Publications
Scientific Papers, Journals, Presentations, Posters, and Technical Reports
2023
- Esquivel Morel, A., Calyam, P., Qu, C., Gafurov, D., Wang, C., Thareja, K., Mandal, A., Lyons, E., Zink, M., Papadimitriou, G., & Deelman, E. (2023). Network Services Management using Programmable Data Planes for Visual Cloud Computing. 2023 International Conference on Computing, Networking and Communications (ICNC). (Funding Acknowledgments: NSF 1950873, 2018074)
[BibTex]@inproceedings{esquivel-morel-icnc-2023, author = {Esquivel Morel, Alicia and Calyam, Prasad and Qu, Chengyi and Gafurov, Durbek and Wang, Cong and Thareja, Komal and Mandal, Anirban and Lyons, Eric and Zink, Michael and Papadimitriou, George and Deelman, Ewa}, booktitle = {2023 International Conference on Computing, Networking and Communications (ICNC)}, title = {Network Services Management using Programmable Data Planes for Visual Cloud Computing}, year = {2023}, volume = {}, issn = {}, pages = {}, doi = {}, url = {}, note = {Funding Acknowledgments: NSF 1950873, 2018074} }
2022
- Abhinit, I., Adams, E. K., Alam, K., Chase, B., Deelman, E., Gorenstein, L., Hudson, S., Islam, T., Larson, J., Lentner, G., Mandal, A., Navarro, J.-L., Nicolae, B., Pouchard, L., Ross, R., Roy, B., Rynge, M., Serebrenik, A., Vahi, K., … Filgueira, R. (2022). Novel Proposals for FAIR, Automated, Recommendable, and Robust Workflows. 2022 IEEE/ACM Workshop on Workflows in Support of Large-Scale Science (WORKS), 84–92. https://doi.org/10.1109/WORKS56498.2022.00016 (Funding Acknowledgments: NSF 1839900 and DOE DE-AC02-06CH11357, DE-AC05-00OR22725)
[BibTex]@inproceedings{novel-fair-works-2022, author = {Abhinit, Ishan and Adams, Emily K. and Alam, Khairul and Chase, Brian and Deelman, Ewa and Gorenstein, Lev and Hudson, Stephen and Islam, Tanzima and Larson, Jeffrey and Lentner, Geoffrey and Mandal, Anirban and Navarro, John-Luke and Nicolae, Bogdan and Pouchard, Line and Ross, Rob and Roy, Banani and Rynge, Mats and Serebrenik, Alexander and Vahi, Karan and Wild, Stefan and Xin, Yufeng and da Silva, Rafael Ferreira and Filgueira, Rosa}, booktitle = {2022 IEEE/ACM Workshop on Workflows in Support of Large-Scale Science (WORKS)}, title = {Novel Proposals for FAIR, Automated, Recommendable, and Robust Workflows}, year = {2022}, volume = {}, number = {}, pages = {84-92}, doi = {10.1109/WORKS56498.2022.00016}, note = {Funding Acknowledgments: NSF 1839900 and DOE DE-AC02-06CH11357, DE-AC05-00OR22725} } - Casanova, H., Ching Wong, Y., Pottier, L., & Ferreira da Silva, R. (2022). On the Feasibility of Simulation-driven Portfolio Scheduling for Cyberinfrastructure Runtime Systems. 2022 Job Scheduling Strategies for Parallel Processing (JSSPP), To appear. (Funding Acknowledgments: NSF 2106059 and 2106147, DOE DE-AC05-00OR22725)
[BibTex]@inproceedings{casanova-jssp-2022, title = {On the Feasibility of Simulation-driven Portfolio Scheduling for Cyberinfrastructure Runtime Systems}, author = {Casanova, Henri and Ching Wong, Yick and Pottier, Lo\"ic and Ferreira da Silva, Rafael}, booktitle = {2022 Job Scheduling Strategies for Parallel Processing (JSSPP)}, doi = {}, pages = {To appear}, year = {2022}, publisher = {Springer Nature}, note = {Funding Acknowledgments: NSF 2106059 and 2106147, DOE DE-AC05-00OR22725} } - Coleman, T., Casanova, H., Pottier, L., Kaushik, M., Deelman, E., & Ferreira da Silva, R. (2022). WfCommons: A framework for enabling scientific workflow research and development. Future Generation Computer Systems, 128, 16–27. https://doi.org/10.1016/j.future.2021.09.043 (Funding Acknowledgments: NSF 1923539, 2016610, 2016619, 2103489, 2103508, 1923621, 1664162, DOE DE-SC0012636)
[BibTex]@article{coleman-fgcs-2022, title = {WfCommons: A framework for enabling scientific workflow research and development}, journal = {Future Generation Computer Systems}, volume = {128}, pages = {16-27}, year = {2022}, issn = {0167-739X}, doi = {10.1016/j.future.2021.09.043}, url = {https://www.sciencedirect.com/science/article/pii/S0167739X21003897}, author = {Coleman, Tain\=a and Casanova, Henri and Pottier, Lo\"ic and Kaushik, Manav and Deelman, Ewa and {Ferreira da Silva}, Rafael}, keywords = {Scientific workflows, Workflow management systems, Simulation, Distributed computing, Workflow instances}, note = {Funding Acknowledgments: NSF 1923539, 2016610, 2016619, 2103489, 2103508, 1923621, 1664162, DOE DE-SC0012636} } - Do, T. M. A., Pottier, L., Ferreira da Silva, R., Caı́no-Lores Silvina, Taufer, M., & Deelman, E. (2022). Performance assessment of ensembles of in situ workflows under resource constraints. Concurrency and Computation: Practice and Experience. https://doi.org/10.1002/cpe.7111 (Funding Acknowledgments: NSF 1664162)
[BibTex]@article{do-ccpe-2022, author = {Do, Tu Mai Anh and Pottier, Lo\"ic and Ferreira da Silva, Rafael and Ca\'{\i}no-Lores, Silvina and Taufer, Michela and Deelman, Ewa}, title = {Performance assessment of ensembles of in situ workflows under resource constraints}, journal = {Concurrency and Computation: Practice and Experience}, year = {2022}, doi = {10.1002/cpe.7111}, url = {https://onlinelibrary.wiley.com/doi/abs/10.1002/cpe.7111}, note = {Funding Acknowledgments: NSF 1664162} } - Do, T. M. A., Pottier, L., Yildiz, O., Vahi, K., Krawczuk, P., Peterka, T., & Deelman, E. (2022). Accelerating Scientific Workflows on HPC Platforms with In Situ Processing. 2022 IEEE/ACM 22nd International Symposium on Cluster, Cloud and Internet Computing (CCGrid), 1–10. https://doi.org/10.1109/CCGrid54584.2022.00009 (Funding Acknowledgments: NSF 1664162, DOE DE-AC02-06CH11357, DE-AC02-05CH11231, DE-SC0012636 and DE-SC0022328)
[BibTex]@inproceedings{do-pottier-ccgrid-2022, title = {Accelerating Scientific Workflows on HPC Platforms with In Situ Processing}, author = {Do, Tu Mai Anh and Pottier, Lo\"ic and Yildiz, Orcun and Vahi, Karan and Krawczuk, Patrycja and Peterka, Tom and Deelman, Ewa}, booktitle = {2022 IEEE/ACM 22nd International Symposium on Cluster, Cloud and Internet Computing (CCGrid)}, doi = {10.1109/CCGrid54584.2022.00009}, pages = {1--10}, year = {2022}, organization = {IEEE}, note = {Funding Acknowledgments: NSF 1664162, DOE DE-AC02-06CH11357, DE-AC02-05CH11231, DE-SC0012636 and DE-SC0022328} } - Do, T. M. A., Pottier, L., da Silva, R. F., Suter, F., Caíno-Lores, S., Taufer, M., & Deelman, E. (2022). Co-scheduling Ensembles of In Situ Workflows. 2022 IEEE/ACM Workshop on Workflows in Support of Large-Scale Science (WORKS), 43–51. https://doi.org/10.1109/WORKS56498.2022.00011 (Funding Acknowledgments: NSF 1741040, 1741057, 1841758 and DOE DE-AC05-00OR22725)
[BibTex]@inproceedings{do-works-2022, author = {Do, Tu Mai Anh and Pottier, Loïc and da Silva, Rafael Ferreira and Suter, Frédéric and Caíno-Lores, Silvina and Taufer, Michela and Deelman, Ewa}, booktitle = {2022 IEEE/ACM Workshop on Workflows in Support of Large-Scale Science (WORKS)}, title = {Co-scheduling Ensembles of In Situ Workflows}, year = {2022}, volume = {}, number = {}, pages = {43-51}, doi = {10.1109/WORKS56498.2022.00011}, note = {Funding Acknowledgments: NSF 1741040, 1741057, 1841758 and DOE DE-AC05-00OR22725} } - Gesing, S., Deelman, E., Ferreira da Silva, R., Hildreth, M., McDowell, M. A., Meyers, N., Taylor, I., & Tain, D. (2022). VisDict: A Visual Dictionary in a Science Gateway. In Gateways 2022. Zenodo. https://doi.org/10.5281/zenodo.7098353 (Funding Acknowledgments: NSF 2216851)
[BibTex]@proceedings{gesing-gateways-2022, title = {VisDict: A Visual Dictionary in a Science Gateway}, author = {Gesing, Sandra and Deelman, Ewa and Ferreira da Silva, Rafael and Hildreth, Michael and McDowell, Mary Ann and Meyers, Natalie and Taylor, Ian and Tain, Douglas}, year = {2022}, booktitle = {Gateways 2022}, publisher = {Zenodo}, month = sep, doi = {10.5281/zenodo.7098353}, url = {https://doi.org/10.5281/zenodo.7098353}, note = {Funding Acknowledgments: NSF 2216851} } - Hacker, T., Smith, P., Brunson, D., Arafune, L., Cheatham, T., & Deelman, E. (2022). Building the Research Innovation Workforce: Challenges and Recommendations from a Virtual Workshop to Advance the Research Computing Community*. Practice and Experience in Advanced Research Computing. https://doi.org/10.1145/3491418.3530288 (Funding Acknowledgments: NSF 2036534)
[BibTex]@inproceedings{deelman-pearc-2022, author = {Hacker, Thomas and Smith, Preston and Brunson, Dana and Arafune, Lisa and Cheatham, Thomas and Deelman, Ewa}, title = {Building the Research Innovation Workforce: Challenges and Recommendations from a Virtual Workshop to Advance the Research Computing Community*}, year = {2022}, isbn = {9781450391610}, publisher = {Association for Computing Machinery}, address = {New York, NY, USA}, url = {https://doi.org/10.1145/3491418.3530288}, doi = {10.1145/3491418.3530288}, booktitle = {Practice and Experience in Advanced Research Computing}, articleno = {26}, numpages = {7}, keywords = {cyberinfrastructure, research computing, workforce}, location = {Boston, MA, USA}, series = {PEARC '22}, note = {Funding Acknowledgments: NSF 2036534} } - Hamed, A. A., Jonczyk, J., Alam, M. Z., Deelman, E., & Lee, B. S. (2022). Mining Literature-Based Knowledge Graph for Predicting Combination Therapeutics: A COVID-19 Use Case. 2022 IEEE International Conference on Knowledge Graph (ICKG), 79–86. https://doi.org/10.1109/ICKG55886.2022.00018
[BibTex]@inproceedings{hamed-ickg-2022, author = {Hamed, Ahmed Abdeen and Jonczyk, Jakub and Alam, Mohammad Zaiyan and Deelman, Ewa and Lee, Byung Suk}, booktitle = {2022 IEEE International Conference on Knowledge Graph (ICKG)}, title = {Mining Literature-Based Knowledge Graph for Predicting Combination Therapeutics: A COVID-19 Use Case}, year = {2022}, volume = {}, number = {}, pages = {79-86}, doi = {10.1109/ICKG55886.2022.00018} } - Jin, H., Raghavan, K., Papadimitriou, G., Wang, C., Mandal, A., Krawczuk, P., Pottier, L., Kiran, M., Deelman, E., & Balaprakash, P. (2022). Workflow Anomaly Detection with Graph Neural Networks. 2022 IEEE/ACM Workshop on Workflows in Support of Large-Scale Science (WORKS), 35–42. https://doi.org/10.1109/WORKS56498.2022.00010 (Funding Acknowledgments: DOE DE-SC0022328, DE-AC02-06CH11357)
[BibTex]@inproceedings{jin-works-2022, author = {Jin, Hongwei and Raghavan, Krishnan and Papadimitriou, George and Wang, Cong and Mandal, Anirban and Krawczuk, Patrycja and Pottier, Loïc and Kiran, Mariam and Deelman, Ewa and Balaprakash, Prasanna}, booktitle = {2022 IEEE/ACM Workshop on Workflows in Support of Large-Scale Science (WORKS)}, title = {Workflow Anomaly Detection with Graph Neural Networks}, year = {2022}, volume = {}, number = {}, pages = {35-42}, doi = {10.1109/WORKS56498.2022.00010}, note = {Funding Acknowledgments: DOE DE-SC0022328, DE-AC02-06CH11357} } - Knuth, S. L., Ma, J., Adams, J. C., Chalker, A., Deelman, E., Freeborn, L., Gazula, V., Goodhue, J., Griffioen, J., Hudak, D., Pasquale, A., Perkins, D., Romanella, A., & Rynge, M. (2022). The Multi-Tier Assistance, Training, and Computational Help (MATCH) Project, a Track 2 NSF ACCESS Initiative. The Journal of Computational Science Education, 13(2), 17–20. https://doi.org/https://doi.org/10.22369/issn.2153-4136/13/2/4 (Funding Acknowledgments: NSF 2138286)
[BibTex]@article{jocse-13-2-4, author = {Knuth, Shelley L. and Ma, Julie and Adams, Joel C. and Chalker, Alan and Deelman, Ewa and Freeborn, Layla and Gazula, Vikram and Goodhue, John and Griffioen, James and Hudak, David and Pasquale, Andrew and Perkins, Dylan and Romanella, Alana and Rynge, Mats}, title = {The Multi-Tier Assistance, Training, and Computational Help (MATCH) Project, a Track 2 NSF ACCESS Initiative}, journal = {The Journal of Computational Science Education}, year = {2022}, month = dec, volume = {13}, issue = {2}, pages = {17--20}, doi = {https://doi.org/10.22369/issn.2153-4136/13/2/4}, note = {Funding Acknowledgments: NSF 2138286} } - Murillo, A. P., Deelman, E., Nabrzyski, J., & Pottier Loı̈c. (2022). Broadening Student Participation in Cyberinfrastructure Research and Development. Practice and Experience in Advanced Research Computing. https://doi.org/10.1145/3491418.3535175 (Funding Acknowledgments: NSF 2127548, 1842042)
[BibTex]@inproceedings{murillo-pearc-2022, author = {Murillo, Angela Patricia and Deelman, Ewa and Nabrzyski, Jarek and Pottier, Lo\"{\i}c}, title = {Broadening Student Participation in Cyberinfrastructure Research and Development}, year = {2022}, isbn = {9781450391610}, publisher = {Association for Computing Machinery}, address = {New York, NY, USA}, url = {https://doi.org/10.1145/3491418.3535175}, doi = {10.1145/3491418.3535175}, booktitle = {Practice and Experience in Advanced Research Computing}, articleno = {82}, numpages = {2}, keywords = {workforce development, student fellowships, cyberinfrastructure, Major Facilities}, location = {Boston, MA, USA}, series = {PEARC '22}, note = {Funding Acknowledgments: NSF 2127548, 1842042} } - Osinski, T., Rynge, M., Hong, J. K., Vahi, K., Chu, R., Sul, C., Deelman, E., & Kim, B.-D. (2022). An automated Cryo-EM computational environment on the HPC system using Pegasus WMS. 2022 IEEE/ACM Workshop on Workflows in Support of Large-Scale Science (WORKS), 60–67. https://doi.org/10.1109/WORKS56498.2022.00013 (Funding Acknowledgments: NSF 1664162)
[BibTex]@inproceedings{osinski-works-2022, author = {Osinski, Tomasz and Rynge, Mats and Hong, James K. and Vahi, Karan and Chu, Ruilin and Sul, Cesar and Deelman, Ewa and Kim, Byoung-Do}, booktitle = {2022 IEEE/ACM Workshop on Workflows in Support of Large-Scale Science (WORKS)}, title = {An automated Cryo-EM computational environment on the HPC system using Pegasus WMS}, year = {2022}, volume = {}, number = {}, pages = {60-67}, doi = {10.1109/WORKS56498.2022.00013}, note = {Funding Acknowledgments: NSF 1664162} } - Tanaka, R., Papadimitriou, G., Viswanath, S. C., Wang, C., Lyons, E., Thareja, K., Qu, C., Esquivel, A., Deelman, E., Mandal, A., Calyam, P., & Zink, M. (2022). Automating Edge-to-cloud Workflows for Science: Traversing the Edge-to-cloud Continuum with Pegasus. 2022 22nd IEEE International Symposium on Cluster, Cloud and Internet Computing (CCGrid), 826–833. https://doi.org/10.1109/CCGrid54584.2022.00098 (Funding Acknowledgments: NSF 2018074, 1664162. Best Paper Award.)
