Marian Bubak | AGH University of Science and Technology (original) (raw)

Papers by Marian Bubak

Research paper thumbnail of Monitoring Grid Applications with Grid-Enabled OMIS Monitor

Lecture Notes in Computer Science, 2004

... In: Yuen Chung Kwong (ed.): Annual Review of Scalable Computing, 3, Chapter 3, 2001, Singapor... more ... In: Yuen Chung Kwong (ed.): Annual Review of Scalable Computing, 3, Chapter 3, 2001, Singapore. ... Ludwig, T., Wismüller, R., Sunderam, V., and Bode, A.: OMIS – On-line Monitor-ing Interface Specification (Version 2.0). Shaker Verlag, Aachen, vol. ...

Research paper thumbnail of Effective Use of Procedural Shaders in Animated Scenes

Untitled Event, 2004

Complex procedural shaders are commonly used to enrich the appearance of high-quality computer an... more Complex procedural shaders are commonly used to enrich the appearance of high-quality computer animations. In traditional rendering architectures the shading computation is performed independently for each animation frame which leads to significant costs. In this paper we propose an approach which eliminates redundant computation between subsequent frames by exploiting temporal coherence in shading. The shading computation is decomposed into view-dependent and viewindependent parts and the results of the latter one are shared by a number of subsequent frames. This leads to a significant improvement of the computation performance. Also, the visual quality of resulting animations is much better due to the reduction of temporal aliasing in shading patterns.

Research paper thumbnail of Dedicated IT infrastructure for Smart Levee Monitoring and Flood Decision Support

E3S web of conferences, 2016

Smart levees are being increasingly investigated as a flood protection technology. However, in la... more Smart levees are being increasingly investigated as a flood protection technology. However, in large-scale emergency situations, a flood decision support system may need to collect and process data from hundreds of kilometers of smart levees; such a scenario requires a resilient and scalable IT infrastructure, capable of providing urgent computing services in order to perform frequent data analyses required in decision making, and deliver their results in a timely fashion. We present the ISMOP IT infrastructure for smart levee monitoring, designed to support decision making in large-scale emergency situations. Most existing approaches to urgent computing services in decision support systems dealing with natural disasters focus on delivering quality of service for individual, isolated subsystems of the IT infrastructure (such as computing, storage, or data transmission). We propose a holistic approach to dynamic system management during both urgent (emergency) and normal (non-emergency) operation. In this approach, we introduce a Holistic Computing Controller which calculates and deploys a globally optimal configuration for the entire IT infrastructure, based on cost-of-operation and quality-of-service (QoS) requirements of individual IT subsystems, expressed in the form of Service Level Agreements (SLAs). Our approach leads to improved configuration settings and, consequently, better fulfilment of the system's cost and QoS requirements than would have otherwise been possible had the configuration of all subsystems been managed in isolation.

Research paper thumbnail of 2. Negative feedback inhibition – Fundamental biological regulation in cells and organisms

De Gruyter eBooks, Oct 16, 2015

Research paper thumbnail of On-line performance monitoring using OMIS

Lecture Notes in Computer Science, 1998

ABSTRACT

Research paper thumbnail of Advances in grid computing - EGC 2005 : European grid conference Amsterdam, The Netherlands, February 14-16, 2005 : revised selected papers

Springer eBooks, 2005

This book constitutes the refereed proceedings of the European Grid Conference, EGC 2005, held in... more This book constitutes the refereed proceedings of the European Grid Conference, EGC 2005, held in Amsterdam, The Netherlands in February 2005. Focusing on all aspects of Grid computing and bringing together participants from research and industry, EGC 2005 was a follow-up of the AcrossGrids Conferences held in Santiago de Compostela, Spain (2003) and in Nicosia, Cyprus (2004). The 121 revised papers presented-including the contribution of three invited speakers-were carefully reviewed and selected from over 180 ...

Research paper thumbnail of Performance Measurement Model in the G-PM Tool

Lecture Notes in Computer Science, 2004

This paper focuses on the model of the performance analysis of distributed grid-enabled applicati... more This paper focuses on the model of the performance analysis of distributed grid-enabled applications within the G-PM tool. The major focus is at the issues that arises as a consequence of the on-line application monitoring paradigm the G-PM follows. In particular, two major issues are presented-the consequences of a discrete nature of measuring the function based performance quantities, and the aggregation of performance values that were measured at distant locations, and thus may be desynchronized.

