cclpapers.bib

%% This file was generated automatically from the CCL web page:
%% http://www.cse.nd.edu/~ccl/research/papers/bibtex.php

@inproceedings {
automated-packaging-works13,
author = "Casey Robinson and Douglas Thain",
title = "{Automated Packaging of Bioinformatics Workflows for Portability and Durability Using Makeflow}",
booktitle = "{WORKS13}",
year = 2013,
cclpaperid = "899"
}

@inproceedings {
confuga-discs2013,
author = "Patrick Donnelly and Douglas Thain",
title = "{Design of an Active Storage Cluster File System for DAG Workflows}",
booktitle = "{International Workshop on Data-Intensive Scalable Computing Systems}",
year = 2013,
cclpaperid = "900"
}

@inproceedings {
wqh-cluster13,
author = "Michael Albrecht and Dinesh Rajan and Douglas Thain",
title = "{Making Work Queue Cluster-Friendly for Data Intensive Scientific Applications }",
booktitle = "{IEEE International Conference on Cluster Computing}",
year = 2013,
cclpaperid = "898"
}

@thesis {
PAPER896,
author = "Li Yu",
title = "{Right-sizing Resource Allocations for Scientific Applications in Clusters, Grids, and Clouds}",
editor = "Ph.D. Thesis",
booktitle = "{University of Notre Dame}",
year = 2013,
cclpaperid = "896"
}

@inproceedings {
casestudies-ccgrid13,
author = "Dinesh Rajan and Andrew Thrasher and Badi Abdul-Wahid and Jesus A Izaguirre and Scott Emrich and Douglas Thain",
title = "{Case Studies in Designing Elastic Applications}",
booktitle = "{ 13th IEEE/ACM International Symposium on Cluster, Cloud and Grid Computing (CCGrid)}",
year = 2013,
cclpaperid = "893"
}

@techreport {
search-tr,
author = "Brenden Kokoszka and Patrick Donnelly and Douglas Thain",
title = "{Search Should be a System Call}",
institution = "{University of Notre Dame, Computer Science and Engineering Department}",
number = "2013-03",
year = 2013,
cclpaperid = "894"
}

@article {
assembly-tpds,
author = "Christopher Moretti and Andrew Thrasher and Li Yu and Michael Olson and Scott Emrich and Douglas Thain",
title = "{A Framework for Scalable Genome Assembly on Clusters, Clouds, and Grids}",
journal = "{IEEE Transactions on Parallel and Distributed Systems}",
volume = "23",
number = "12",
year = 2012,
cclpaperid = "100"
}

@inproceedings {
folding-escience12,
author = "Badi Abdul-Wahid and Li Yu and Dinesh Rajan and Haoyun Feng and Eric Darve and Douglas Thain and Jesus A. Izaguirre",
title = "{Folding Proteins at 500 ns/hour with Work Queue}",
booktitle = "{8th IEEE International Conference on eScience (eScience 2012)}",
year = 2012,
cclpaperid = "891"
}

@inproceedings {
psempoli-escience12,
author = "Peter Sempolinski and Daniel Wei and Douglas Thain and Ahsan Kareem",
title = "{A System for Management of Computational Fluid Dynamics Simulations for Civil Engineering}",
booktitle = "{8th IEEE International Conference on eScience}",
year = 2012,
cclpaperid = "892"
}

@article {
PAPER890,
author = "Hoang Bui and Peter Bui and Patrick Flynn and Douglas Thain",
title = "{ROARS: A Robust Object Archival System for Data Intensive Scientific Computing}",
journal = "{Distributed and Parallel Databases}",
publisher = "Springer",
year = 2012,
cclpaperid = "890"
}

@thesis {
pbui-dissertation.pdf,
author = "Peter Bui",
title = "{A Compiler Toolchain For Data Intensive Scientific Workflows}",
editor = "Ph.D. Thesis",
booktitle = "{University of Notre Dame}",
year = 2012,
cclpaperid = "889"
}

@inproceedings {
chirp-tickets-ccgrid12,
author = "Patrick Donnelly and Douglas Thain",
title = "{Fine-Grained Access Control in the Chirp Distributed File System}",
booktitle = "{IEEE/ACM International Symposium on Cluster, Cloud, and Grid Computing}",
year = 2012,
cclpaperid = "101"
}

@inproceedings {
makeflow-sweet12,
author = "Michael Albrecht and Patrick Donnelly and Peter Bui and Douglas Thain",
title = "{Makeflow: A Portable Abstraction for Data Intensive Computing on Clusters, Clouds, and Grids}",
booktitle = "{Workshop on Scalable Workflow Enactment Engines and Technologies (SWEET) at ACM SIGMOD}",
year = 2012,
cclpaperid = "104"
}