[BibTex]@inproceedings{tanaka-cloud2things-2022, author = {Tanaka, Ryan and Papadimitriou, George and Viswanath, Sai Charan and Wang, Cong and Lyons, Eric and Thareja, Komal and Qu, Chengyi and Esquivel, Alicia and Deelman, Ewa and Mandal, Anirban and Calyam, Prasad and Zink, Michael}, booktitle = {2022 22nd IEEE International Symposium on Cluster, Cloud and Internet Computing (CCGrid)}, doi = {10.1109/CCGrid54584.2022.00098}, number = {}, pages = {826-833}, title = {Automating Edge-to-cloud Workflows for Science: Traversing the Edge-to-cloud Continuum with Pegasus}, volume = {}, year = {2022}, note = {Funding Acknowledgments: NSF 2018074, 1664162. Best Paper Award.} } - Xin, Y., Fu, S.-W., Mandal, A., Tanaka, R., Rynge, M., Vahi, K., & Deelman, E. (2022). Data Integrity Error Localization in Networked Systems with Missing Data. ICC 2022 - IEEE International Conference on Communications, 341–346. https://doi.org/10.1109/ICC45855.2022.9838996 (Funding Acknowledgments: NSF 1839900)
[BibTex]@inproceedings{xin-icc-2022, author = {Xin, Yufeng and Fu, Shih-Wen and Mandal, Anirban and Tanaka, Ryan and Rynge, Mats and Vahi, Karan and Deelman, Ewa}, booktitle = {ICC 2022 - IEEE International Conference on Communications}, title = {Data Integrity Error Localization in Networked Systems with Missing Data}, year = {2022}, volume = {}, number = {}, pages = {341-346}, doi = {10.1109/ICC45855.2022.9838996}, note = {Funding Acknowledgments: NSF 1839900} }
2021
- Brown, D., Vahi, K., Taufer, M., Welch, V., & Deelman, E. (2021). Reproducing GW150914: the first observation of gravitational waves from a binary black hole merger. Computing in Science & Engineering. https://doi.org/10.1109/MCSE.2021.3059232 (Funding Acknowledgment: NSF 1664162, NSF 1823405)
[BibTex]@article{brown2021reproducing, title = {Reproducing GW150914: the first observation of gravitational waves from a binary black hole merger}, author = {Brown, Duncan and Vahi, Karan and Taufer, Michela and Welch, Von and Deelman, Ewa}, journal = {Computing in Science \& Engineering}, year = {2021}, publisher = {IEEE}, doi = {10.1109/MCSE.2021.3059232}, note = {Funding Acknowledgment: NSF 1664162, NSF 1823405} } - Burkat, K., Pawlik, M., Balis, B., Malawski, M., Vahi, K., Rynge, M., da Silva, R. F., & Deelman, E. (2021). Serverless Containers – Rising Viable Approach to Scientific Workflows. 2021 IEEE 17th International Conference on EScience (EScience), 40–49. https://doi.org/10.1109/eScience51609.2021.00014
[BibTex]@inproceedings{burkat-escience-2021, author = {Burkat, Krzysztof and Pawlik, Maciej and Balis, Bartosz and Malawski, Maciej and Vahi, Karan and Rynge, Mats and da Silva, Rafael Ferreira and Deelman, Ewa}, booktitle = {2021 IEEE 17th International Conference on eScience (eScience)}, title = {Serverless Containers – Rising Viable Approach to Scientific Workflows}, year = {2021}, volume = {}, number = {}, pages = {40-49}, doi = {10.1109/eScience51609.2021.00014} } - Casanova, H., Deelman, E., Gesing, S., Hildreth, M., Hudson, S., Koch, W., Larson, J., McDowell, M. A., Meyers, N., Navarro, J.-L., Papadimitriou, G., Tanaka, R., Taylor, I., Thain, D., Wild, S. M., Filgueira, R., & da Silva, R. F. (2021). Emerging Frameworks for Advancing Scientific Workflows Research, Development, and Education. 2021 IEEE Workshop on Workflows in Support of Large-Scale Science (WORKS), 74–80. https://doi.org/10.1109/WORKS54523.2021.00015 (Funding Acknowledgments: DOE DE-SC0012636, NSF 1664162)
[BibTex]@inproceedings{casanova-works-2021, author = {Casanova, Henri and Deelman, Ewa and Gesing, Sandra and Hildreth, Michael and Hudson, Stephen and Koch, William and Larson, Jeffrey and McDowell, Mary Ann and Meyers, Natalie and Navarro, John-Luke and Papadimitriou, George and Tanaka, Ryan and Taylor, Ian and Thain, Douglas and Wild, Stefan M. and Filgueira, Rosa and da Silva, Rafael Ferreira}, booktitle = {2021 IEEE Workshop on Workflows in Support of Large-Scale Science (WORKS)}, title = {Emerging Frameworks for Advancing Scientific Workflows Research, Development, and Education}, year = {2021}, volume = {}, number = {}, pages = {74-80}, doi = {10.1109/WORKS54523.2021.00015}, note = {Funding Acknowledgments: DOE DE-SC0012636, NSF 1664162} } - Casanova, H., Tanaka, R., Koch, W., & Ferreira da Silva, R. (2021). Teaching Parallel and Distributed Computing Concepts in Simulation with WRENCH. Journal of Parallel and Distributed Computing. https://doi.org/10.1016/j.jpdc.2021.05.009 (Funding Acknowledgments: NSF 1923539, NSF 1642335)
[BibTex]@article{casanova2021jpdc, title = {Teaching Parallel and Distributed Computing Concepts in Simulation with WRENCH}, author = {Casanova, Henri and Tanaka, Ryan and Koch, William and Ferreira da Silva, Rafael}, journal = {Journal of Parallel and Distributed Computing}, volume = {}, number = {}, pages = {}, doi = {10.1016/j.jpdc.2021.05.009}, year = {2021}, note = {Funding Acknowledgments: NSF 1923539, NSF 1642335} } - Coleman, T., Casanova, H., & Ferreira da Silva, R. (2021). WfChef: Automated Generation of Accurate Scientific Workflow Generators. 17th IEEE EScience Conference. (Funding Acknowledgments: NSF 1923539, NSF 2016619)
[BibTex]@inproceedings{coleman2021escience, author = {Coleman, Tain\=a and Casanova, Henri and Ferreira da Silva, Rafael}, title = {WfChef: Automated Generation of Accurate Scientific Workflow Generators}, booktitle = {17th IEEE eScience Conference}, year = {2021}, pages = {}, doi = {}, note = {Funding Acknowledgments: NSF 1923539, NSF 2016619} } - Coleman, T., Casanova, H., Gwartney, T., & Ferreira da Silva, R. (2021). Evaluating energy-aware scheduling algorithms for I/O-intensive scientific workflows. International Conference on Computational Science (ICCS), 183–197. https://doi.org/10.1007/978-3-030-77961-0_16 (Funding Acknowledgments: NSF 1923539, NSF 2016619)
[BibTex]@inproceedings{coleman2021iccs, author = {Coleman, Tain\=a and Casanova, Henri and Gwartney, Ty and Ferreira da Silva, Rafael}, title = {Evaluating energy-aware scheduling algorithms for I/O-intensive scientific workflows}, booktitle = {International Conference on Computational Science (ICCS)}, year = {2021}, pages = {183--197}, doi = {10.1007/978-3-030-77961-0_16}, organization = {Springer}, note = {Funding Acknowledgments: NSF 1923539, NSF 2016619} } - Deelman, E., Ferreira da Silva, R., Vahi, K., Rynge, M., Mayani, R., Tanaka, R., Whitcup, W., & Livny, M. (2021). The Pegasus Workflow Management System: Translational Computer Science in Practice. Journal of Computational Science, 52, 101200. https://doi.org/10.1016/j.jocs.2020.101200 (Funding Acknowledgments: NSF 1664162)
[BibTex]@article{deelman2020jocs, title = {The Pegasus Workflow Management System: Translational Computer Science in Practice}, author = {Deelman, Ewa and Ferreira da Silva, Rafael and Vahi, Karan and Rynge, Mats and Mayani, Rajiv and Tanaka, Ryan and Whitcup, Wendy and Livny, Miron}, journal = {Journal of Computational Science}, volume = {52}, number = {}, pages = {101200}, year = {2021}, doi = {10.1016/j.jocs.2020.101200}, note = {Funding Acknowledgments: NSF 1664162} } - Deelman, E., Mandal, A., Murillo, A. P., Nabrzyski, J., Pascucci, V., Ricci, R., Baldin, I., Sons, S., Christopherson, L., Vardeman, C., Ferreira da Silva, R., Wyngaard, J., Petruzza, S., Rynge, M., Vahi, K., Whitcup, W. R., Drake, J., & Scott, E. (2021). Blueprint: Cyberinfrastructure Center of Excellence. Zenodo. https://doi.org/10.5281/zenodo.4587866