Research paper thumbnail of Towards Provisioning of Reproducible, Reviewable and Reusable In-Silico Experiments with the GridSpace2 Platform

Lecture Notes in Computer Science, 2014

The observed paradigm switch towards computational methods in research poses a serious challenge ... more The observed paradigm switch towards computational methods in research poses a serious challenge for e-infrastructure providers. Apart from delivering computing power, researchers are expected to create the foundation for complete and viable e-science environments. To address this demand, GridSpace2 was developed as a platform for provisioning reproducible, reviewable and reusable in-silico experiments. The resulting environment was applied in the scope of the PLGrid Plus project. In this work we analyze requirements, which should be met by in-silico experiments and describe how these requirements can be accommodated on the platform level, thus decreasing the costs of acquisition, preservation and curation of in-silico experiments. In order to evaluate our approach, we qualitatively assess how the features of GridSpace2 conform to these requirements and how the platform reduces the costs of provisioning in-silico experiments.

Research paper thumbnail of Evaluation of Cloud Providers for VPH Applications

Research paper thumbnail of From Monitoring Data to Experiment Information – Monitoring of Grid Scientific Workflows

Abstract Monitoring of running scientific workflows (experiments) is not only important for obser... more Abstract Monitoring of running scientific workflows (experiments) is not only important for observing their execution status, but also for collecting provenance, improving performance, knowledge extraction, etc. We propose an ontology model of experiment information which describes ...

Research paper thumbnail of Proceedings of the 8th International Conference on High-Performance Computing and Networking

Research paper thumbnail of Proceedings of the 2005 European conference on Advances in Grid Computing

Google, Inc. (search). ...

Research paper thumbnail of Performance monitoring of Grid superscalar with OCM-G/G-PM: visualization modes

Research paper thumbnail of Cracow'07 Grid Workshop: October 15-17, 2007 Cracow, Poland: proceedings

Research paper thumbnail of The knowledge-based workflow system for grid applications: Cracow grid workshop '06 K-wf grid: October 15-18, 2006 Cracow, Poland: proceedings

Research paper thumbnail of Ocm-based tools for performance monitoring of message passing applications, Amsterdam, The Netherlands

Lecture Notes in Computer Science, 1999

ABSTRACT

Research paper thumbnail of Integrating the GridSpace Virtual Laboratory with EGEE storage services

eChallenges Conference, Oct 1, 2010

... Nawojki 11, 30-950 Krakόw, Poland Tel: 848126323355, Fax: 848126341084, Email: p.nowakowski;c... more ... Nawojki 11, 30-950 Krakόw, Poland Tel: 848126323355, Fax: 848126341084, Email: p.nowakowski;cyfronet.pl 2Institute of ... In Tony Solomonides, Martin HofmannYApitius, Mathias Fredigmann, Sebastian caludius Semler, Yannic Legre, and Mary Kratz: Healthgrid Research ...

Research paper thumbnail of Flexible and Secure Access to Computing Clusters

Research paper thumbnail of Cracow '08 Grid Workshop, October 13-15, 2008, Cracow, Poland: proceedings

Research paper thumbnail of Effect of time slowing in biological ageing

Computer Physics Communications, Aug 1, 2002

The Penna model which accounts for genetic death was applied in computer simulations of populatio... more The Penna model which accounts for genetic death was applied in computer simulations of population growth and ageing. In this paper we assume a biological time scale in which time runs faster for younger individuals than for the old ones. This means that we read out the genome's fraction, later used in the life game, at a greater pace of 4 bits per evolution time step for very young individuals, and 1 bit per iteration for the oldest. This new mechanism, likely to be present in nature, yields some new and interesting aspects concerning the final population characteristics. We found that the partial distribution function p(m) of ‘bad’ mutations m, for groups of same age a, is altered as compared with the standard Penna model. The tendency is that a young population becomes healthier, that is with a smaller portion of youngsters with many bad mutations. This effect is still present yet less pronounced for older individuals. We expect that the main findings may be statistically significant to be observed in real populations. For a typical set of model parameters, calculations on population of the order of one million items requires about 100 MB memory and execution takes a couple of hours for 2 or 3 thousand iterations on the HP EXEMPLAR machine.