@thesis {
hbui-dissertation,
author = "Hoang Bui",
title = "{A Rich Metadata Filesystem for Scientific Data}",
editor = "Ph.D. Thesis",
booktitle = "{University of Notre Dame}",
year = 2012,
cclpaperid = "105"
}

@inproceedings {
maker-iccabs12,
author = "Andrew Thrasher and Zachary Musgrave and Douglas Thain and Scott Emrich",
title = "{Shifting the Bioinformatics Computing Paradigm: A Case Study in  Parallelizing Genome Annotation Using Maker and Work Queue}",
booktitle = "{IEEE International Conference on Computational Advances in Bio and Medical Sciences}",
year = 2012,
cclpaperid = "102"
}

@incollection {
chirp-didc-chapter,
author = "Douglas Thain and Michael Albrecht and Hoang Bui and Peter Bui and Rory Carmichael and Scott Emrich and Patrick Flynn",
title = "{Data Intensive Computing with Clustered Chirp Servers}",
editor = "Tevfik Kosar",
booktitle = "{Data Intensive Distributed Computing: Challenges and Solutions for Large Scale Information Management}",
pages = "140-154",
publisher = "IGI",
year = 2012,
cclpaperid = "99"
}

@article {
biocompute-ccpe,
author = "Rory Carmichael and Patrick Braga-Henebry and Douglas Thain and Scott Emrich",
title = "{Biocompute 2.0: An Improved Collaborative Workspace for Data Intensive Bio-Science.}",
journal = "{Concurrency and Computation: Practice and Experience}",
volume = "23",
number = "17",
pages = "2305-2314",
year = 2011,
cclpaperid = "96"
}

@inproceedings {
elasticrepex-cloudcom11,
author = "Dinesh Rajan and Anthony Canino and Jesus A Izaguirre and Douglas Thain",
title = "{Converting a High Performance Application to an Elastic Cloud Application}",
booktitle = "{The 3rd IEEE International Conference on Cloud Computing Technology and Science (CloudCom 2011)}",
year = 2011,
cclpaperid = "93"
}

@inproceedings {
wq-python-pyhpc2011,
author = "Peter Bui and Dinesh Rajan and Badi Abdul-Wahid and Jesus Izaguirre and Douglas Thain",
title = "{Work Queue + Python: A Framework For Scalable Scientific Ensemble Applications}",
booktitle = "{Workshop on Python for High Performance and Scientific Computing (PyHPC) at the ACM/IEEE International Conference for High Performance Computing, Networking, Storage, and Analysis (Supercomputing) }",
year = 2011,
cclpaperid = "95"
}

@article {
weaver-ccpe,
author = "Peter Bui and Li Yu and Andrew Thrasher and Rory Carmichael and Irena Lanc and Patrick Donnelly and Douglas Thain",
title = "{Scripting distributed scientific workflows using Weaver}",
journal = "{Concurrency and Computation: Practice and Experience}",
year = 2011,
cclpaperid = "98"
}

@inproceedings {
adapting-ecmls11,
author = "Irena Lanc and Peter Bui and Douglas Thain and Scott Emrich",
title = "{Adapting Bioinformatics Applications for Heterogeneous Systems: A Case Study}",
booktitle = "{Emerging Computational Methods for the Life Sciences Workshop at ACM HPDC}",
pages = "7-13",
year = 2011,
cclpaperid = "94"
}

@incollection {
cloud-chapter,
author = "Peter Sempolinski and Douglas Thain",
title = "{An Introductino to Open-Source IaaS Cloud Middleware}",
editor = "Boualem Benatallah",
booktitle = "{Cloud Computing: Methodology, Systems, and Applications}",
pages = "133-149",
publisher = "CRC Press",
year = 2011,
cclpaperid = "895"
}

@inproceedings {
survey-cloudCom2010,
author = "Peter Sempolinski and Douglas Thain",
title = "{A Comparison and Critique of Eucalyptus, OpenNebula and Nimbus}",
booktitle = "{IEEE International Conference on Cloud Computing Technology and Science}",
pages = "417-426",
year = 2010,
cclpaperid = "89"
}

@inproceedings {
chirp+parrot+hdfs,
author = "Patrick Donnelly and Peter Bui and Douglas Thain",
title = "{Attaching Cloud Storage to a Campus Grid Using Parrot, Chirp, and Hadoop }",
booktitle = "{IEEE International Conference on Cloud Computing Technology and Science}",
pages = "488-495",
year = 2010,
cclpaperid = "90"
}