[BibTex]@article{deelman2021blueprint, title = {{Blueprint: Cyberinfrastructure Center of Excellence}}, author = {Deelman, Ewa and Mandal, Anirban and Murillo, Angela P. and Nabrzyski, Jarek and Pascucci, Valerio and Ricci, Robert and Baldin, Ilya and Sons, Susan and Christopherson, Laura and Vardeman, Charles and Ferreira da Silva, Rafael and Wyngaard, Jane and Petruzza, Steve and Rynge, Mats and Vahi, Karan and Whitcup, Wendy R. and Drake, Josh and Scott, Erik}, journal = {Zenodo}, year = {2021}, doi = {10.5281/zenodo.4587866} } - Do, H.-D., Hayot-Sasson, V., Ferreira da Silva, R., Steele, C., Casanova, H., & Glatard, T. (2021). Modeling the Linux page cache for accurate simulation of data-intensive applications. IEEE Cluster. (Funding Acknowledgments: NSF 1923539)
[BibTex]@inproceedings{do2021cluster, author = {Do, Hoang-Dung and Hayot-Sasson, Val\'erie and Ferreira da Silva, Rafael and Steele, Christopher and Casanova, Henri and Glatard, Tristan}, title = {Modeling the Linux page cache for accurate simulation of data-intensive applications}, booktitle = {IEEE Cluster}, year = {2021}, pages = {}, doi = {}, note = {Funding Acknowledgments: NSF 1923539} } - Do, T. M. A., Pottier, L., Caíno-Lores, S., Ferreira da Silva, R., Cuendet, M. A., Weinstein, H., Estrada, T., Taufer, M., & Deelman, E. (2021). A Lightweight Method for Evaluating In Situ Workflow Efficiency. Journal of Computational Science, 48, 101259. https://doi.org/10.1016/j.jocs.2020.101259 (Funding Acknowledgments: NSF 1741040, DOE DE-SC0012636)
[BibTex]@article{do-jocs-2021, title = {A Lightweight Method for Evaluating In Situ Workflow Efficiency}, author = {Do, Tu Mai Anh and Pottier, Lo\"ic and Ca\'ino-Lores, Silvina and Ferreira da Silva, Rafael and Cuendet, Michel A. and Weinstein, Harel and Estrada, Trilce and Taufer, Michela and Deelman, Ewa}, journal = {Journal of Computational Science}, volume = {48}, number = {}, pages = {101259}, year = {2021}, doi = {10.1016/j.jocs.2020.101259}, note = {Funding Acknowledgments: NSF 1741040, DOE DE-SC0012636} } - Do, T. M. A., Pottier Loı̈c, Ferreira da Silva, R., Caı́no-Lores Silvina, Taufer, M., & Deelman, E. (2021). Assessing Resource Provisioning and Allocation of Ensembles of In Situ Workflows. 50th International Conference on Parallel Processing Workshop. https://doi.org/10.1145/3458744.3474051 (Funding Acknowledgments: NSF 1741040, DOE SC0012636)
[BibTex]@inproceedings{do2021p2s2, author = {Do, Tu Mai Anh and Pottier, Lo\"{\i}c and Ferreira da Silva, Rafael and Ca\'{\i}no-Lores, Silvina and Taufer, Michela and Deelman, Ewa}, title = {Assessing Resource Provisioning and Allocation of Ensembles of In Situ Workflows}, year = {2021}, isbn = {9781450384414}, publisher = {Association for Computing Machinery}, address = {New York, NY, USA}, url = {https://doi.org/10.1145/3458744.3474051}, doi = {10.1145/3458744.3474051}, booktitle = {50th International Conference on Parallel Processing Workshop}, articleno = {38}, numpages = {10}, keywords = {Scientific workflow, High-performance computing, In situ model, Ensemble workflow, Molecular dynamics}, location = {Lemont, IL, USA}, series = {ICPP Workshops '21}, note = {Funding Acknowledgments: NSF 1741040, DOE SC0012636} } - Ferreira da Silva, R., Casanova, H., Chard, K., Altintas, I., Badia, R. M., Balis, B., Coleman, T., Coppens, F., Di Natale, F., Enders, B., Fahringer, T., Filgueira, R., Fursin, G., Garijo, D., Goble, C., Howell, D., Jha, S., Katz, D. S., Laney, D., … Wolf, M. (2021). A Community Roadmap for Scientific Workflows Research and Development. 2021 IEEE Workshop on Workflows in Support of Large-Scale Science (WORKS), 81–90. https://doi.org/10.1109/WORKS54523.2021.00016
[BibTex]@inproceedings{community2021works, title = {A Community Roadmap for Scientific Workflows Research and Development}, author = {Ferreira da Silva, Rafael and Casanova, Henri and Chard, Kyle and Altintas, Ilkay and Badia, Rosa M and Balis, Bartosz and Coleman, Tain\~a and Coppens, Frederik and Di Natale, Frank and Enders, Bjoern and Fahringer, Thomas and Filgueira, Rosa and Fursin, Grigori and Garijo, Daniel and Goble, Carole and Howell, Dorran and Jha, Shantenu and Katz, Daniel S. and Laney, Daniel and Leser, Ulf and Malawski, Maciej and Mehta, Kshitij and Pottier, Lo\"ic and Ozik, Jonathan and Peterson, J. Luc and Ramakrishnan, Lavanya and Soiland-Reyes, Stian and Thain, Douglas and Wolf, Matthew}, booktitle = {2021 IEEE Workshop on Workflows in Support of Large-Scale Science (WORKS)}, pages = {81--90}, year = {2021}, doi = {10.1109/WORKS54523.2021.00016} } - Ferreira da Silva, R., Casanova, H., Chard, K., Coleman, T., Laney, D., Ahn, D., Jha, S., Howell, D., Soiland-Reys, S., Altintas, I., Thain, D., Filgueira, R., Babuji, Y., Badia, R. M., Balis, B., Caino-Lores, S., Callaghan, S., Coppens, F., Crusoe, M. R., … Wozniak, J. (2021). Workflows Community Summit: Advancing the State-of-the-art of Scientific Workflows Management Systems Research and Development. Zenodo. https://doi.org/10.5281/zenodo.4915801
[BibTex]@misc{wcs2021technical, author = {Ferreira da Silva, Rafael and Casanova, Henri and Chard, Kyle and Coleman, Tain\={a} and Laney, Dan and Ahn, Dong and Jha, Shantenu and Howell, Dorran and Soiland-Reys, Stian and Altintas, Ilkay and Thain, Douglas and Filgueira, Rosa and Babuji, Yadu and Badia, Rosa M. and Balis, Bartosz and Caino-Lores, Silvina and Callaghan, Scott and Coppens, Frederik and Crusoe, Michael R. and De, Kaushik and Di Natale, Frank and Do, Tu M. A. and Enders, Bjoern and Fahringer, Thomas and Fouilloux, Anne and Fursin, Grigori and Gaignard, Alban and Ganose, Alex and Garijo, Daniel and Gesing, Sandra and Goble, Carole and Hasan, Adil and Huber, Sebastiaan and Katz, Daniel S. and Leser, Ulf and Lowe, Douglas and Ludaescher, Bertram and Maheshwari, Ketan and Malawski, Maciej and Mayani, Rajiv and Mehta, Kshitij and Merzky, Andre and Munson, Todd and Ozik, Jonathan and Pottier, Lo\"{i}c and Ristov, Sashko and Roozmeh, Mehdi and Souza, Renan and Suter, Fr\'ed\'eric and Tovar, Benjamin and Turilli, Matteo and Vahi, Karan and Vidal-Torreira, Alvaro and Whitcup, Wendy and Wilde, Michael and Williams, Alan and Wolf, Matthew and Wozniak, Justin}, title = {{Workflows Community Summit: Advancing the State-of-the-art of Scientific Workflows Management Systems Research and Development}}, month = jun, year = {2021}, publisher = {Zenodo}, doi = {10.5281/zenodo.4915801} } - Ferreira da Silva, R., Casanova, H., Chard, K., Laney, D., Ahn, D., Jha, S., Goble, C., Ramakrishnan, L., eerson, L., Enders, B., Thain, D., Altintas, I., Babuji, Y., Badia, R., Bonazzi, V., Coleman, T., Crusoe, M., Deelman, E., Di Natale, F., … Wozniak, J. (2021). Workflows Community Summit: Bringing the Scientific Workflows Community Together. Zenodo. https://doi.org/10.5281/zenodo.4606958
[BibTex]@misc{ferreiradasilva2021wcs, author = {Ferreira da Silva, Rafael and Casanova, Henri and Chard, Kyle and Laney, Dan and Ahn, Dong and Jha, Shantenu and Goble, Carole and Ramakrishnan, Lavanya and eerson, Luc and Enders, Bjoern and Thain, Douglas and Altintas, Ilkay and Babuji, Yadu and Badia, Rosa and Bonazzi, Vivien and Coleman, Taina and Crusoe, Michael and Deelman, Ewa and Di Natale, Frank and Di Tommaso, Paolo and Fahringer, Thomas and Filgueira, Rosa and Fursin, Grigori and Ganose, Alex and Gruning, Bjorn and Katz, Daniel S. and Kuchar, Olga and Kupresanin, Ana and Ludascher, Bertram and Maheshwari, Ketan and Mattoso, Marta and Mehta, Kshitij and Munson, Todd and Ozik, Jonathan and Peterka, Tom and Pottier, Lo\"ic and Randles, Tim and Soiland-Reyes, Stian and Tovar, Benjamin and Turilli, Matteo and Uram, Thomas and Vahi, Karan and Wilde, Michael and Wolf, Matthew and Wozniak, Justin}, title = {{Workflows Community Summit: Bringing the Scientific Workflows Community Together}}, month = mar, year = {2021}, publisher = {Zenodo}, doi = {10.5281/zenodo.4606958} } - Gesing, S., Ferreira da Silva, R., Deelman, E., Hildreth, M., McDowell, M. A., Meyers, N., Taylor, I., & Tain, D. (2021). VisDict: Enhancing the Communication between Workflow Providers and User Communities via a Visual Dictionary. 2021 IEEE/ACM Workflows in Support of Large-Scale Science (WORKS).
