Species distribution modeling in the cloud

Concurrency and Computation: Practice and Experience

Volumn 28, Issue 4, 2016, Pages 1056-1079

  Candela, Leonardo ^a   Castelli, Donatella ^a   Coro, Gianpaolo ^a   Pagano, Pasquale ^a   Sinibaldi, Fabio ^a  

^a ISTI CNR   (Italy)

Author keywords

cloud computing; Hybrid Data Infrastructure; species distribution modeling

Indexed keywords

CLOUD COMPUTING; INFORMATION MANAGEMENT; LAND USE;

COMMUNITIES OF PRACTICE; CONSERVATION PRIORITIES; DATA MANAGEMENT SERVICES; ENVIRONMENTAL PARAMETER; HYBRID DATUM; QUANTITATIVE APPROACH; SPECIES DISTRIBUTION MODELING; SPECIES DISTRIBUTION MODELS;

POPULATION DISTRIBUTION;

EID: 84958887283     PISSN: 15320626     EISSN: 15320634     Source Type: Journal    
DOI: 10.1002/cpe.3030     Document Type: Conference Paper

References (54)

1. Guisan A, Thuiller W,. Predicting species distribution: offering more than simple habitat models. Ecology Letters September 2005; 8 (9): 993-1009.
2. Elith J, Leathwick JR,. Species distribution models: Ecological explanation and prediction across space and time. Annual Review of Ecology, Evolution, and Systematics 2009; 40: 677-697.
3. Townsend Peterson A, Soberõn J, Pearson RG, Anderson RP, Martínez-Meyer E, Nakamura M, Araújo MB,. Ecological Niches and Geographic Distributions. Princeton University Press: Princeton, New Jersey, USA, 2011.
4. de Souza Dias BF,. Towards Linking Ecosystems and Ecosystem Services to Economic and Human Activity. Statement, Convention on Biological Diversity, 2012.
5. Guisan A, Zimmermann NE,. Predictive habitat distribution models in ecology. Ecological Modelling 2000; 135 (2-3): 147-186.
6. Jetz W, McPherson JM, Guralnick RP,. Integrating biodiversity distribution knowledge: toward a global map of life. Trends in Ecology & Evolution 2012; 27 (3): 151-159.
7. Hey T, Tansley S, Tolle K,. The Fourth Paradigm: Data-Intensive Scientific Discovery. Microsoft Research, 2009.
8. Royal Society. Science as an open enterprise. Technical Report, June 2012.
9. Candela L, Castelli D, Pagano P,. Managing big data through hybrid data infrastructures. ERCIM News 2012; (89): 37-38.
10. Atkins DE, Droegemeier KK, Feldman SI, Garcia-Molina H, Klein ML, Messerschmitt DG, Messina P, Ostriker JP, Wright MH,. Revolutionizing Science and Engineering Through Cyberinfrastructure. Report of the National Science Foundation Blue-Ribbon Advisory Panel on Cyberinfrastructure, January 2003.
11. Thanos C,. Global Research Data Infrastructures: The GRDI2020 vision. GRDI2020 Booklet, January 2012.
12. Foster I, Zhao Y, Raicu I, Lu S,. Cloud Computing and Grid Computing 360-Degree Compared. Grid Computing Environments Workshop, 2008. GCE '08, Austin, TX, 2008; 1-10.
13. Candela L, Castelli D, Pagano P,. Making virtual research environments in the cloud a reality: the gCube approach. ERCIM News 2010; (83): 32-33.
14. Candela L,. Data use-virtual research environments. In Technological & Organisational Aspects of a Global Research Data Infrastructure-A View from Experts, Ashley K, Bizer C, Candela L, Fergusson D, Gionis A, Heikkurinen M, Laure E, Lopez D, Meghini C, Pagano, P, et al. (eds). GRDI2020, 2012; 91-98.
15. D4Science Consortium. D4Science: a Hybrid Data Infrastructure. (Available from: http://www.d4science.org) [Accessed June 2013].
16. Kaschner K, Watson R, Trites AW, Pauly D,. Mapping world-wide distributions of marine mammal species using a relative environmental suitability (RES) model. Marine Ecology Progress Series 2006; 316: 285-310.
