using a Component

This work was partially supported by the SCAPE Project.The SCAPE project is co funded by the European Union under FP7 ICT 2009.4.1 (Grant Agreement number 270137).‐ ‐

• Open the component• “Components” “Open component…”

• Edit the component• Save (either normally or via

“Components” menu)• Provide description of version

• Tell workflows to use new version• Right-click “Configure component…”• Pick the version to use• TIP: They do not update automatically

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Updating a Component

This work was partially supported by the SCAPE Project.The SCAPE project is co funded by the European Union under FP7 ICT 2009.4.1 (Grant Agreement number 270137).‐ ‐

• SPARQL searches not exposed in plugin• They’re there in myExperiment, but too hard to use for most

users so that UI is switched off• Full semantic annotation not exposed

• Gets very problematic when dealing with FOAF annotations for creators

• Profile validation not complete• No true interface for creating profiles

• Just importing already existing profile documents

• Many features wanted by other projects are missing

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Open Issues

This work was partially supported by the SCAPE Project.The SCAPE project is co funded by the European Union under FP7 ICT 2009.4.1 (Grant Agreement number 270137).‐ ‐