@inproceedings {
taming-works10.pdf,
author = "Andrew Thrasher and Rory Carmichael and Peter Bui and Li Yu and Douglas Thain and Scott Emrich",
title = "{Taming Complex Bioinformatics Workflows with Weaver, Makeflow, and Starch}",
booktitle = "{Workshop on Workflows in Support of Large Scale Science}",
pages = "1-6",
year = 2010,
cclpaperid = "92"
}

@article {
abstr-jcc,
author = "Li Yu and Christopher Moretti and Andrew Thrasher and Scott Emrich and Kenneth Judd and Douglas Thain",
title = "{Harnessing Parallelism in Multicore Clusters with the All-Pairs, Wavefront, and Makeflow Abstractions}",
journal = "{Journal of Cluster Computing}",
volume = "13",
number = "3",
pages = "243-256",
year = 2010,
cclpaperid = "83"
}

@inproceedings {
eoc-green,
author = "Paul Brenner and Ryan Jansen and David Go and Douglas Thain",
title = "{Environmentally Opportunistic Computing: Transforming the Data Center for Economic and Environmental Sustainability}",
booktitle = "{IEEE Green Computing Conference}",
pages = "383-388",
year = 2010,
cclpaperid = "97"
}

@incollection {
abstr-cloudbook,
author = "Douglas Thain and Christopher Moretti",
title = "{Abstractions for Cloud Computing with Condor}",
editor = "Syed Ahson and Mohammad Ilyas",
booktitle = "{Cloud Computing and Software Services: Theory and Techniques}",
pages = "153-171",
publisher = "CRC Press",
year = 2010,
cclpaperid = "78"
}

@inproceedings {
roars-didc10,
author = "Hoang Bui and Peter Bui and Patrick Flynn and Douglas Thain",
title = "{ROARS: A Scalable Repository for Data Intensive Scientific Computing}",
booktitle = "{The Third International Workshop on Data Intensive Distributed Computing at ACM HPDC 2010}",
year = 2010,
cclpaperid = "85"
}

@inproceedings {
weaver-clade10,
author = "Peter Bui and Li Yu and Douglas Thain",
title = "{Weaver: Integrating Distributed Computing Abstractions into Scientific Workflows using Python}",
booktitle = "{Challenges of Large Applications in Distributed Environments at ACM HPDC 2010}",
year = 2010,
cclpaperid = "86"
}

@inproceedings {
quality-didc10,
author = "Hoang Bui and Diane Wright and Clarence Helm and Rachel Witty and Patrick Flynn and Douglas Thain",
title = "{Towards Long Term Data Quality in a Large Scale Biometrics Experiment}",
booktitle = "{Managing Data Quality for Collaborative Science at ACM HPDC 2010}",
year = 2010,
cclpaperid = "87"
}

@thesis {
moretti-dissertation,
author = "Christopher Moretti",
title = "{Abstractions for Scientific Computing on Campus Grids}",
editor = "Ph.D. Thesis",
booktitle = "{University of Notre Dame}",
year = 2010,
cclpaperid = "88"
}

@inproceedings {
biocompute-ecmls,
author = "Rory Carmichael and Patrick Braga-Henebry and Douglas Thain and Scott Emrich",
title = "{Biocompute: Toward a Collaborative Workspace for Data Intensive Bio-Science}",
booktitle = "{Workshop on Emerging Computational Methods for Life Sciences at ACM HPDC 2010}",
pages = "489-498",
year = 2010,
cclpaperid = "91"
}

@article {
allpairs-tpds,
author = "Christopher Moretti and Hoang Bui and Karen Hollingsworth and Brandon Rich and Patrick Flynn and Douglas Thain",
title = "{All-Pairs: An Abstraction for Data Intensive Computing on Campus Grids}",
journal = "{IEEE Transactions on Parallel and Distributed Systems}",
volume = "21",
number = "1",
pages = "33-46",
year = 2010,
cclpaperid = "12"
}

@article {
threadscope-ccpe09,
author = "Kyle Wheeler and Douglas Thain",
title = "{Visualizing Massively Multithreaded Applications with ThreadScope}",
journal = "{to appear in Concurrency and Computation: Practice and Experience}",
volume = "22",
number = "1",
pages = "45-67",
year = 2010,
cclpaperid = "59"
}