17. Kaschner K, Rius-Barile J, Kesner-Reyes K, Garilao C, Kullander SO, Rees T, Froese R,. AquaMaps: Predicted range maps for aquatic species, 2010. World wide web electronic publication, (Available from: www.aquamaps.org, Version 08/2010) [Accessed June 2013].
18. Froese R, Pauly D,. FishBase 2000 Concepts, Design and Data Sources. International Center for Living Aquatic Resources Management (ICLARM): Makati, Metro Manilla, Philippines, 2000.
19. Deoliveira J,. GeoServer: uniting the GeoWeb and spatial data infrastrucutures. Tenth International Conference for Spatial Data Infrastructure (GSDI-10), St. Ausustine, Trinidad, 2008.
20. Rees T,. "C-Squares," a new spatial indexing system and its applicability to the description of oceanographic datasets. Oceanography 2003; 16 (1): 11-19.
21. Candela L, Castelli D, Pagano P,. gCube: a service-oriented application framework on the grid. ERCIM News 2008; (72): 48-49.
22. European Community. European Union Public Licence (EUPL), 1999. (Available from: http://joinup.ec.europa.eu/software/page/eupl), version 1.1. [Accessed June 2013].
23. Heery R, Patel M,. Application profiles: mixing and matching metadata schemas. Ariadne 2000; 25.
24. Andreozzi S, Burke S, Ehm F, Field L, Galang G, Konya B, Litmaath M, Millar P, Navarro J,. GLUE Specification v. 2.0. Recommendation, Open Grid Forum, 2009.
25. Christensen E, Curbera F, Meredith G, Weerawarana S,. Web Services Description Language (WSDL) 1.1. Note, W3C, 2001.
26. Cattell R,. Scalable SQL and NOSQL data stores. SIGMOD Record 2011; 39 (4): 12-27. DOI: 10.1145/1978915.1978919. (Available from: http://doi.acm.org/10.1145/1978915.1978919) [Accessed June 2013].
27. Anderson JC, Lehnardt J, Slater N,. CouchDB: The Definitive Guide. O'Really: Sebastopol, CA, 2009.
28. SNIA. Cloud Data Management Interface (CDMI) v1.0.2. Technical position, SNIA, 2012.
29. Snyder B, Bosanac D, Davies R,. ActiveMQ in Action. Manning Publications Co.: Shelter Island, NY, 2011.
30. Obe R, Hsu L,. PostGIS in Action. Manning Publications Co.: Shelter Island, NY, 2011.
31. McCandless M, Hatcher E, Gospodnetic O,. Lucene in Action, Second Edition. Manning Publications Co.: Shelter Island, NY, 2010.
32. Caron J, Davis E, Ho Y, Kambic R,. UNIDATA's THREDDS data server. 22nd International Conference on Interactive Information Processing Systems for Meteorology, Oceanography, and Hydrology, Atlanta, GA, Amer. Meteor. Soc., Paper 10.6, 2006.
33. Nogueras-Iso J, Zarazaga-Soria F, Béjar R, Álvarez P, Muro-Medrano P,. OGC Catalog Services: a key element for the development of spatial data infrastructures. Computers & Geosciences 2005; 31 (2): 199-209. DOI: 10.1016/j.cageo.2004.05.015.
34. Prasanna D,. Dependency Injection. Manning Publications Co.: Shelter Island, NY, 2009.
35. Lee KH, Lee YJ, Choi H, Chung YD, Moon B,. Parallel data processing with mapreduce: a survey. SIGMOD Record 2011; 40 (4): 11-20.
36. Froese R, Pauly D,. Fishbase, 2011. (Available from: www.fishbase.org) [Accessed June 2013].
37. de Souza Muñoz ME, De Giovanni R, de Siqueira MF, Sutton T, Brewer P, Pereira RS, Canhos DAL, Canhos VP,. openModeller: a generic approach to species' potential distribution modelling. GeoInformatica 2011; 15 (1): 111-135.
38. Stockwell DR, Beach JH, Stewart A, Vorontsov G, Vieglais D, Pereira RS,. The use of the GARP genetic algorithm and internet grid computing in the lifemapper world atlas of species biodiversity. Ecological Modelling 2006; 195 (1-2): 139-145. DOI: 10.1016/j.ecolmodel.2005.11.016.