[BibTex]@inproceedings{gesing-works-2021, title = {VisDict: Enhancing the Communication between Workflow Providers and User Communities via a Visual Dictionary}, author = {Gesing, Sandra and Ferreira da Silva, Rafael and Deelman, Ewa and Hildreth, Michael and McDowell, Mary Ann and Meyers, Natalie and Taylor, Ian and Tain, Douglas}, booktitle = {2021 IEEE/ACM Workflows in Support of Large-Scale Science (WORKS)}, year = {2021}, pages = {}, doi = {} } - Gil, Y., Garijo, D., Khider, D., Knoblock, C. A., Ratnakar, V., Osorio, M., Vargas, H., Pham, M., Pujara, J., Shbita, B., Vu, B., Chiang, Y.-Y., Feldman, D., Lin, Y., Song, H., Kumar, V., Khandelwal, A., Steinbach, M., Tayal, K., … Shu, L. (2021). Artificial Intelligence for Modeling Complex Systems: Taming the Complexity of Expert Models to Improve Decision Making. ACM Transactions on Interactive Intelligent Systems, 11(2). (Funding Acknowledgment: DARPA W911NF-18-1-0027)
[BibTex]@article{gil2021tiis, title = {Artificial Intelligence for Modeling Complex Systems: Taming the Complexity of Expert Models to Improve Decision Making}, author = {Gil, Yolanda and Garijo, Daniel and Khider, Deborah and Knoblock, Craig A. and Ratnakar, Varun and Osorio, Maximiliano and Vargas, Hernán and Pham, Minh and Pujara, Jay and Shbita, Basel and Vu, Binh and Chiang, Yao-Yi and Feldman, Dan and Lin, Yijun and Song, Hayley and Kumar, Vipin and Khandelwal, Ankush and Steinbach, Michael and Tayal, Kshitij and Xu, Shaoming and Pierce, Suzanne A. and Pearson, Lissa and Hardesty-Lewis, Daniel and Deelman, Ewa and Ferreira da Silva, Rafael and Mayani, Rajiv and Kemanian, Armen R. and Shi, Yuning and Leonard, Lorne and Peckham, Scott and Stoica, Maria and Cobourn, Kelly and Zhang, Zeya and Duffy, Christopher and Shu, Lele}, journal = {ACM Transactions on Interactive Intelligent Systems}, volume = {11}, number = {2}, pages = {}, doi = {}, year = {2021}, note = {Funding Acknowledgment: DARPA W911NF-18-1-0027} } - Hataishi, E., Dutot, P.-F., Ferreira da Silva, R., & Casanova, H. (2021). GLUME: A Strategy for Reducing Workflow Execution Times on Batch-Scheduled Platforms. Workshop on Job Scheduling Strategies for Parallel Processing (JSSPP). (Funding Acknowledgment: NSF 1923539)
[BibTex]@inproceedings{hataishi2021jsspp, author = {Hataishi, Evan and Dutot, Pierre-Francois and Ferreira da Silva, Rafael and Casanova, Henri}, title = {GLUME: A Strategy for Reducing Workflow Execution Times on Batch-Scheduled Platforms}, booktitle = {Workshop on Job Scheduling Strategies for Parallel Processing (JSSPP)}, year = {2021}, pages = {}, doi = {}, note = {Funding Acknowledgment: NSF 1923539} } - Hayes, C., Kulkarni, C., Milman, E. D., Okunloye, O., Olshansky, A., Oruche, R., Kee, K., Moreira, P. C. S., Vardeman, C., Coleman, T., Do, T. M. A., Jain, A., Krawczuk, P., Lam, K., Nagarkar, S., Papadimitriou, G., Subramanya, S., White, R., Whitcup, W., … Deelman, E. (2021). 2021 SciTech and Friends Research Symposium. Zenodo. https://doi.org/10.5281/zenodo.4847543
[BibTex]@misc{scitech2021symposium, author = {Hayes, Cassandra and Kulkarni, Chaitra and Milman, Eric D. and Okunloye, Oluwabusayo and Olshansky, Alex and Oruche, Roland and Kee, Kerk and Moreira, Priscila C. S. and Vardeman, Charles and Coleman, Tain\=a and Do, Tu Mai Anh and Jain, Aditi and Krawczuk, Patrycja and Lam, Kelsie and Nagarkar, Shubham and Papadimitriou, George and Subramanya, Srujana and White, Rebecca and Whitcup, Wendy and Ferreira da Silva, Rafael and Deelman, Ewa}, title = {{2021 SciTech and Friends Research Symposium}}, month = may, year = {2021}, publisher = {Zenodo}, doi = {10.5281/zenodo.4847543}, url = {https://doi.org/10.5281/zenodo.4847543} } - Ketron, R., Leonard, J., Roachell, B., Patel, R., White, R., Caíno-Lores, S., Tan, N., Miles, P., Vahi, K., Deelman, E., Brown, D., & Taufer, M. (2021). A Case Study in Scientific Reproducibility from the Event Horizon Telescope (EHT). 2021 IEEE 17th International Conference on EScience (EScience), 249–250. https://doi.org/10.1109/eScience51609.2021.00045 (Funding Acknowledgments: NSF 2041977, 2041901, 2041878)
[BibTex]@inproceedings{ketron-escience-2021, author = {Ketron, R. and Leonard, J. and Roachell, B. and Patel, R. and White, R. and Caíno-Lores, S. and Tan, N. and Miles, P. and Vahi, K. and Deelman, E. and Brown, D. and Taufer, M.}, booktitle = {2021 IEEE 17th International Conference on eScience (eScience)}, title = {A Case Study in Scientific Reproducibility from the Event Horizon Telescope (EHT)}, year = {2021}, volume = {}, number = {}, pages = {249-250}, doi = {10.1109/eScience51609.2021.00045}, note = {Funding Acknowledgments: NSF 2041977, 2041901, 2041878} } - Krawczuk, P., Nagarkar, S., & Deelman, E. (2021). CrisisFlow: Multimodal Representation Learning Workflow for Crisis Computing. 2021 IEEE 17th International Conference on EScience (EScience), 264–266. https://doi.org/10.1109/eScience51609.2021.00052 (Funding Acknowledgments: NSF 1664162)
[BibTex]@inproceedings{krawczuk-escience-2021, author = {Krawczuk, Patrycja and Nagarkar, Shubham and Deelman, Ewa}, booktitle = {2021 IEEE 17th International Conference on eScience (eScience)}, title = {CrisisFlow: Multimodal Representation Learning Workflow for Crisis Computing}, year = {2021}, volume = {}, number = {}, pages = {264-266}, doi = {10.1109/eScience51609.2021.00052}, note = {Funding Acknowledgments: NSF 1664162} } - Krawczuk, P., Papadimitriou, G., Nagarkar, S., Kiran, M., Mandal, A., & Deelman, E. (2021). Anomaly Detection in Scientific Workflows using End-to-End Execution Gantt Charts and Convolutional Neural Networks. Practice and Experience in Advanced Research Computing. https://doi.org/10.1145/3437359.3465597 (Funding Acknowledgments: DOE DESC0012636)
[BibTex]@inproceedings{krawczuk-pearc-2021, author = {Krawczuk, Patrycja and Papadimitriou, George and Nagarkar, Shubham and Kiran, Mariam and Mandal, Anirban and Deelman, Ewa}, title = {Anomaly Detection in Scientific Workflows using End-to-End Execution Gantt Charts and Convolutional Neural Networks}, year = {2021}, isbn = {9781450382922}, publisher = {Association for Computing Machinery}, address = {New York, NY, USA}, url = {http://doi.acm.org/10.1145/3437359.3465597}, doi = {10.1145/3437359.3465597}, booktitle = {Practice and Experience in Advanced Research Computing}, articleno = {26}, numpages = {5}, location = {Boston, MA, USA}, series = {PEARC '21}, note = {Funding Acknowledgments: DOE DESC0012636} } - Krawczuk, P., Papadimitriou, G., Tanaka, R., Do, T. M. A., Subramany, S., Nagarkar, S., Jain, A., Lam, K., Mandal, A., Pottier, L., & Deelman, E. (2021). A Performance Characterization of Scientific Machine Learning Workflows. 2021 IEEE/ACM Workflows in Support of Large-Scale Science (WORKS), 58–65. https://doi.org/10.1109/WORKS54523.2021.00013 (Funding Acknowledgments: DOE DE-SC0012636, NSF 1664162)
[BibTex]@inproceedings{krawczuk-works-2021, title = {A Performance Characterization of Scientific Machine Learning Workflows}, author = {Krawczuk, Patrycja and Papadimitriou, George and Tanaka, Ryan and Do, Tu Mai Anh and Subramany, Srujana and Nagarkar, Shubham and Jain, Aditi and Lam, Kelsie and Mandal, Anirban and Pottier, Lo\"ic and Deelman, Ewa}, booktitle = {2021 IEEE/ACM Workflows in Support of Large-Scale Science (WORKS)}, year = {2021}, pages = {58-65}, doi = {10.1109/WORKS54523.2021.00013}, note = {Funding Acknowledgments: DOE DE-SC0012636, NSF 1664162} } - Lyons, E., Saplakoglu, H., Zink, M., Thareja, K., Mandal, A., Qu, C., Wang, S., Calyam, P., Papadimitriou, G., Tanaka, R., & Deelman, E. (2021). FlyNet: A Platform to Support Scientific Workflows from the Edge to the Core for UAV Applications. Proceedings of the 14th IEEE/ACM International Conference on Utility and Cloud Computing. https://doi.org/10.1145/3468737.3494098 (Funding Acknowledgments: NSF 2018074)
[BibTex]@inproceedings{lyons-ucc-2021, author = {Lyons, Eric and Saplakoglu, Hakan and Zink, Michael and Thareja, Komal and Mandal, Anirban and Qu, Chengyi and Wang, Songjie and Calyam, Prasad and Papadimitriou, George and Tanaka, Ryan and Deelman, Ewa}, title = {FlyNet: A Platform to Support Scientific Workflows from the Edge to the Core for UAV Applications}, year = {2021}, isbn = {9781450385640}, publisher = {Association for Computing Machinery}, address = {New York, NY, USA}, url = {https://doi.org/10.1145/3468737.3494098}, doi = {10.1145/3468737.3494098}, booktitle = {Proceedings of the 14th IEEE/ACM International Conference on Utility and Cloud Computing}, articleno = {12}, numpages = {10}, location = {Leicester, United Kingdom}, series = {UCC '21}, note = {Funding Acknowledgments: NSF 2018074} } - Lyons, E., Seo, D.-J., Kim, S., Habibi, H., Papadimitriou, G., Tanaka, R., Deelman, E., Zink, M., & Mandal, A. (2021). Predicting Flash Floods in the Dallas-Fort Worth Metroplex Using Workflows and Cloud Computing. 2021 IEEE 17th International Conference on EScience (EScience), 259–261. https://doi.org/10.1109/eScience51609.2021.00050 (Funding Acknowledgments: NSF 1826997, 2018074, 1664162)
[BibTex]@inproceedings{lyons-escience-2021, author = {Lyons, Eric and Seo, Dong-Jun and Kim, Sunghee and Habibi, Hamideh and Papadimitriou, George and Tanaka, Ryan and Deelman, Ewa and Zink, Michael and Mandal, Anirban}, booktitle = {2021 IEEE 17th International Conference on eScience (eScience)}, title = {Predicting Flash Floods in the Dallas-Fort Worth Metroplex Using Workflows and Cloud Computing}, year = {2021}, volume = {}, number = {}, pages = {259-261}, doi = {10.1109/eScience51609.2021.00050}, note = {Funding Acknowledgments: NSF 1826997, 2018074, 1664162} } - Papadimitriou, G., & Deelman, E. (2021). A Lightweight GPU Monitoring Extension for Pegasus Kickstart. 2021 IEEE/ACM Workflows in Support of Large-Scale Science (WORKS). https://doi.org/10.5281/zenodo.5915106 (Funding Acknowledgments: DOE DE-SC0012636, NSF 1664162)
[BibTex]@inproceedings{papadimitriou-works-2021, title = {A Lightweight GPU Monitoring Extension for Pegasus Kickstart}, author = {Papadimitriou, George and Deelman, Ewa}, booktitle = {2021 IEEE/ACM Workflows in Support of Large-Scale Science (WORKS)}, year = {2021}, pages = {}, doi = {10.5281/zenodo.5915106}, note = {Funding Acknowledgments: DOE DE-SC0012636, NSF 1664162} } - Papadimitriou, G., Lyons, E., Wang, C., Thareja, K., Tanaka, R., Ruth, P., Rodero, I., Deelman, E., Zink, M., & Mandal, A. (2021). Fair sharing of network resources among workflow ensembles. Cluster Computing. https://doi.org/10.1007/s10586-021-03457-3 (Funding Acknowledgments: NSF 1826997)
[BibTex]@article{papadimitriou-cluster-2021, title = {Fair sharing of network resources among workflow ensembles}, author = {Papadimitriou, George and Lyons, Eric and Wang, Cong and Thareja, Komal and Tanaka, Ryan and Ruth, Paul and Rodero, Ivan and Deelman, Ewa and Zink, Michael and Mandal, Anirban}, year = {2021}, journal = {Cluster Computing}, issn = {1573-7543}, url = {https://doi.org/10.1007/s10586-021-03457-3}, doi = {10.1007/s10586-021-03457-3}, note = {Funding Acknowledgments: NSF 1826997} } - Papadimitriou, G., Wang, C., Vahi, K., Ferreira da Silva, R., Mandal, A., Zhengchun, L., Mayani, R., Rynge, M., Kiran, M., Lynch, V. E., Kettimuthu, R., Deelman, E., Vetter, J. S., & Foster, I. (2021). End-to-End Online Performance Data Capture and Analysis for Scientific Workflows. Future Generation Computer Systems, 117, 387–400. https://doi.org/10.1016/j.future.2020.11.024 (Funding Acknowledgments: DOE DE-SC0012636. Best Paper Award and Editor’s Choice Article)
[BibTex]@article{papadimitriou-fgcs-2021, title = {End-to-End Online Performance Data Capture and Analysis for Scientific Workflows}, author = {Papadimitriou, George and Wang, Cong and Vahi, Karan and Ferreira da Silva, Rafael and Mandal, Anirban and Zhengchun, Liu and Mayani, Rajiv and Rynge, Mats and Kiran, Mariam and Lynch, Vickie E. and Kettimuthu, Rajkumar and Deelman, Ewa and Vetter, Jeffrey S. and Foster, Ian}, journal = {Future Generation Computer Systems}, year = {2021}, volume = {117}, number = {}, pages = {387-400}, doi = {10.1016/j.future.2020.11.024}, note = {Funding Acknowledgments: DOE DE-SC0012636. Best Paper Award and Editor's Choice Article} } - Taufer, M., Deelman, E., Silva, R. F. da, Estrada, T., Hall, M., & Livny, M. (2021). A Roadmap to Robust Science for High-throughput Applications: The Developers’ Perspective. 2021 IEEE International Conference on Cluster Computing (CLUSTER), 807–808. https://doi.org/10.1109/Cluster48925.2021.00068 (Funding Acknowledgments: NSF 2028881, 2028923, 2028930, 2028955, 2028956)