@incollection {
raicu-manytask-chapter,
author = "Ioan Raicu and Ian Foster and Yong Zhao and Alex Szalay and Philip Little and Christopher Moretti and Amitabh Chaudhary and Douglas Thain",
title = "{Towards Data Intensive Many Task Computing}",
editor = "Tevfik Kosar",
booktitle = "{Data Intensive Distributed Computing: Challenges and Solutions for Large-Scale Information Management}",
publisher = "IGI",
year = 2009,
cclpaperid = "80"
}

@thesis {
wheeler-thesis,
author = "Kyle Wheeler",
title = "{Exploiting Locality with QThreads for Portable Parallel Performance}",
editor = "Ph.D. Thesis",
booktitle = "{University of Notre Dame}",
year = 2009,
cclpaperid = "81"
}

@inproceedings {
assembly-mtags09,
author = "Christopher Moretti and Michael Olson and Scott Emrich and Douglas Thain",
title = "{Highly Scalable Genome Assembly on Campus Grids}",
booktitle = "{Many-Task Computing on Grids and Supercomputers (MTAGS)}",
year = 2009,
cclpaperid = "82"
}

@article {
modularity-spe,
author = "Andrew Blaich and Douglas Thain and Aaron Striegel",
title = "{Reflections on the Virtues of Modularity: A Case Study in Linux Security Modules}",
journal = "{Software: Practice and Experience}",
volume = "39",
number = "15",
pages = "1235-1251",
year = 2009,
cclpaperid = "11"
}

@inproceedings {
teamtrak-adhocnets,
author = "Jeffrey Hemmes and Douglas Thain and Christian Poellabauer",
title = "{Cooperative Localization in GPS-Limited Urban Environments}",
booktitle = "{ICST AdHocNets}",
year = 2009,
cclpaperid = "61"
}

@inproceedings {
multicore-grid09,
author = "Michael Lammie and Douglas Thain and Paul Brenner",
title = "{Scheduling Grid Workloads on Multicore Clusters to Minimize Energy and Maximize Performance}",
booktitle = "{IEEE Grid Computing}",
year = 2009,
cclpaperid = "75"
}

@inproceedings {
qthreads-pmea09,
author = "Kyle Wheeler and Douglas Thain and Rich Murphy",
title = "{Portable Performance from Workstation to Supercomputer: Distributing Data Structures with Qthreads}",
booktitle = "{Workshop on Programming Models for Emerging Architectures}",
pages = "1-8",
year = 2009,
cclpaperid = "76"
}

@incollection {
kosar-databook,
author = "T. Kosar and A. Hutanu and J. McLaren and D. Thain",
title = "{Coordination of Access to Large-scale Datasets in Distributed Environments}",
editor = "A. Shoshani and D. Rotem",
booktitle = "{Scientific Data Management: Challenges, Existing Technology, and Deployment}",
publisher = "Chapman and Hall / CRC Press",
year = 2009,
cclpaperid = "8"
}

@techreport {
assembly-tr,
author = "Christopher Moretti and Michael Olson and Scott Emrich and Douglas Thain",
title = "{Scalable Modular Genome Assembly on Campus Grids}",
institution = "{University of Notre Dame, Computer Science and Engineering Department}",
number = "2009-04",
year = 2009,
cclpaperid = "77"
}

@thesis {
jhemmes-thesis,
author = "Jeffrey Hemmes",
title = "{Improving Data Availability in Mobile Applications Through Enhanced Cooperative Localization}",
editor = "Ph.D. Thesis",
booktitle = "{University of Notre Dame}",
year = 2009,
cclpaperid = "79"
}

@inproceedings {
abstr-hpdc09,
author = "Li Yu and Christopher Moretti and Scott Emrich and Kenneth Judd and Douglas Thain",
title = "{Harnessing Parallelism in Multicore Clusters with the All-Pairs and Wavefront Abstractions}",
booktitle = "{IEEE High Performance Distributed Computing}",
pages = "1-10",
year = 2009,
cclpaperid = "5"
}

@inproceedings {
gheat-uptime09,
author = "Paul Brenner and Douglas Thain and Dewitt Latimer",
title = "{Grid Heating Clusters: Transforming Cooling Constraints Into Thermal Benefits}",
booktitle = "{The Uptime Institute Green Enterprise IT Award Paper}",
pages = "1-7",
year = 2009,
cclpaperid = "60"
}

@inproceedings {
parrot-chep09,
author = "Gabrielle Compostella and Simone Pagan Griso and Donatella Lucchesi and Igor Sfiligoi and Douglas Thain",
title = "{CDF Software Distribution on the Grid using Parrot}",
booktitle = "{Computing in High Energy Physics}",
year = 2009,
cclpaperid = "22"
}