Research paper thumbnail of Monitoring Grid Applications with Grid-Enabled OMIS Monitor

Lecture Notes in Computer Science, 2004

... In: Yuen Chung Kwong (ed.): Annual Review of Scalable Computing, 3, Chapter 3, 2001, Singapor... more ... In: Yuen Chung Kwong (ed.): Annual Review of Scalable Computing, 3, Chapter 3, 2001, Singapore. ... Ludwig, T., Wismüller, R., Sunderam, V., and Bode, A.: OMIS – On-line Monitor-ing Interface Specification (Version 2.0). Shaker Verlag, Aachen, vol. ...

Research paper thumbnail of Effective Use of Procedural Shaders in Animated Scenes

Untitled Event, 2004

Complex procedural shaders are commonly used to enrich the appearance of high-quality computer an... more Complex procedural shaders are commonly used to enrich the appearance of high-quality computer animations. In traditional rendering architectures the shading computation is performed independently for each animation frame which leads to significant costs. In this paper we propose an approach which eliminates redundant computation between subsequent frames by exploiting temporal coherence in shading. The shading computation is decomposed into view-dependent and viewindependent parts and the results of the latter one are shared by a number of subsequent frames. This leads to a significant improvement of the computation performance. Also, the visual quality of resulting animations is much better due to the reduction of temporal aliasing in shading patterns.

Research paper thumbnail of Dedicated IT infrastructure for Smart Levee Monitoring and Flood Decision Support

E3S web of conferences, 2016

Smart levees are being increasingly investigated as a flood protection technology. However, in la... more Smart levees are being increasingly investigated as a flood protection technology. However, in large-scale emergency situations, a flood decision support system may need to collect and process data from hundreds of kilometers of smart levees; such a scenario requires a resilient and scalable IT infrastructure, capable of providing urgent computing services in order to perform frequent data analyses required in decision making, and deliver their results in a timely fashion. We present the ISMOP IT infrastructure for smart levee monitoring, designed to support decision making in large-scale emergency situations. Most existing approaches to urgent computing services in decision support systems dealing with natural disasters focus on delivering quality of service for individual, isolated subsystems of the IT infrastructure (such as computing, storage, or data transmission). We propose a holistic approach to dynamic system management during both urgent (emergency) and normal (non-emergency) operation. In this approach, we introduce a Holistic Computing Controller which calculates and deploys a globally optimal configuration for the entire IT infrastructure, based on cost-of-operation and quality-of-service (QoS) requirements of individual IT subsystems, expressed in the form of Service Level Agreements (SLAs). Our approach leads to improved configuration settings and, consequently, better fulfilment of the system's cost and QoS requirements than would have otherwise been possible had the configuration of all subsystems been managed in isolation.

Research paper thumbnail of 2. Negative feedback inhibition – Fundamental biological regulation in cells and organisms

De Gruyter eBooks, Oct 16, 2015

Research paper thumbnail of On-line performance monitoring using OMIS

Lecture Notes in Computer Science, 1998

ABSTRACT

Research paper thumbnail of Advances in grid computing - EGC 2005 : European grid conference Amsterdam, The Netherlands, February 14-16, 2005 : revised selected papers

Springer eBooks, 2005

This book constitutes the refereed proceedings of the European Grid Conference, EGC 2005, held in... more This book constitutes the refereed proceedings of the European Grid Conference, EGC 2005, held in Amsterdam, The Netherlands in February 2005. Focusing on all aspects of Grid computing and bringing together participants from research and industry, EGC 2005 was a follow-up of the AcrossGrids Conferences held in Santiago de Compostela, Spain (2003) and in Nicosia, Cyprus (2004). The 121 revised papers presented-including the contribution of three invited speakers-were carefully reviewed and selected from over 180 ...

Research paper thumbnail of Performance Measurement Model in the G-PM Tool

Lecture Notes in Computer Science, 2004

This paper focuses on the model of the performance analysis of distributed grid-enabled applicati... more This paper focuses on the model of the performance analysis of distributed grid-enabled applications within the G-PM tool. The major focus is at the issues that arises as a consequence of the on-line application monitoring paradigm the G-PM follows. In particular, two major issues are presented-the consequences of a discrete nature of measuring the function based performance quantities, and the aggregation of performance values that were measured at distant locations, and thus may be desynchronized.