[BibTex]@inproceedings{taufer-cluster-2021, author = {Taufer, M. and Deelman, E. and Silva, R. Ferreira da and Estrada, T. and Hall, M. and Livny, M.}, booktitle = {2021 IEEE International Conference on Cluster Computing (CLUSTER)}, title = {A Roadmap to Robust Science for High-throughput Applications: The Developers’ Perspective}, year = {2021}, volume = {}, number = {}, pages = {807-808}, doi = {10.1109/Cluster48925.2021.00068}, note = {Funding Acknowledgments: NSF 2028881, 2028923, 2028930, 2028955, 2028956} } - Taufer, M., Deelman, E., da Silva, R. F., Estrada, T., & Hall, M. (2021). A Roadmap to Robust Science for High-throughput Applications: The Scientists’ Perspective. 2021 IEEE 17th International Conference on EScience (EScience), 247–248. https://doi.org/10.1109/eScience51609.2021.00044 (Funding Acknowledgments: NSF 2028881, 2028923, 2028930, 2028955, 2028956)
[BibTex]@inproceedings{taufer-escience-2021, author = {Taufer, M. and Deelman, E. and da Silva, R. Ferreira and Estrada, T. and Hall, M.}, booktitle = {2021 IEEE 17th International Conference on eScience (eScience)}, title = {A Roadmap to Robust Science for High-throughput Applications: The Scientists’ Perspective}, year = {2021}, volume = {}, number = {}, pages = {247-248}, doi = {10.1109/eScience51609.2021.00044}, note = {Funding Acknowledgments: NSF 2028881, 2028923, 2028930, 2028955, 2028956} } - Tu, H., Papadimitriou, G., Kiran, M., Wang, C., Mandal, A., Deelman, E., & Menzies, T. (2021). Mining Workflows for Anomalous Data Transfers. 2021 2021 IEEE/ACM 18th International Conference on Mining Software Repositories (MSR) (MSR), 1–12. https://doi.org/10.1109/MSR52588.2021.00013 (Funding Acknowledgment: NSF 1826574, NSF 1931425, DOE DE-SC0012636)
[BibTex]@inproceedings{ken2021msr, author = {Tu, H. and Papadimitriou, G. and Kiran, M. and Wang, C. and Mandal, A. and Deelman, E. and Menzies, T.}, booktitle = {2021 2021 IEEE/ACM 18th International Conference on Mining Software Repositories (MSR) (MSR)}, title = {Mining Workflows for Anomalous Data Transfers}, year = {2021}, volume = {}, issn = {}, pages = {1-12}, keywords = {scientific workflow, tcp signatures, anomaly detection, hyper-parameter tuning, sequential optimization}, doi = {10.1109/MSR52588.2021.00013}, url = {https://doi.ieeecomputersociety.org/10.1109/MSR52588.2021.00013}, publisher = {IEEE Computer Society}, address = {Los Alamitos, CA, USA}, month = may, note = {Funding Acknowledgment: NSF 1826574, NSF 1931425, DOE DE-SC0012636} } - Xin, Y., Fu, S.-W., Mandal, A., Baldin, I., Tanaka, R., Rynge, M., Vahi, K., Deelman, E., Abhinit, I., & Von, W. (2021). Root Cause Analysis of Data Integrity Errors in Networked Systems with Incomplete Information. 2021 International Conference on Information and Communication Technology Convergence (ICTC), 735–740. https://doi.org/10.1109/ICTC52510.2021.9621124
[BibTex]@inproceedings{xin-ictc-2021, author = {Xin, Yufeng and Fu, Shih-Wen and Mandal, Anirban and Baldin, Ilya and Tanaka, Ryan and Rynge, Mats and Vahi, Karan and Deelman, Ewa and Abhinit, Ishan and Von, Welch}, booktitle = {2021 International Conference on Information and Communication Technology Convergence (ICTC)}, title = {Root Cause Analysis of Data Integrity Errors in Networked Systems with Incomplete Information}, year = {2021}, volume = {}, number = {}, pages = {735-740}, doi = {10.1109/ICTC52510.2021.9621124} }
2020
- Adams, J. C., Back, G., Bala, P., Bane, M. K., Cameron, K., Casanova, H., Ellis, M., Ferreira da Silva, R., Jethwani, G., Koch, W., Lee, T., & Zhu, T. (2020). Lightning Talks of EduHPC 2020. 2020 IEEE/ACM Workshop on Education for High-Performance Computing (EduHPC), 59–64. https://doi.org/10.1109/EduHPC51895.2020.00013 (Funding Acknowledgments: NSF 1923539)
[BibTex]@inproceedings{adams2020eduhpc, author = {Adams, Joel C. and Back, Godmar and Bala, Piotr and Bane, Michael K. and Cameron, Kirk and Casanova, Henri and Ellis, Margaret and Ferreira da Silva, Rafael and Jethwani, Gautam and Koch, William and Lee, Tabitha and Zhu, Tongyu}, title = {Lightning Talks of EduHPC 2020}, booktitle = {2020 IEEE/ACM Workshop on Education for High-Performance Computing (EduHPC)}, pages = {59--64}, year = {2020}, doi = {10.1109/EduHPC51895.2020.00013}, note = {Funding Acknowledgments: NSF 1923539} } - Casanova, H., Ferreira da Silva, R., Gonzalez-Escribano, A., Koch, W., Torres, Y., & Bunde, D. P. (2020). Peachy Parallel Assignments (EduHPC 2020). 2020 IEEE/ACM Workshop on Education for High-Performance Computing (EduHPC), 53–58. https://doi.org/10.1109/EduHPC51895.2020.00012 (Funding Acknowledgments: NSF 1923539)
[BibTex]@inproceedings{casanova2020eduhpc, title = {Peachy Parallel Assignments (EduHPC 2020)}, author = {Casanova, Henri and Ferreira da Silva, Rafael and Gonzalez-Escribano, Arturo and Koch, William and Torres, Yuri and Bunde, David P.}, booktitle = {2020 IEEE/ACM Workshop on Education for High-Performance Computing (EduHPC)}, pages = {53--58}, year = {2020}, doi = {10.1109/EduHPC51895.2020.00012}, note = {Funding Acknowledgments: NSF 1923539} } - Casanova, H., Ferreira da Silva, R., Tanaka, R., Pandey, S., Jethwani, G., Koch, W., Albrecht, S., Oeth, J., & Suter, F. (2020). Developing Accurate and Scalable Simulators of Production Workflow Management Systems with WRENCH. Future Generation Computer Systems, 112, 162–175. https://doi.org/10.1016/j.future.2020.05.030 (Funding Acknowledgments: NSF 1642335, NSF 1923539)
[BibTex]@article{casanova2020fgcs, title = {Developing Accurate and Scalable Simulators of Production Workflow Management Systems with WRENCH}, author = {Casanova, Henri and Ferreira da Silva, Rafael and Tanaka, Ryan and Pandey, Suraj and Jethwani, Gautam and Koch, William and Albrecht, Spencer and Oeth, James and Suter, Fr\'{e}d\'{e}ric}, journal = {Future Generation Computer Systems}, volume = {112}, number = {}, pages = {162--175}, year = {2020}, doi = {10.1016/j.future.2020.05.030}, note = {Funding Acknowledgments: NSF 1642335, NSF 1923539} } - Do, T. M. A., Pottier, L., Thomas, S., Ferreira da Silva, R., Cuendet, M. A., Weinstein, H., Estrada, T., Taufer, M., & Deelman, E. (2020). A Novel Metric to Evaluate In Situ Workflows. International Conference on Computational Science (ICCS), 538–553. https://doi.org/10.1007/978-3-030-50371-0_40 (Funding Acknowledgments: NSF 1741040)
[BibTex]@inproceedings{do2020iccs, author = {Do, Tu Mai Anh and Pottier, Lo\"ic and Thomas, Stephen and Ferreira da Silva, Rafael and Cuendet, Michel A. and Weinstein, Harel and Estrada, Trilce and Taufer, Michela and Deelman, Ewa}, title = {A Novel Metric to Evaluate In Situ Workflows}, booktitle = {International Conference on Computational Science (ICCS)}, year = {2020}, pages = {538--553}, doi = {10.1007/978-3-030-50371-0_40}, note = {Funding Acknowledgments: NSF 1741040} } - Ferreira da Silva, R., Casanova, H., Orgerie, A.-C., Tanaka, R., Deelman, E., & Suter, F. (2020). Characterizing, Modeling, and Accurately Simulating Power and Energy Consumption of I/O-intensive Scientific Workflows. Journal of Computational Science, 44, 101157. https://doi.org/10.1016/j.jocs.2020.101157 (Funding Acknowledgments: NSF 1642335, NSF 1923539, NSF 1664162, DOE DE-SC0012636)
[BibTex]@article{ferreiradasilva2020jocs, title = {Characterizing, Modeling, and Accurately Simulating Power and Energy Consumption of I/O-intensive Scientific Workflows}, author = {Ferreira da Silva, Rafael and Casanova, Henri and Orgerie, Anne-C\'{e}cile and Tanaka, Ryan and Deelman, Ewa and Suter, Fr\'{e}d\'{e}ric}, journal = {Journal of Computational Science}, volume = {44}, number = {}, pages = {101157}, year = {2020}, doi = {10.1016/j.jocs.2020.101157}, note = {Funding Acknowledgments: NSF 1642335, NSF 1923539, NSF 1664162, DOE DE-SC0012636} } - Ferreira da Silva, R., Pottier, L., Coleman, T., Deelman, E., & Casanova, H. (2020). WorkflowHub: Community Framework for Enabling Scientific Workflow Research and Development. 2020 IEEE/ACM Workflows in Support of Large-Scale Science (WORKS), 49–56. https://doi.org/10.1109/WORKS51914.2020.00012 (Funding Acknowledgments: NSF 2016619, DOE DE-SC0012636, NSF 1664162, NSF 1923539)
[BibTex]@inproceedings{ferreiradasilva2020works, title = {WorkflowHub: Community Framework for Enabling Scientific Workflow Research and Development}, author = {Ferreira da Silva, Rafael and Pottier, Lo\"ic and Coleman, Tain\=a and Deelman, Ewa and Casanova, Henri}, booktitle = {2020 IEEE/ACM Workflows in Support of Large-Scale Science (WORKS)}, year = {2020}, pages = {49--56}, doi = {10.1109/WORKS51914.2020.00012}, note = {Funding Acknowledgments: NSF 2016619, DOE DE-SC0012636, NSF 1664162, NSF 1923539} } - Kiran, M., Wang, C., Papadimitriou, G., Mandal, A., & Deelman, E. (2020). Detecting Anomalous Packets in Network Transfers: Investigations using PCA, Autoencoder and Isolation Forest in TCP. Machine Learning. https://doi.org/10.1007/s10994-020-05870-y (Funding Acknowledgments: DOE DESC0012636)
[BibTex]@article{kiran-ml-2020, author = {Kiran, Mariam and Wang, Cong and Papadimitriou, George and Mandal, Anirban and Deelman, Ewa}, title = {Detecting Anomalous Packets in Network Transfers: Investigations using PCA, Autoencoder and Isolation Forest in TCP}, journal = {Machine Learning}, year = {2020}, volume = {}, number = {}, pages = {}, issn = {1573-0565}, doi = {10.1007/s10994-020-05870-y}, url = {https://doi.org/10.1007/s10994-020-05870-y}, note = {Funding Acknowledgments: DOE DESC0012636} } - Lyons, E., Westbrook, D., Grote, A., Papadimitriou, G., Thareja, K., Wang, C., Zink, M., Deelman, E., Mandal, A., & Ruth, P. (2020). An On-Demand Weather Avoidance System for Small Aircraft Flight Path Routing. In F. Darema, E. Blasch, S. Ravela, & A. Aved (Eds.), Dynamic Data Driven Application Systems (pp. 311–319). Springer International Publishing. https://doi.org/10.1007/978-3-030-61725-7_36 (Funding Acknowledgments: NSF 1826997, 2018074)
[BibTex]@inproceedings{lyons-dddas-2020, author = {Lyons, Eric and Westbrook, David and Grote, Andrew and Papadimitriou, George and Thareja, Komal and Wang, Cong and Zink, Michael and Deelman, Ewa and Mandal, Anirban and Ruth, Paul}, editor = {Darema, Frederica and Blasch, Erik and Ravela, Sai and Aved, Alex}, title = {An On-Demand Weather Avoidance System for Small Aircraft Flight Path Routing}, booktitle = {Dynamic Data Driven Application Systems}, year = {2020}, publisher = {Springer International Publishing}, address = {Cham}, pages = {311--319}, isbn = {978-3-030-61725-7}, doi = {10.1007/978-3-030-61725-7_36}, note = {Funding Acknowledgments: NSF 1826997, 2018074} } - Lyons, E., Zink, M., Mandal, A., Wang, C., Ruth, P., Radhakrishnan, C., Papadimitriou, G., Deelman, E., Thareja, K., & Rodero, I. (2020). DyNamo: Scalable Weather Workflow Processing in the Academic MultiCloud. 100th American Meteorological Society Annual Meeting. (Funding Acknowledgments: NSF 1826997)
[BibTex]@article{lyons-ams100-2020, title = {DyNamo: Scalable Weather Workflow Processing in the Academic MultiCloud}, author = {Lyons, Eric and Zink, Michael and Mandal, Anirban and Wang, Cong and Ruth, Paul and Radhakrishnan, Chandrasekar and Papadimitriou, George and Deelman, Ewa and Thareja, Komal and Rodero, Ivan}, journal = {100th American Meteorological Society Annual Meeting}, volume = {}, number = {}, pages = {}, year = {2020}, doi = {}, note = {Funding Acknowledgments: NSF 1826997} } - Papadimitriou, G., Lyons, E., Wang, C., Thareja, K., Tanaka, R., Ruth, P., Villalobos, J. J., Rodero, I., Deelman, E., Zink, M., & Mandal, A. (2020). Application Aware Software Defined Flows of Workflow Ensembles. 2020 IEEE/ACM Innovating the Network for Data-Intensive Science (INDIS), 10–21. https://doi.org/10.1109/INDIS51933.2020.00007 (Funding Acknowledgments: NSF 1826997)
[BibTex]@inproceedings{papadimitriou-indis-2020, title = {Application Aware Software Defined Flows of Workflow Ensembles}, author = {Papadimitriou, George and Lyons, Eric and Wang, Cong and Thareja, Komal and Tanaka, Ryan and Ruth, Paul and Villalobos, J.J. and Rodero, Ivan and Deelman, Ewa and Zink, Michael and Mandal, Anirban}, booktitle = {2020 IEEE/ACM Innovating the Network for Data-Intensive Science (INDIS)}, year = {2020}, volume = {}, number = {}, pages = {10-21}, doi = {10.1109/INDIS51933.2020.00007}, note = {Funding Acknowledgments: NSF 1826997} } - Papadimitriou, G., Vahi, K., Kincl, J., Anantharaj, V., Deelman, E., & Wells, J. (2020). Workflow Submit Nodes as a Service on Leadership Class Systems. Proceedings of the Practice and Experience in Advanced Research Computing. https://doi.org/10.1145/3311790.3396671 (Funding Acknowledgments: DOE DESC0012636. Best Student Paper Award in Advanced Research Computing Environments – Systems and System Software Track.)
