Imago: An Open-Source Repository for Born-Digital Scientific Collections

Imago: An Open-Source Repository for Born-Digital Scientific Collections

Poster for Imago specimen digital library poster at the Educause Annual Conference 2017 to be held in Philadelphia, PA on Nov 1, 2017.

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Robert H. McDonald

October 29, 2017
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  1. Chad Hutchens, Head of Digital Collections, University of Wyoming Libraries

    Jennifer Laherty, Head of Sciences, Indiana University Libraries Robert H. McDonald (@mcdonald), Associate Dean for Research & Technology Strategies/Deputy Director D2I Center, Indiana University Imago: An Open-Source Repository for Born-Digital Scientific Collections BACKGROUND DEVELOPING TECHNOLOGIES Imago is a digital library/preservation solution to capture born-digital scientific specimen collections for your institutional repository. This open-source application powered by a Samvera/Fedora repository solution is the result of a collaboration between research libraries and biological collection curators across multiple institutions. This poster shows possibilities for bio- collections for IU and UW. IMAGO AT INDIANA UNIVERSITY IU Biological Specimen Collections • Herbarium – 130K pressed plant specimens • Paleontology – Currently 2,500+ fossils potential for 1.3M specimen lots/5M total fossils • Zooarchaeology – 10K 3D vertebrate skeletons • Can this architecture also be used for generalized datasets from other disciplines? IMAGO POSSIBILITIES AT UNIVERSITY OF WYOMING Dissemination & preservation of digitized fossil collections. IMLS grant to digitize 5,000 specimens from Wyoming’s rare fossil mammal collection. UW Biodiversity Collections SUMMARY REFERENCES • Neither content management systems, nor aggregation services provide preservation means for digital specimens. • Master images are not preserved in context with metadata • No agreed upon standards for file preservation, file format, technical metadata, etc. UW COLLECTIONS MANAGEMENT • IIF 3D Viewer integration for Imago specimens. • Advanced access controls for lab management and distribution. • Darwin Core Metadata. • Permanent table PIDs for long-term use. • Re-use of content via API access to collections with Symbiota and Specify. Highlights UW Geological Museum • Laherty, J. and Motz, G. (2016) Boundless Use of Indiana University's Biological Research Collections Possible in Partnership with IU Libraries. Paper presented at: IFLA WLIC. http://library.ifla.org/id/eprint/1958 • McDonald, R.H. and Hutchens, C. (2017). A New Ecosystem for Biodiversity Data: An Open Source Repository for Born Digital Scientific Collections. ACRL Annual Conference, Baltimore, MD. http://hdl.handle.net/2022/21781. • Stewart, C.A., Cockerill, T.M., Foster, I., Hancock, D., Merchant, N., Skidmore, E., Stanzione, D., Taylor, J., Tuecke, S., Turner, G., Vaughn, M., and Gaffney, N.I., Jetstream: a self-provisioned, scalable science and engineering cloud environment. 2015, In Proceedings of the 2015 XSEDE Conference: Scientific Advancements Enabled by Enhanced Cyberinfrastructure. St. Louis, Missouri. ACM: 2792774. p. 1-8. http://dx.doi.org/10.1145/2792745.2792774 • Imago is based on the Fedora/Samvera digital library and repository architecture (http://fedorarepository.org | https://samvera.org). • UW Museum of Vertebrates ~ 9.000 specimens • UW Geological Museum ~40,000 fossils • Rocky Mountain Herbarium ~850,000 specimens UW Collection Management Systems •Arctos (http://arctosdb.org) •Specify (http://specifyx.specifysoftware.org) •Symbiota (http://symbiota.org) • Documenting mass extinction and recovery of mammals during the K-PG extinction. • Using digital microscopy, focal stacking, and image tiling to generate 2D and 3D imagery. IU USE OF IMAGO Imago IU Herbarium Use Case • The current key use case for Indiana University is the IU Herbarium. • The herbarium uses Imago to make their specimens available for use with Symbiota and Specify and eventually as a part of the Consortium of Midwest Herbaria portal. • http://imago.indiana.edu •CMH Portal http://midwestherbaria.org/portal/index.php Digital Biodiversity Preservation Issues • Samvera/Fedora architecture achieves a generalized sustainable digital library repository solution for biological specimens. • This architecture can be maintained in scientific cloud architectures like Jetstream. #EDU17 #IMAGO