39. Anderson DP, Cobb J, Korpela E, Lebofsky M, Werthimer D,. Seti@home: an experiment in public-resource computing. Communications of the ACM 2002; 45 (11): 56-61. DOI: 10.1145/581571.581573. (Available from: http://doi.acm.org/10.1145/581571.581573).
40. Nativi S, Mazzetti P, Saarenmaa H, Kerr J, Tuama ÉÓ,. Biodiversity and climate change use scenarios framework for the GEOSS interoperability pilot process. Ecological Informatics 2009; 4 (1): 23-33.
41. Nativi S, Craglia M, Perlman J,. The brokering approach for multidisciplinary interoperability: a position paper. International Journal of Spatial Data Infrastructures Research 2012; 7: 1-15.
42. Boyd D, Foody G,. An overview of recent remote sensing and GIS based research in ecological informatics. Ecological Informatics 2011; 6 (1): 25-36. Special Issue: 5th Anniversary.
43. Graham J, Newman G, Jarnevich C, Shory R, Stohlgren TJ,. A global organism detection and monitoring system for non-native species. Ecological Informatics 2007; 2 (2): 177-183.
44. Stocks K,. SeamountsOnline: An online resource for data on the biodiversity of seamounts. In Seamounts: Biodiversity and Fisheries, Fisheries Centre Research Report, Vol. 12, Morato T, Pauly D, (eds). Fisheries Centre, University of British Columbia: Canada, 2004; 13-24.
45. Bachman S, Moat J, Hill A, de Torre J, Scott B,. Supporting Red List threat assessments with GeoCAT: geospatial conservation assessment tool. Zookeys 2011; 150: 117-126.
46. Grassle J,. The Ocean Biogeographic Information System (OBIS): an on-line, worldwide atlas for accessing, modeling and mapping marine biological data in a multidimensional geographic context. Oceanography 2000; 13 (3): 5-7.
47. Thain D, Tannenbaum T, Livny M,. Distributed computing in practice: the Condor experience. Concurrency-Practice and Experience 2005; 17 (2-4): 323-356.
48. Zhang Q, Cheng L, Boutaba R,. Cloud computing: state-of-the-art and research challenges. Journal of Internet Services and Applications 2010; 1: 7-18. DOI: 10.1007/s13174-010-0007-6. (Available from: http://dx.doi.org/ 10.1007/s13174-010-0007-6).
49. Laure E, Fisher SM, Frohner A, Grandi C, Kunszt P, Krenek A, Mulmo O, Pacini F, Prelz F, White J, Barroso M, Buncic P, Hemmer F, Di Meglio A, Edlund A,. Programming the Grid with gLite. Computational Methods in Science and Technology 2006; 12 (1): 33-45.
50. Foster I, Kesselman C,. Globus: a metacomputing infrastructure toolkit. International Journal of High Performance Computing Applications 1997; 11 (2): 115-128.
51. Anderson D,. BOINC: a system for public-resource computing and storage. Proceedings of the Fifth IEEE/ACM International Workshop on Grid Computing, 2004, 2004; 4-10, DOI: 10.1109/GRID.2004.14.
52. Allen B, Bresnahan J, Childers L, Foster I, Kandaswamy G, Kettimuthu R, Kordas J, Link M, Martin S, Pickett K, Tuecke S,. Software as a service for data scientists. Communications of the ACM 2012; 55 (2): 81-88. DOI: 10.1145/2076450.2076468. (Available from: http://doi.acm.org/10.1145/2076450.2076468) [Accessed June 2013].
53. Howe B, Cole G, Souroush E, Koutris P, Key A, Khoussainova N, Battle L,. Database-as-a-service for long-tail science. In Proceedings of the 23rd International Conference on Scientific and Statistical Database Management, SSDBM'11. Springer-Verlag: Berlin, Heidelberg, 2011; 480-489. (Available from: http://dl.acm.org/citation.cfm?id=2032397.2032436) [Accessed June 2013].
54. Gomes ER, Vo QB, Kowalczyk R,. Pure exchange markets for resource sharing in federated clouds. Concurrency and Computation: Practice and Experience 2012; 24 (9): 977-991.