[BibTex]@inproceedings{papadimitriou-pearc-2020, author = {Papadimitriou, George and Vahi, Karan and Kincl, Jason and Anantharaj, Valentine and Deelman, Ewa and Wells, Jack}, title = {Workflow Submit Nodes as a Service on Leadership Class Systems}, year = {2020}, isbn = {978-1-4503-6689-2/20/07}, publisher = {Association for Computing Machinery}, address = {New York, NY, USA}, url = {http://doi.acm.org/10.1145/3311790.3396671}, doi = {10.1145/3311790.3396671}, booktitle = {Proceedings of the Practice and Experience in Advanced Research Computing}, articleno = {}, numpages = {}, location = {Portland, OR, USA}, series = {PEARC '20}, note = {Funding Acknowledgments: DOE DESC0012636. Best Student Paper Award in Advanced Research Computing Environments – Systems and System Software Track.} } - Pottier, L., Ferreira da Silva, R., Casanova, H., & Deelman, E. (2020). Modeling the Performance of Scientific Workflow Executions on HPC Platforms with Burst Buffers. 2020 IEEE International Conference on Cluster Computing (CLUSTER), 92–103. https://doi.org/10.1109/CLUSTER49012.2020.00019 (Funding Acknowledgments: DOE DE-SC0012636, NSF 1664162, NSF 1741040, NSF 1923539, NSF 1923621)
[BibTex]@inproceedings{pottier2020cluster, author = {Pottier, Lo\"ic and Ferreira da Silva, Rafael and Casanova, Henri and Deelman, Ewa}, title = {Modeling the Performance of Scientific Workflow Executions on HPC Platforms with Burst Buffers}, booktitle = {2020 IEEE International Conference on Cluster Computing (CLUSTER)}, year = {2020}, pages = {92--103}, doi = {10.1109/CLUSTER49012.2020.00019}, note = {Funding Acknowledgments: DOE DE-SC0012636, NSF 1664162, NSF 1741040, NSF 1923539, NSF 1923621} } - Versluis, L., Mathá, R., Talluri, S., Hegeman, T., Prodan, R., Deelman, E., & Iosup, A. (2020). The Workflow Trace Archive: Open-Access Data from Public and Private Computing Infrastructures. IEEE Transactions on Parallel and Distributed Systems, 31(9), 2170–2184. https://doi.org/10.1109/TPDS.2020.2984821 (Funding Acknowledgments: NSF 1664162)
[BibTex]@article{versluis-tpds-2020, author = {Versluis, Laurens and Mathá, Roland and Talluri, Sacheendra and Hegeman, Tim and Prodan, Radu and Deelman, Ewa and Iosup, Alexandru}, title = {The Workflow Trace Archive: Open-Access Data from Public and Private Computing Infrastructures}, journal = {IEEE Transactions on Parallel and Distributed Systems}, year = {2020}, volume = {31}, number = {9}, doi = {10.1109/TPDS.2020.2984821}, pages = {2170-2184}, note = {Funding Acknowledgments: NSF 1664162} } - Wang, C., Papadimitriou, G., Kiran, M., Mandal, A., & Deelman, E. (2020). Identifying Execution Anomalies for Data Intensive Workflows Using Lightweight ML Techniques. 2020 IEEE High Performance Extreme Computing Conference (HPEC), 1–7. https://doi.org/10.1109/HPEC43674.2020.9286139 (Funding Acknowledgments: DOE DESC0012636)
[BibTex]@inproceedings{wang-hpec-2020, title = {Identifying Execution Anomalies for Data Intensive Workflows Using Lightweight ML Techniques}, author = {Wang, Cong and Papadimitriou, George and Kiran, Mariam and Mandal, Anirban and Deelman, Ewa}, booktitle = {2020 IEEE High Performance Extreme Computing Conference (HPEC)}, year = {2020}, volume = {}, number = {}, pages = {1-7}, doi = {10.1109/HPEC43674.2020.9286139}, note = {Funding Acknowledgments: DOE DESC0012636} } - Vahi, K., Goldstein, D., Papadimitriou, G., Nugent, P., & Deelman, E. (2020). Gearing the DECam Analysis Pipeline for Multi-Messenger Astronomy Using Pegasus Workflows. In R. Pizzo, E. R. Deul, J. D. Mol, J. de Plaa, & H. Verkouter (Eds.), Astronomical Data Analysis Software and Systems XXIX (Vol. 527, p. 631). (Funding Acknowledgments: NSF 1664162, DOE DESC0012636)
[BibTex]@inproceedings{vahi-adass-2020, author = {{Vahi}, K. and {Goldstein}, D. and {Papadimitriou}, G. and {Nugent}, P. and {Deelman}, E.}, title = {{Gearing the DECam Analysis Pipeline for Multi-Messenger Astronomy Using Pegasus Workflows}}, booktitle = {Astronomical Data Analysis Software and Systems XXIX}, year = {2020}, editor = {{Pizzo}, R. and {Deul}, E.~R. and {Mol}, J.~D. and {de Plaa}, J. and {Verkouter}, H.}, series = {Astronomical Society of the Pacific Conference Series}, volume = {527}, month = jan, pages = {631}, adsurl = {https://ui.adsabs.harvard.edu/abs/2020ASPC..527..631V}, adsnote = {Provided by the SAO/NASA Astrophysics Data System}, note = {Funding Acknowledgments: NSF 1664162, DOE DESC0012636} }
2019
- Bogol, S., Brenner, P., Brinckman, A., Deelman, E., Ferreira da Silva, R., Gupta, S., Nabrzyski, J., Park, S., Perez, D., Rynge, M., Taylor, I., Vahi, K., Werf, M. V., Sarah, R., & Wyngaard, S. (2019). A Secure Gateway for Enabling ASIC Design Collaborations. 11th International Workshop on Science Gateways (IWSG 2019). (Funding Acknowledgments: DARPA HR0011-16-C-0043)
[BibTex]@inproceedings{bogol-iwsg-2019, title = {A Secure Gateway for Enabling ASIC Design Collaborations}, author = {Bogol, Steve and Brenner, Paul and Brinckman, Adam and Deelman, Ewa and Ferreira da Silva, Rafael and Gupta, Sandeep and Nabrzyski, Jarek and Park, Soowang and Perez, Damian and Rynge, Mats and Taylor, Ian and Vahi, Karan and Werf, Matt Vander and Sarah, Rucker and Wyngaard, Sebastian}, booktitle = {11th International Workshop on Science Gateways (IWSG 2019)}, year = {2019}, pages = {}, doi = {}, note = {Funding Acknowledgments: DARPA HR0011-16-C-0043} } - Brinckman, A., Deelman, E., Gupta, S., Nabrzyski, J., Park, S., Ferreira da Silva, R., Taylor, I. J., & Vahi, K. (2019). Collaborative Circuit Designs using the CRAFT Repository. Future Generation Computer Systems, 94, 841–853. https://doi.org/10.1016/j.future.2018.01.018 (Funding Acknowledgments: DARPA HR0011-16-C-0043)
[BibTex]@article{brinckman-fgcs-2018, title = {Collaborative Circuit Designs using the CRAFT Repository}, author = {Brinckman, Adam and Deelman, Ewa and Gupta, Sandeep and Nabrzyski, Jarek and Park, Soowang and Ferreira da Silva, Rafael and Taylor, Ian J. and Vahi, Karan}, journal = {Future Generation Computer Systems}, volume = {94}, number = {}, pages = {841--853}, year = {2019}, doi = {10.1016/j.future.2018.01.018}, note = {Funding Acknowledgments: DARPA HR0011-16-C-0043} } - Chang, P., Allen, G., Anderson, W., Bianco, F. B., Bloom, J. S., Brady, P. R., Brazier, A., Cenko, S. B., Couch, S. M., DeYoung, T., Deelman, E., Etienne, Z. B., Foley, R. J., Fox, D. B., Golkhou, V. Z., Grant, D. R., Hanna, C., Holley-Bockelmann, K., Howell, D. A., … Zhang, Z. (2019). Cyberinfrastructure Requirements to Enhance Multi-messenger Astrophysics. https://arxiv.org/abs/1903.04590
[BibTex]@misc{chang-astro2020-2019, author = {Chang, Philip and Allen, Gabrielle and Anderson, Warren and Bianco, Federica B. and Bloom, Joshua S. and Brady, Patrick R. and Brazier, Adam and Cenko, S. Bradley and Couch, Sean M. and DeYoung, Tyce and Deelman, Ewa and Etienne, Zachariah B and Foley, Ryan J. and Fox, Derek B and Golkhou, V. Zach and Grant, Darren R and Hanna, Chad and Holley-Bockelmann, Kelly and Howell, D. Andrew and Huerta, E. A. and Johnson, Margaret W. G. and Juric, Mario and Kaplan, David L. and Katz, Daniel S. and Keivani, Azadeh and Kerzendorf, Wolfgang and Kopper, Claudio and Lam, Michael T. and Lehner, Luis and Marka, Zsuzsa and Marka, Szabolcs and Nabrzyski, Jarek and Narayan, Gautham and O'Shea, Brian W. and Petravick, Donald and Quick, Rob and Street, Rachel A. and Taboada, Ignacio and Timmes, Frank and Turk, Matthew J. and Weltman, Amanda and Zhang, Zhao}, title = {Cyberinfrastructure Requirements to Enhance Multi-messenger Astrophysics}, year = {2019}, eprint = {arXiv:1903.04590}, url = {https://arxiv.org/abs/1903.04590} } - Chapp, D., Rorabaugh, D., Brown, D. A., Deelman, E., Vahi, K., Welch, V., & Taufer, M. (2019). Applicability Study of the PRIMAD Model to LIGO Gravitational Wave Search Workflows. Proceedings of the 2nd International Workshop on Practical Reproducible Evaluation of Computer Systems (P-RECS’19), 1–6. https://doi.org/10.1145/3322790.3330591
[BibTex]@inproceedings{chap2019precs, author = {Chapp, Dylan and Rorabaugh, Danny and Brown, Duncan A. and Deelman, Ewa and Vahi, Karan and Welch, Von and Taufer, Michela}, title = {Applicability Study of the PRIMAD Model to LIGO Gravitational Wave Search Workflows}, year = {2019}, doi = {10.1145/3322790.3330591}, booktitle = {Proceedings of the 2nd International Workshop on Practical Reproducible Evaluation of Computer Systems (P-RECS'19)}, pages = {1–6} } - Deelman, E., Mandal, A., Jiang, M., & Sakellariou, R. (2019). The role of machine learning in scientific workflows. The International Journal of High Performance Computing Applications. https://doi.org/10.1177/1094342019852127 (Funding Acknowledgments: LLNL-ABS-755833 DE-AC52-07NA27344, DOE DESC0012636, NSF 1839900, LLNL-JRNL-765200)
[BibTex]@article{deelman-ijhpca-2019, title = {The role of machine learning in scientific workflows}, author = {Deelman, Ewa and Mandal, Anirban and Jiang, Ming and Sakellariou, Rizos}, journal = {The International Journal of High Performance Computing Applications}, volume = {}, number = {}, pages = {}, year = {2019}, doi = {10.1177/1094342019852127}, note = {Funding Acknowledgments: LLNL-ABS-755833 DE-AC52-07NA27344, DOE DESC0012636, NSF 1839900, LLNL-JRNL-765200} } - Deelman, E., Mandal, A., Pascucci, V., Sons, S., Wyngaard, J., Vardeman II, C. F., Petruzza, S., Baldin, I., Christopherson, L., Mitchell, R., Pottier, L., Rynge, M., Scott, E., Vahi, K., Kogank, M., Mann, J. A., Gulbransen, T., Allen, D., Barlow, D., … Stone, S. (2019). Cyberinfrastructure Center of Excellence Pilot: Connecting Large Facilities Cyberinfrastructure. 15th International Conference on EScience (EScience). (Funding Acknowledgments: NSF 1842042)
[BibTex]@inproceedings{deelman-escience-2019, title = {Cyberinfrastructure Center of Excellence Pilot: Connecting Large Facilities Cyberinfrastructure}, author = {Deelman, Ewa and Mandal, Anirban and Pascucci, Valerio and Sons, Susan and Wyngaard, Jane and Vardeman II, Charles F and Petruzza, Steve and Baldin, Ilya and Christopherson, Laura and Mitchell, Ryan and Pottier, Lo\"ic and Rynge, Mats and Scott, Erik and Vahi, Karan and Kogank, Marina and Mann, Jasmine A and Gulbransen, Tom and Allen, Daniel and Barlow, David and Bonarrigo, Santiago and Clark, Chris and Goldman, Leslie and Goulden, Tristan and Harvey, Phil and Hulsander, David and Jacob, Steve and Laney, Christine and Lobo-Padilla, Ivan and Sampson, Jeremey and Staarmann, John and Stone, Steve}, booktitle = {15th International Conference on eScience (eScience)}, year = {2019}, location = {San Diego, CA, USA}, pages = {}, doi = {}, note = {Funding Acknowledgments: NSF 1842042} } - Deelman, E., Vahi, K., Rynge, M., Mayani, R., Ferreira da Silva, R., Papadimitriou, G., & Livny, M. (2019). The Evolution of the Pegasus Workflow Management Software. Computing in Science Engineering, 21(4), 22–36. https://doi.org/10.1109/MCSE.2019.2919690 (Funding Acknowledgments: NSF 1664162, NSF 1148515, DOE DESC0012636, NSF 1642053)
[BibTex]@article{deelman-cise-2019, title = {The Evolution of the Pegasus Workflow Management Software}, author = {Deelman, Ewa and Vahi, Karan and Rynge, Mats and Mayani, Rajiv and Ferreira da Silva, Rafael and Papadimitriou, George and Livny, Miron}, journal = {Computing in Science Engineering}, volume = {21}, number = {4}, pages = {22--36}, year = {2019}, doi = {10.1109/MCSE.2019.2919690}, note = {Funding Acknowledgments: NSF 1664162, NSF 1148515, DOE DESC0012636, NSF 1642053} } - Edwards, R., Abeysinghe, E., Pierce, M., & Rynge, M. (2019). Search SRA Gateway for Metagenomics Data. Gateways 2019.
