scholarly journals Circuitscape in Julia: Empowering Dynamic Approaches to Connectivity Assessment

Land ◽  
2021 ◽  
Vol 10 (3) ◽  
pp. 301
Author(s):  
Kimberly R. Hall ◽  
Ranjan Anantharaman ◽  
Vincent A. Landau ◽  
Melissa Clark ◽  
Brett G. Dickson ◽  
...  

The conservation field is experiencing a rapid increase in the amount, variety, and quality of spatial data that can help us understand species movement and landscape connectivity patterns. As interest grows in more dynamic representations of movement potential, modelers are often limited by the capacity of their analytic tools to handle these datasets. Technology developments in software and high-performance computing are rapidly emerging in many fields, but uptake within conservation may lag, as our tools or our choice of computing language can constrain our ability to keep pace. We recently updated Circuitscape, a widely used connectivity analysis tool developed by Brad McRae and Viral Shah, by implementing it in Julia, a high-performance computing language. In this initial re-code (Circuitscape 5.0) and later updates, we improved computational efficiency and parallelism, achieving major speed improvements, and enabling assessments across larger extents or with higher resolution data. Here, we reflect on the benefits to conservation of strengthening collaborations with computer scientists, and extract examples from a collection of 572 Circuitscape applications to illustrate how through a decade of repeated investment in the software, applications have been many, varied, and increasingly dynamic. Beyond empowering continued innovations in dynamic connectivity, we expect that faster run times will play an important role in facilitating co-production of connectivity assessments with stakeholders, increasing the likelihood that connectivity science will be incorporated in land use decisions.

Author(s):  
Lucas M. Ponce ◽  
Walter dos Santos ◽  
Wagner Meira ◽  
Dorgival Guedes ◽  
Daniele Lezzi ◽  
...  

Abstract High-performance computing (HPC) and massive data processing (Big Data) are two trends that are beginning to converge. In that process, aspects of hardware architectures, systems support and programming paradigms are being revisited from both perspectives. This paper presents our experience on this path of convergence with the proposal of a framework that addresses some of the programming issues derived from such integration. Our contribution is the development of an integrated environment that integretes (i) COMPSs, a programming framework for the development and execution of parallel applications for distributed infrastructures; (ii) Lemonade, a data mining and analysis tool; and (iii) HDFS, the most widely used distributed file system for Big Data systems. To validate our framework, we used Lemonade to create COMPSs applications that access data through HDFS, and compared them with equivalent applications built with Spark, a popular Big Data framework. The results show that the HDFS integration benefits COMPSs by simplifying data access and by rearranging data transfer, reducing execution time. The integration with Lemonade facilitates COMPSs’s use and may help its popularization in the Data Science community, by providing efficient algorithm implementations for experts from the data domain that want to develop applications with a higher level abstraction.


2017 ◽  
Vol 2 (1) ◽  
pp. 7
Author(s):  
Izzatul Ummah

In this research, we build a grid computing infrastructure by utilizing existing cluster in Telkom University as back-end resources. We used middleware Globus Toolkit 6.0 and Condor 8.4.2 in developing the grid system. We tested the performance of our grid system using parallel matrix multiplication. The result showed that our grid system has achieved good performance. With the implementation of this grid system, we believe that access to high performance computing resources will become easier and the Quality of Service will also be improved.


Author(s):  
Konstantin Volovich

The article is devoted to methods of calculation and evaluation of the effectiveness of the functioning of hybrid computing systems. The article proposes a method of calculating the value of the workload using peak values of the cluster performance. The results and the quality of the functioning of cloud scientific services of high-performance computing using the roofline model are analyzed.


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