User-Steering Phylogenetic Workflows in the Cloud – Windows Azure for Research Proposal
This research project aims at helping monitoring large-scale parallel execution of bioinformatics phylogenetic analysis workflow in the cloud. These workflows may be deployed as services and its real-time provenance can be queried during the execution so that the scientist can take actions like staging out part of the results such as a phylogenetic tree for visualization.
Start year: 2014
Team members: Marta Lima de Queiros Mattoso ; Kary A. C. S. Ocaña ; Daniel Oliveira .
Sponsor: Microsoft Corporation
TargFlow: Discovery of Potential Targets for New Drug Designs through Scientific Workflows
This project concerns provenance data management in large scale scientific experiments utilizing Scientific Workflow Management Systems. This is a post-doctor position project held by Dr. Kary Ocaña and mentored by Dr. Marta Mattoso.
Start year: 2013
Team members: Marta Lima de Queiros Mattoso ; Kary A. C. S. Ocaña .
GExProv – Scientific Experiments Management Driven by Provenance Data
Evolution of Computer Science in last decades has enabled exploration of new types of scientific experiments based on simulations supported by computers. Those experiments are commonly known as Scientific Experiments. Due to hardware performance progression, it is possible to increase complexity of simulation models utilized in scientific experiments. In addition, data availability has also been growing, which augments even more the complexity of scientific experiments. Computing technologies successfully utilized in business problems have been adapted to support complex scientific experiments. Two examples are databases and workflow systems. Database researchers are focusing on finding efficient ways to solve the scientific data management problem in harmony with the processes that analyze, transform and generate even more data. Scientific discovery based on extensive data utilization was pointed out as the fourth pillar of science. A typical scientific experiment involves the execution of linked programs multiple times, exploring each program’s parameters. Supporting the execution management of these linked programs previews a systematic evaluation of parameters and test cases. Furthermore, provenance data registers execution steps of linked programs associated with generated data, enabling an overall analysis on the general behavior of the entire execution. In a long run, there will be an execution parameter database for global analysis and for guiding future executions.
Start year: 2012
Team members: Marta Lima de Queiros Mattoso ; Kary A. C. S. Ocaña ; Leonardo Murta ; Guilherme Horta Travassos ; Alexandre de Assis Bento Lima ; Vanessa Braganholo .
Sponsor: FAPERJ; Grandes Desafios
HOSCAR – High Performance Computing and Scientific Data Management Driven by Highly Demanding Applications
The HOSCAR project is a CNPq – INRIA collaborative project between Brazilian and French researchers, in the field of computational sciences. The project is also sponsored by the French Embassy in Brazil. The general objective of the project is to setup a multidisciplinary Brazil-France collaborative effort for taking full benefits of future high-performance massively parallel architectures. The targets are the very large-scale datasets and numerical simulations relevant to a selected set of applications in natural sciences: (i) resource prospection, (ii) reservoir simulation, (iii) ecological modeling, (iv) astronomy data management, and (v) simulation data management. The project involves computer scientists and numerical mathematicians divided in 3 fundamental research groups: (i) numerical schemes for PDE models (Group 1), (ii) scientific data management (Group 2), and (iii) high-performance software systems (Group 3). Several Brazilian institutions are participating to the project among which: LNCC (Laboratório Nacional de Computação Científica), COPPE/UFRJ (Instituto Alberto Luiz Coimbra de Pós-Graduação e Pesquisa de Engenharia/Alberto Luiz Coimbra Institute for Graduate Studies and Research in Engineering, Universidade Federal do Rio de Janeiro), INF/UFRGS (Instituto de Informática, Universidade Federal do Rio Grande do Sul) and LIA/UFC (Laboratórios de Pesquisa em Ciência da Computação Departamento de Computação, Universidade Federal do Ceará). The French partners are research teams from several INRIA research centers.
Start year: 2012
Team members: Marta Lima de Queiros Mattoso ; Fabio Porto ; Philippe Olivier Alexandre Navaux ; Pedro Leite da Silva Dias ; Stéphane Lanteri ; Rossana Andrade ; Antônio Tadeu Gomes .
Sponsors: Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq) / Institut National de Recherche en Informatique et en Automatique