[BibTex]@inproceedings{edwards-gateways-2019, title = {Search SRA Gateway for Metagenomics Data}, author = {Edwards, Robert and Abeysinghe, Eroma and Pierce, Marlon and Rynge, Mats}, booktitle = {Gateways 2019}, year = {2019}, pages = {}, doi = {} } - Ferreira da Silva, R., Callaghan, S., Do, T. M. A., Papadimitriou, G., & Deelman, E. (2019). Measuring the Impact of Burst Buffers on Data-Intensive Scientific Workflows. Future Generation Computer Systems, 101, 208–220. https://doi.org/10.1016/j.future.2019.06.016 (Funding Acknowledgments: DOE DESC0012636, NSF 1664162, NSF 1741040)
[BibTex]@article{ferreiradasilva-fgcs-bb-2019, title = {Measuring the Impact of Burst Buffers on Data-Intensive Scientific Workflows}, author = {Ferreira da Silva, Rafael and Callaghan, Scott and Do, Tu Mai Anh and Papadimitriou, George and Deelman, Ewa}, journal = {Future Generation Computer Systems}, volume = {101}, number = {}, pages = {208--220}, year = {2019}, doi = {10.1016/j.future.2019.06.016}, note = {Funding Acknowledgments: DOE DESC0012636, NSF 1664162, NSF 1741040} } - Ferreira da Silva, R., Casanova, H., Tanaka, R., & Suter, F. (2019). Bridging Concepts and Practice in eScience via Simulation-driven Engineering. Workshop on Bridging from Concepts to Data and Computation for EScience (BC2DC’19), 15th International Conference on EScience (EScience), 609–614. https://doi.org/10.1109/eScience.2019.00084 (Funding Acknowledgements: NSF 1642335, NSF 1923539)
[BibTex]@inproceedings{ferreiradasilva2019escience, title = {Bridging Concepts and Practice in eScience via Simulation-driven Engineering}, author = {Ferreira da Silva, Rafael and Casanova, Henri and Tanaka, Ryan and Suter, Frederic}, booktitle = {Workshop on Bridging from Concepts to Data and Computation for eScience (BC2DC'19), 15th International Conference on eScience (eScience)}, year = {2019}, pages = {609--614}, doi = {10.1109/eScience.2019.00084}, note = {Funding Acknowledgements: NSF 1642335, NSF 1923539} } - Ferreira da Silva, R., Filgueira, R., Deelman, E., Pairo-Castineira, E., Overton, I. M., & Atkinson, M. (2019). Using Simple PID-inspired Controllers for Online Resilient Resource Management of Distributed Scientific Workflows. Future Generation Computer Systems, 95, 615–628. https://doi.org/10.1016/j.future.2019.01.015 (Funding Acknowledgments: DOE DE-SC0012636)
[BibTex]@article{ferreiradasilva-fgcs-2019, title = {Using Simple PID-inspired Controllers for Online Resilient Resource Management of Distributed Scientific Workflows}, author = {Ferreira da Silva, Rafael and Filgueira, Rosa and Deelman, Ewa and Pairo-Castineira, Erola and Overton, Ian Michael and Atkinson, Malcolm}, journal = {Future Generation Computer Systems}, volume = {95}, number = {}, pages = {615-628}, year = {2019}, doi = {10.1016/j.future.2019.01.015}, note = {Funding Acknowledgments: DOE DE-SC0012636} } - Ferreira da Silva, R., Mayani, R., Shi, Y., Kemanian, A. R., Rynge, M., & Deelman, E. (2019). Empowering Agroecosystem Modeling with HTC Scientific Workflows: The Cycles Model Use Case. First International Workshop on Big Data Tools, Methods, and Use Cases for Innovative Scientific Discovery (BTSD), 4545–4552. https://doi.org/10.1109/BigData47090.2019.9006107 (Funding Acknowledgments: DARPA W911NF-18-1-0027, NSF 1664162)
[BibTex]@inproceedings{ferreiradasilva2019btsd, title = {Empowering Agroecosystem Modeling with HTC Scientific Workflows: The Cycles Model Use Case}, author = {Ferreira da Silva, Rafael and Mayani, Rajiv and Shi, Yuning and Kemanian, Armen R. and Rynge, Mats and Deelman, Ewa}, booktitle = {First International Workshop on Big Data Tools, Methods, and Use Cases for Innovative Scientific Discovery (BTSD)}, year = {2019}, pages = {4545--4552}, doi = {10.1109/BigData47090.2019.9006107}, note = {Funding Acknowledgments: DARPA W911NF-18-1-0027, NSF 1664162} } - Ferreira da Silva, R., Orgerie, A.-C., Casanova, H., Tanaka, R., Deelman, E., & Suter, F. (2019). Accurately Simulating Energy Consumption of I/O-intensive Scientific Workflows. Computational Science – ICCS 2019, 138–152. https://doi.org/10.1007/978-3-030-22734-0_11 (Funding Acknowledgments: NSF 1642335, NSF 1664162, DOE DE-SC0012636)
[BibTex]@inproceedings{ferreiradasilva-iccs-2019, author = {Ferreira da Silva, Rafael and Orgerie, Anne-C\'{e}cile and Casanova, Henri and Tanaka, Ryan and Deelman, Ewa and Suter, Fr\'{e}d\'{e}ric}, title = {Accurately Simulating Energy Consumption of I/O-intensive Scientific Workflows}, booktitle = {Computational Science -- ICCS 2019}, year = {2019}, pages = {138--152}, publisher = {Springer International Publishing}, doi = {10.1007/978-3-030-22734-0_11}, note = {Funding Acknowledgments: NSF 1642335, NSF 1664162, DOE DE-SC0012636} } - Garijo, D., Khider, D., Ratnakar, V., Gil, Y., Deelman, E., Ferreira da Silva, R., Knoblock, C., Chiang, Y.-Y., Pham, M., Pujara, J., Vu, B., Feldman, D., Mayani, R., Cobourn, K., Duffy, C., Kemanian, A., Shu, L., Kumar, V., Khandelwal, A., … Pierce, S. (2019). An Intelligent Interface for Integrating Climate, Hydrology, Agriculture, and Socioeconomic Models. ACM 24th International Conference on Intelligent User Interfaces (IUI’19), 111–112. https://doi.org/10.1145/3308557.3308711 (Funding Acknowledgments: DARPA W911NF-18-1-0027)
[BibTex]@inproceedings{garijo-iui-2019, author = {Garijo, Daniel and Khider, Deborah and Ratnakar, Varun and Gil, Yolanda and Deelman, Ewa and Ferreira da Silva, Rafael and Knoblock, Craig and Chiang, Yao-Yi and Pham, Minh and Pujara, Jay and Vu, Binh and Feldman, Dan and Mayani, Rajiv and Cobourn, Kelly and Duffy, Chris and Kemanian, Armen and Shu, Lele and Kumar, Vipin and Khandelwal, Ankush and Tayal, Kshitij and Peckham, Scott and Stoica, Maria and Dabrowski, Anna and Hardesty-Lewis, Daniel and Pierce, Suzanne}, title = {An Intelligent Interface for Integrating Climate, Hydrology, Agriculture, and Socioeconomic Models}, booktitle = {ACM 24th International Conference on Intelligent User Interfaces (IUI'19)}, year = {2019}, pages = {111--112}, doi = {10.1145/3308557.3308711}, note = {Funding Acknowledgments: DARPA W911NF-18-1-0027} } - Lyons, E., Papadimitriou, G., Wang, C., Thareja, K., Ruth, P., Villalobos, J. J., Rodero, I., Deelman, E., Zink, M., & Mandal, A. (2019). Toward a Dynamic Network-centric Distributed Cloud Platform for Scientific Workflows: A Case Study for Adaptive Weather Sensing. 15th International Conference on EScience (EScience), 67–76. https://doi.org/10.1109/eScience.2019.00015 (Funding Acknowledgments: NSF 1826997)
[BibTex]@inproceedings{lyons-escience-2019, title = {Toward a Dynamic Network-centric Distributed Cloud Platform for Scientific Workflows: A Case Study for Adaptive Weather Sensing}, author = {Lyons, Eric and Papadimitriou, George and Wang, Cong and Thareja, Komal and Ruth, Paul and Villalobos, J.J. and Rodero, Ivan and Deelman, Ewa and Zink, Michael and Mandal, Anirban}, booktitle = {15th International Conference on eScience (eScience)}, year = {2019}, location = {San Diego, CA, USA}, pages = {67--76}, doi = {10.1109/eScience.2019.00015}, note = {Funding Acknowledgments: NSF 1826997} } - Mitchell, R., Pottier, L., Jacobs, S., Ferreira da Silva, R., Rynge, M., Vahi, K., & Deelman, E. (2019). Exploration of Workflow Management Systems Emerging Features from Users Perspectives. First International Workshop on Big Data Tools, Methods, and Use Cases for Innovative Scientific Discovery (BTSD), 4537–4544. https://doi.org/10.1109/BigData47090.2019.9005494 (Funding Acknowledgments: NSF 1842042)
[BibTex]@inproceedings{mitchell2019btsd, title = {Exploration of Workflow Management Systems Emerging Features from Users Perspectives}, author = {Mitchell, Ryan and Pottier, Lo\"ic and Jacobs, Steve and Ferreira da Silva, Rafael and Rynge, Mats and Vahi, Karan and Deelman, Ewa}, booktitle = {First International Workshop on Big Data Tools, Methods, and Use Cases for Innovative Scientific Discovery (BTSD)}, year = {2019}, pages = {4537--4544}, doi = {10.1109/BigData47090.2019.9005494}, note = {Funding Acknowledgments: NSF 1842042} } - Papadimitriou, G., Kiran, M., Wang, C., Mandal, A., & Deelman, E. (2019). Training Classifiers to Identify TCP Signatures in Scientific Workflows. 2019 IEEE/ACM Innovating the Network for Data-Intensive Science (INDIS), 61–68. https://doi.org/10.1109/INDIS49552.2019.00012 (Funding Acknowledgments: DOE DESC0012636)
[BibTex]@inproceedings{papadimitriou-indis-2019, title = {Training Classifiers to Identify TCP Signatures in Scientific Workflows}, author = {Papadimitriou, George and Kiran, Mariam and Wang, Cong and Mandal, Anirban and Deelman, Ewa}, booktitle = {2019 IEEE/ACM Innovating the Network for Data-Intensive Science (INDIS)}, year = {2019}, location = {Denver, CO, USA}, pages = {61-68}, doi = {10.1109/INDIS49552.2019.00012}, month = nov, note = {Funding Acknowledgments: DOE DESC0012636} } - Pendergrass, S. A., Buyske, S., Jeff, J. M., Frase, A., Dudek, S., Bradford, Y., Ambite, J. L., Avery, C. L., Buzkova, P., Deelman, E., Fesinmeyer, M. D., Haiman, C., Heiss, G., Hindorff, L. A., Hsu, C. N., Jackson, R. D., Lin, Y., Le Marchand, L., Matise, T. C., … Crawford, D. C. (2019). A phenome-wide association study (PheWAS) in the Population Architecture using Genomics and Epidemiology (PAGE) study reveals potential pleiotropy in African Americans. PLoS ONE, 14(12), e0226771. (Funding Acknowledgments: NIH U01HG004801 (Coordinating Center))
[BibTex]@article{pmid31891604, author = {Pendergrass, S. A. and Buyske, S. and Jeff, J. M. and Frase, A. and Dudek, S. and Bradford, Y. and Ambite, J. L. and Avery, C. L. and Buzkova, P. and Deelman, E. and Fesinmeyer, M. D. and Haiman, C. and Heiss, G. and Hindorff, L. A. and Hsu, C. N. and Jackson, R. D. and Lin, Y. and Le Marchand, L. and Matise, T. C. and Monroe, K. R. and Moreland, L. and North, K. E. and Park, S. L. and Reiner, A. and Wallace, R. and Wilkens, L. R. and Kooperberg, C. and Ritchie, M. D. and Crawford, D. C.}, title = {A phenome-wide association study (PheWAS) in the Population Architecture using Genomics and Epidemiology (PAGE) study reveals potential pleiotropy in African Americans}, journal = {PLoS ONE}, year = {2019}, volume = {14}, number = {12}, pages = {e0226771}, note = {Funding Acknowledgments: NIH U01HG004801 (Coordinating Center)} } - Pendergrass, S. A., Buyske, S., Jeff, J. M., Frase, A., Dudek, S., Bradford, Y., Ambite, J.-L., Avery, C. L., Buzkova, P., Deelman, E., & others. (2019). A phenome-wide association study (PheWAS) in the Population Architecture using Genomics and Epidemiology (PAGE) study reveals potential pleiotropy in African Americans. PloS One, 14(12). https://doi.org/10.1371/journal.pone.0226771
[BibTex]@article{pendergrass2019phenome, title = {A phenome-wide association study (PheWAS) in the Population Architecture using Genomics and Epidemiology (PAGE) study reveals potential pleiotropy in African Americans}, author = {Pendergrass, Sarah A and Buyske, Steven and Jeff, Janina M and Frase, Alex and Dudek, Scott and Bradford, Yuki and Ambite, Jose-Luis and Avery, Christy L and Buzkova, Petra and Deelman, Ewa and others}, journal = {PloS one}, volume = {14}, number = {12}, year = {2019}, publisher = {Public Library of Science}, doi = {10.1371/journal.pone.0226771} } - Rodero, I., Qin, Y., Valls, J., Simonet, A., Villalobos, J. J., Parashar, M., Youn, C., Wang, C., Thareja, K., Ruth, P., Papadimitriou, G., Lyons, E., & Zink, M. (2019). Enabling Data Streaming-based Science Gateway through Federated Cyberinfrastructure. Gateways 2019. (Funding Acknowledgments: NSF 1835692, NSF 1745246, NSF 1826997)
[BibTex]@inproceedings{rodero-gateways-2019, title = {Enabling Data Streaming-based Science Gateway through Federated Cyberinfrastructure}, author = {Rodero, Ivan and Qin, Yubo and Valls, Jesus and Simonet, Anthony and Villalobos, J.J. and Parashar, Manish and Youn, Chooban and Wang, Cong and Thareja, Komal and Ruth, Paul and Papadimitriou, George and Lyons, Eric and Zink, Michael}, booktitle = {Gateways 2019}, year = {2019}, location = {San Diego, CA, USA}, pages = {}, doi = {}, note = {Funding Acknowledgments: NSF 1835692, NSF 1745246, NSF 1826997} } - Rynge, M., Vahi, K., Deelman, E., Mandal, A., Baldin, I., Bhide, O., Heiland, R., Welch, V., Hill, R., Poehlman, W. L., & Feltus, F. A. (2019). Integrity Protection for Scientific Workflow Data: Motivation and Initial Experiences. Proceedings of the Practice and Experience in Advanced Research Computing on Rise of the Machines (Learning), 17:1–17:8. https://doi.org/10.1145/3332186.3332222 (Funding Acknowledgments: NSF 1642070, NSF 1642053, NSF 1642090. Best Paper in Advanced Research Computing Software and Applications Track. The Phil Andrews Most Transformative Contribution Award.)
