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Linking Multiple Workflow Provenance Traces for Interoperable Collaborative Science. Paolo Missier (1) , Bertram Ludäscher (2) , Shawn Bowers (3) , Saumen Dey (2) , Anandarup Sarkar (3) , Biva Shrestha (4) , Ilkay Altintas (5) , Manish Kumar Anand (5) , Carole Goble (1).

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Linking Multiple Workflow Provenance Traces for Interoperable Collaborative Science


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    1. Linking Multiple Workflow Provenance Traces for Interoperable Collaborative Science • Paolo Missier(1), Bertram Ludäscher(2), Shawn Bowers(3), • Saumen Dey(2), Anandarup Sarkar(3), Biva Shrestha(4), • Ilkay Altintas(5), Manish Kumar Anand(5), Carole Goble(1) • School of Computer Science, University of Manchester • Dept. of Computer Science, University of California, Davis • Dept. of Computer Science, Gonzaga University • Dept. of Computer Science, Appalachian State University • San Diego Supercomputer Center, University of California, San Diego WORKS’10, New Orleans

    2. Context: Data Sharing • Implicit collaboration through data sharing • Alice uses nth generation input dataset x and produces n+1stoutput dataset z • … as part of run RA of workflow WA • … output zis published in some data-space. • Bob uses Alice’s outputs zand produces n+2nd generation dataset v • … using workflow WB, possibly with pre-processing f • Alice and Bob may not know each other

    3. Motivation: Virtual Joint Experiments • How do we ensure that Charlie gets a complete account of the history of Wc’s outputs? • How do we ensure that Alice gets her due (partial) credit when Charlie uses Bob’s data v?  traces TA and TB will be critical  need to compose them to obtain TC We can view the composition WC as a new, virtual workflow

    4. Provenance Composition: the Data Tree of Life (DToL) • We can formulate our questions in terms of provenance of the datasets produced by virtual workflow WC: • What is the completeprovenance of v? • Answering the question requires tracing v’s derivation all the way to x • But, to achieve this, we need to ensure: • TA and TB are properly connected • Provenance queries run seamlessly over and across TAand TB

    5. Test scenario: 1st Provenance Challenge Workflow • DataONE Summer-of-Code Project • Split First Provenance Challenge workflow at various points • Publish Part-I from system X, use as input for Part-II on system Y • X, Y in { Kepler/SDF, Kepler/COMAD, Taverna}

    6. Common Model of Provenance (approx. OPM) Data provenance for a single workflow run is well understood • Workflow spec: digraph • W= (VW, EW) • VW = A∪ C • actors A (processors) • channels C (FIFO data buffers) • EW = Ein∪ Eout • in edges Ein⊆ A x C • out edges Eout⊆ C x A • Trace graph: acyclic digraph • T = (VT, ET) • VT = I∪ D (invocations I, data D) • ET = Eread∪ Ewrite • read edges Eread⊆ D x I • write edges Ewrite⊆ I x D TAtrace instance of WA: h: TA ➔ WAhomomorphism h(x1 ➔ a1) = h(x2 ➔ a2) = X➔A, h(a1 ➔ y1) = h(a2 ➔ y2) = A➔Y ...

    7. Data and Invocation Dependencies (ddep, idep) Explicit or via: Explicit or via: • data dependencies: • invocation dependencies: - read, write are natural observables for a workflow run - possible additional relations (recorded or inferred): “a2 depends on a1” because a1 has written data d, a2 has read d “d2 depends on d1” … because some actor invocation a read d1 prior to writing d2 (Note: in some models of computation the rules above are not correct)

    8. Provenance queries • Local (“non-closure”) queries on a trace T: • Find the data and traces published by Alice / Bob • Find the inputs, outputs, and intermediate data products of T • Find (selected) actors and channels used in T • Find inputs and outputs of an invocation ai in T Easy and not very interesting E.g. answer to (3) is just the set of nodes in h(T) • Closure queries: • operate on the transitive closure ddep* over ddep: • suppose ddep* spans multiple traces TA, TB • we must define the standard query: so that it operates on the composition of TA, TB

    9. Issues in Provenance Composition • I - Trace disconnect: • II - Model heterogeneity: • III - Data identifiers mismatch Closure queries now must span multiple provenance traces • different workflow and provenance models • traces that should “join” on the shared data, are really disconnected • make data sharing process itself provenance-aware • common provenance model with local ➔ global mapping • assert data equivalence as part of provenance • different workflows adopt different data identification schemes • Main problems and approaches: • heterogeneity of both workflow and provenance models

    10. Part I – Provenance Stitching • The missing link: make every data copy step provenance-aware - r : data reference in store S - trace-equivalence of data items d in S, d’ in S’: d ≃d’ if d’ is obtained by copying d from S to S’:

    11. Part II - Mapping to a Common Provenance Model • Mapping rules (= code, queries) defined from Kepler and Taverna provenance models to common model (details omitted): In the result TP each reference r found in TS is replaced with ρ(r) • OPM used as intermediate target model • … doesn’t “nail” everything • a mixed blessing … • … but team-work made it work!

    12. Part III – Data Identifier Reconciliation • We have seen that the copy operation … r’ = copy(r, S, S’) • … on shared data store S generates a data equivalence assertion • It also keep track of ID mappings: added to renaming map from a set of S-specific references to a set of public references

    13. Extended (across-runs) Provenance Queries • Closure queries are redefined on the extended provenance trace that includes trace-equivalences d≃d’ as follows: for instance between

    14. Prototype Architecture

    15. Conclusions 1/2 • In theory, provenance interoperability should be solved/easy using e.g. OPM • In practice it isn’t (cf. Provenance Challenge workshops), e.g. • different mappings to OPM • different identifier schemes • traces broken “at the seams” • Summer-of-code DToL prototype demonstrates feasibility of provenance-aware collaboration / workflow interoperation through data • Extends potential of provenance analysis beyond isolated workflow-based experiments • Findings relevant for data preservation in • Tracing data access is key

    16. Conclusions 2/2 • DataONE: • http://www.dataone.org/ • Data Tree-of-Life (DToL Summer Project) • https://sites.google.com/site/datatolproject/ • Runtime wf systems interoperability can be very hard • … and benefits not clear (unless “layered” approach w/ different roles of wf systems) • wf provenance interoperability to the rescue! • Next Steps: • DataONE Working Group on Provenance for Scientific Workflows • Develop DOPM (DataONE Provenance Model; OPM++)