Research paper thumbnail of Towards Provisioning of Reproducible, Reviewable and Reusable In-Silico Experiments with the GridSpace2 Platform

Lecture Notes in Computer Science, 2014

The observed paradigm switch towards computational methods in research poses a serious challenge ... more The observed paradigm switch towards computational methods in research poses a serious challenge for e-infrastructure providers. Apart from delivering computing power, researchers are expected to create the foundation for complete and viable e-science environments. To address this demand, GridSpace2 was developed as a platform for provisioning reproducible, reviewable and reusable in-silico experiments. The resulting environment was applied in the scope of the PLGrid Plus project. In this work we analyze requirements, which should be met by in-silico experiments and describe how these requirements can be accommodated on the platform level, thus decreasing the costs of acquisition, preservation and curation of in-silico experiments. In order to evaluate our approach, we qualitatively assess how the features of GridSpace2 conform to these requirements and how the platform reduces the costs of provisioning in-silico experiments.

Research paper thumbnail of Evaluation of Cloud Providers for VPH Applications

Research paper thumbnail of From Monitoring Data to Experiment Information – Monitoring of Grid Scientific Workflows

Abstract Monitoring of running scientific workflows (experiments) is not only important for obser... more Abstract Monitoring of running scientific workflows (experiments) is not only important for observing their execution status, but also for collecting provenance, improving performance, knowledge extraction, etc. We propose an ontology model of experiment information which describes ...

Research paper thumbnail of Proceedings of the 8th International Conference on High-Performance Computing and Networking

Research paper thumbnail of Proceedings of the 2005 European conference on Advances in Grid Computing

Google, Inc. (search). ...

Research paper thumbnail of Performance monitoring of Grid superscalar with OCM-G/G-PM: visualization modes

Research paper thumbnail of Cracow'07 Grid Workshop: October 15-17, 2007 Cracow, Poland: proceedings

Research paper thumbnail of The knowledge-based workflow system for grid applications: Cracow grid workshop '06 K-wf grid: October 15-18, 2006 Cracow, Poland: proceedings

Research paper thumbnail of Ocm-based tools for performance monitoring of message passing applications, Amsterdam, The Netherlands

Lecture Notes in Computer Science, 1999

ABSTRACT

Research paper thumbnail of Integrating the GridSpace Virtual Laboratory with EGEE storage services

eChallenges Conference, Oct 1, 2010

... Nawojki 11, 30-950 Krakόw, Poland Tel: 848126323355, Fax: 848126341084, Email: p.nowakowski;c... more ... Nawojki 11, 30-950 Krakόw, Poland Tel: 848126323355, Fax: 848126341084, Email: p.nowakowski;cyfronet.pl 2Institute of ... In Tony Solomonides, Martin HofmannYApitius, Mathias Fredigmann, Sebastian caludius Semler, Yannic Legre, and Mary Kratz: Healthgrid Research ...

Research paper thumbnail of Flexible and Secure Access to Computing Clusters

Research paper thumbnail of Cracow '08 Grid Workshop, October 13-15, 2008, Cracow, Poland: proceedings

Research paper thumbnail of Effect of time slowing in biological ageing

Computer Physics Communications, Aug 1, 2002

The Penna model which accounts for genetic death was applied in computer simulations of populatio... more The Penna model which accounts for genetic death was applied in computer simulations of population growth and ageing. In this paper we assume a biological time scale in which time runs faster for younger individuals than for the old ones. This means that we read out the genome's fraction, later used in the life game, at a greater pace of 4 bits per evolution time step for very young individuals, and 1 bit per iteration for the oldest. This new mechanism, likely to be present in nature, yields some new and interesting aspects concerning the final population characteristics. We found that the partial distribution function p(m) of ‘bad’ mutations m, for groups of same age a, is altered as compared with the standard Penna model. The tendency is that a young population becomes healthier, that is with a smaller portion of youngsters with many bad mutations. This effect is still present yet less pronounced for older individuals. We expect that the main findings may be statistically significant to be observed in real populations. For a typical set of model parameters, calculations on population of the order of one million items requires about 100 MB memory and execution takes a couple of hours for 2 or 3 thousand iterations on the HP EXEMPLAR machine.