[BibTex]@inproceedings{rynge-pearc-2019, author = {Rynge, Mats and Vahi, Karan and Deelman, Ewa and Mandal, Anirban and Baldin, Ilya and Bhide, Omkar and Heiland, Randy and Welch, Von and Hill, Raquel and Poehlman, William L. and Feltus, F. Alex}, title = {Integrity Protection for Scientific Workflow Data: Motivation and Initial Experiences}, booktitle = {Proceedings of the Practice and Experience in Advanced Research Computing on Rise of the Machines (Learning)}, series = {PEARC '19}, year = {2019}, isbn = {978-1-4503-7227-5}, location = {Chicago, IL, USA}, pages = {17:1--17:8}, articleno = {17}, numpages = {8}, url = {http://doi.acm.org/10.1145/3332186.3332222}, doi = {10.1145/3332186.3332222}, acmid = {3332222}, publisher = {ACM}, address = {New York, NY, USA}, note = {Funding Acknowledgments: NSF 1642070, NSF 1642053, NSF 1642090. Best Paper in Advanced Research Computing Software and Applications Track. The Phil Andrews Most Transformative Contribution Award.} } - Tanaka, R., Casanova, H., & Ferreira da Silva, R. (2019). Teaching Parallel and Distributed Computing Concepts in Simulation with WRENCH. Workshop on Education for High-Performance Computing (EduHPC), 1–9. https://doi.org/10.1109/EduHPC49559.2019.00006 (Funding Acknowledgements: NSF 1642335, NSF 1923539)
[BibTex]@inproceedings{tanaka2019eduhpc, title = {Teaching Parallel and Distributed Computing Concepts in Simulation with WRENCH}, author = {Tanaka, Ryan and Casanova, Henri and Ferreira da Silva, Rafael}, booktitle = {Workshop on Education for High-Performance Computing (EduHPC)}, year = {2019}, volume = {}, number = {}, pages = {1-9}, doi = {10.1109/EduHPC49559.2019.00006}, note = {Funding Acknowledgements: NSF 1642335, NSF 1923539} } - Thomas, S., Wyatt, M., Do, T. M. A., Pottier, L., Ferreira da Silva, R., Weinstein, H., Cuendet, M. A., Estrada, T., Deelman, E., & Taufer, M. (2019). Characterization of In Situ and In Transit Analytics of Molecular Dynamics Simulations for Next-generation Supercomputers. 15th International Conference on EScience (EScience), 188–198. https://doi.org/10.1109/eScience.2019.00027 (Funding Acknowledgments: NSF 1741040)
[BibTex]@inproceedings{thomas-escience-2019, title = {Characterization of In Situ and In Transit Analytics of Molecular Dynamics Simulations for Next-generation Supercomputers}, author = {Thomas, Stephen and Wyatt, Michael and Do, Tu Mai Anh and Pottier, Lo\"ic and Ferreira da Silva, Rafael and Weinstein, Harel and Cuendet, Michel A. and Estrada, Trilce and Deelman, Ewa and Taufer, Michela}, booktitle = {15th International Conference on eScience (eScience)}, year = {2019}, pages = {188--198}, doi = {10.1109/eScience.2019.00027}, note = {Funding Acknowledgments: NSF 1741040} } - Vahi, K., Rynge, M., Papadimitriou, G., Brown, D., Mayani, R., Ferreira da Silva, R., Deelman, E., Mandal, A., Lyons, E., & Zink, M. (2019). Custom Execution Environments with Containers in Pegasus-enabled Scientific Workflows. 15th International Conference on EScience (EScience), 281–290. https://doi.org/10.1109/eScience.2019.00039 (Funding Acknowledgments: NSF 1664162, NSF 1826997, NSF 1443047)
[BibTex]@inproceedings{vahi-escience-2019, title = {Custom Execution Environments with Containers in Pegasus-enabled Scientific Workflows}, author = {Vahi, Karan and Rynge, Mats and Papadimitriou, George and Brown, Duncan and Mayani, Rajiv and Ferreira da Silva, Rafael and Deelman, Ewa and Mandal, Anirban and Lyons, Eric and Zink, Michael}, booktitle = {15th International Conference on eScience (eScience)}, year = {2019}, location = {San Diego, CA, USA}, pages = {281--290}, doi = {10.1109/eScience.2019.00039}, note = {Funding Acknowledgments: NSF 1664162, NSF 1826997, NSF 1443047} } - Vahi, K., Wang, M. H., Chang, C., Dodelson, S., Rynge, M., & Deelman, E. (2019). Workflows using Pegasus: Enabling Dark Energy Survey Pipelines. Astronomical Data Analysis Software and Systems XXVIII, 523, 689–692. (Funding Acknowledgments: NSF 1664162)
[BibTex]@article{2018-vahi-adass-weak-leansing, title = {Workflows using Pegasus: Enabling Dark Energy Survey Pipelines}, author = {Vahi, Karan and Wang, Michael H. and Chang, Chihway and Dodelson, Scott and Rynge, Mats and Deelman, Ewa}, journal = {Astronomical Data Analysis Software and Systems XXVIII}, volume = {523}, year = {2019}, pages = {689--692}, note = {Funding Acknowledgments: NSF 1664162} } - Weitzel, D., Zvada, M., Vukotic, I., Gardner, R. W., Bockelman, B., Rynge, M., Hernandez, E. F., Lin, B., & Selmeci, M. (2019). StashCache: A Distributed Caching Federation for the Open Science Grid. CoRR, abs/1905.06911. http://arxiv.org/abs/1905.06911
[BibTex]@article{DBLP:journals/corr/abs-1905-06911, author = {Weitzel, Derek and Zvada, Mari{\'{a}}n and Vukotic, Ilija and Gardner, Robert W. and Bockelman, Brian and Rynge, Mats and Hernandez, Edgar Fajardo and Lin, Brian and Selmeci, Matyas}, title = {StashCache: {A} Distributed Caching Federation for the Open Science Grid}, journal = {CoRR}, volume = {abs/1905.06911}, year = {2019}, url = {http://arxiv.org/abs/1905.06911}, archiveprefix = {arXiv}, eprint = {1905.06911}, timestamp = {Tue, 28 May 2019 12:48:08 +0200}, biburl = {https://dblp.org/rec/bib/journals/corr/abs-1905-06911}, bibsource = {dblp computer science bibliography, https://dblp.org} } - Wojcik, G. L., Graff, M., Nishimura, K. K., Tao, R., Haessler, J., Gignoux, C. R., Highland, H. M., Patel, Y. M., Sorokin, E. P., Avery, C. L., Belbin, G. M., Bien, S. A., Cheng, I., Cullina, S., Hodonsky, C. J., Hu, Y., Huckins, L. M., Jeff, J., Justice, A. E., … Carlson, C. S. (2019). Genetic analyses of diverse populations improves discovery for complex traits. Nature, 570, 514–518. https://doi.org/10.1038/s41586-019-1310-4
[BibTex]@article{wojcik2019genetic, title = {Genetic analyses of diverse populations improves discovery for complex traits}, author = {Wojcik, Genevieve L and Graff, Mariaelisa and Nishimura, Katherine K and Tao, Ran and Haessler, Jeffrey and Gignoux, Christopher R and Highland, Heather M and Patel, Yesha M and Sorokin, Elena P and Avery, Christy L and Belbin, Gillian M. and Bien, Stephanie A. and Cheng, Iona and Cullina, Sinead and Hodonsky, Chani J. and Hu, Yao and Huckins, Laura M. and Jeff, Janina and Justice, Anne E. and Kocarnik, Jonathan M. and Lim, Unhee and Lin, Bridget M. and Lu, Yingchang and Nelson, Sarah C. and Park, Sung-Shim L. and Poisner, Hannah and Preuss, Michael H. and Richard, Melissa A. and Schurmann, Claudia and Setiawan, Veronica W. and Sockell, Alexandra and Vahi, Karan and Verbanck, Marie and Vishnu, Abhishek and Walker, Ryan W. and Young, Kristin L. and Zubair, Niha and Acuña-Alonso, Victor and Ambite, Jose Luis and Barnes, Kathleen C. and Boerwinkle, Eric and Bottinger, Erwin P. and Bustamante, Carlos D. and Caberto, Christian and Canizales-Quinteros, Samuel and Conomos, Matthew P. and Deelman, Ewa and Do, Ron and Doheny, Kimberly and Fernández-Rhodes, Lindsay and Fornage, Myriam and Hailu, Benyam and Heiss, Gerardo and Henn, Brenna M. and Hindorff, Lucia A. and Jackson, Rebecca D. and Laurie, Cecelia A. and Laurie, Cathy C. and Li, Yuqing and Lin, Dan-Yu and Moreno-Estrada, Andres and Nadkarni, Girish and Norman, Paul J. and Pooler, Loreall C. and Reiner, Alexander P. and Romm, Jane and Sabatti, Chiara and Sandoval, Karla and Sheng, Xin and Stahl, Eli A. and Stram, Daniel O. and Thornton, Timothy A. and Wassel, Christina L. and Wilkens, Lynne R. and Winkler, Cheryl A. and Yoneyama, Sachi and Buyske, Steven and Haiman, Christopher A. and Kooperberg, Charles and Marchand, Le and Loos, Ruth J. F. and Matise, Tara C. and North, Kari E. and Peters, Ulrike and Kenny, Eimear E. and Carlson, Christopher S.}, journal = {Nature}, volume = {570}, pages = {514--518}, year = {2019}, publisher = {Nature Publishing Group}, doi = {10.1038/s41586-019-1310-4} }
2018
- Bhide, O., Hill, R., Vahi, K., Rynge, M., & Velch, V. (2018). Combating Workflow Failures with Integrity-based Checkpoints and Blockchain. 6th International Workshop on Distributed Storage and Blockchain Technologies for Big Data. (Funding Acknowledgments: NSF 1642070, 1642053, and 1642090)
[BibTex]@inproceedings{2108-bhide-workflows-blockchain, title = {Combating Workflow Failures with Integrity-based Checkpoints and Blockchain}, author = {Bhide, Omkar and Hill, Raquel and Vahi, Karan and Rynge, Mats and Velch, Von}, booktitle = {6th International Workshop on Distributed Storage and Blockchain Technologies for Big Data}, year = {2018}, note = {Funding Acknowledgments: NSF 1642070, 1642053, and 1642090} }