@thesis {
pbh-thesis,
author = "Patrick Braga-Henebry",
title = "{Biocompute: Harnessing Distributed Systems for Bioinformatics}",
editor = "B.S. Honors Thesis",
booktitle = "{University of Notre Dame}",
year = 2009,
cclpaperid = "64"
}

@article {
bxgrid-jcc,
author = "Hoang Bui and Michael Kelly and Christopher Lyon and Mark Pasquier and Deborah Thomas and Patrick Flynn and Douglas Thain",
title = "{Experience with BXGrid: A Data Repository and Computing Grid for Biometrics Research}",
journal = "{Journal of Cluster Computing}",
volume = "12",
number = "4",
pages = "373",
year = 2009,
cclpaperid = "1"
}

@article {
chirp-jgc,
author = "Douglas Thain and Christopher Moretti and Jeffrey Hemmes",
title = "{Chirp: A Practical Global Filesystem for Cluster and Grid Computing}",
journal = "{Journal of Grid Computing}",
volume = "7",
number = "1",
pages = "51-72",
year = 2009,
cclpaperid = "14"
}

@inproceedings {
bxgrid-escience09,
author = "Hoang Bui and Deborah Thomas and Michael Kelly and Christopher Lyon and Douglas Thain and Patrick J. Flynn",
title = "{Poster: BXGrid: A Data Repository and Workflow Abstraction for Biometrics Research}",
booktitle = "{IEEE International Conference on e-Science}",
pages = "394-395",
year = 2008,
cclpaperid = "24"
}

@inproceedings {
classify-icdm08,
author = "Christopher Moretti and Karsten Steinhaeuser and Douglas Thain and Nitesh V. Chawla",
title = "{Scaling Up Classifiers to Cloud Computers}",
booktitle = "{IEEE International Conference on Data Mining (ICDM)}",
pages = "472-481",
year = 2008,
cclpaperid = "25"
}

@article {
pins-jpc,
author = "Paul Brenner and Justin Wozniak and Douglas Thain Aaron Striegel and Jeffrey Peng and Jesus Izaguirre",
title = "{Biomolecular Committor Probability Calculation Enabled by Processing in Network Storage}",
journal = "{Journal of Parallel Computing}",
volume = "34",
number = "11",
pages = "652-660",
year = 2008,
cclpaperid = "13"
}

@inproceedings {
enavis-lisa08,
author = "Qi Liao and Andrew Blaich and Aaron Striegel and Douglas Thain",
title = "{ENAVis: Enterprise Network Activities Visualization}",
booktitle = "{USENIX Large Installation System Administration (LISA)}",
pages = "59-74",
year = 2008,
cclpaperid = "23"
}

@inproceedings {
debug-grid08,
author = "David Cieslak and Nitesh Chawla and Douglas Thain",
title = "{Troubleshooting Thousands of Jobs on Production Grids Using Data Mining Techniques}",
booktitle = "{IEEE Grid Computing}",
pages = "217-224",
year = 2008,
cclpaperid = "26"
}

@inproceedings {
datalab-hpdc08,
author = "Brandon Rich and Douglas Thain",
title = "{Poster: DataLab: Transactional Data Parallel Computing on an Active Storage Cloud}",
booktitle = "{IEEE/ACM High Performance Distributed Computing}",
pages = "233-234",
year = 2008,
cclpaperid = "27"
}

@inproceedings {
allpairs-ipdps08,
author = "Christopher Moretti and Jared Bulosan and Douglas Thain and Patrick Flynn",
title = "{All-Pairs: An Abstraction for Data Intensive Cloud Computing}",
booktitle = "{IEEE International Parallel and Distributed Processing Symposium (IPDPS)}",
pages = "1-11",
year = 2008,
cclpaperid = "28"
}

@inproceedings {
qthreads-mtaap08,
author = "Kyle Wheeler and Richard Murphy and Douglas thain",
title = "{QThreads: An API for Programming with Millions of Lightweight Threads}",
booktitle = "{Workshop on Multithreaded Architectures and Applications at IEEE IPDPS}",
pages = "1-8",
year = 2008,
cclpaperid = "29"
}

@techreport {
bxgrid-tr,
author = "Douglas Thain and Patrick Flynn",
title = "{Towards a Data Analysis Grid for Biometrics Research}",
institution = "{University of Notre Dame, Computer Science and Engineering Department}",
number = "2008-05",
year = 2008,
cclpaperid = "62"
}

@article {
priority-fgcs,
author = "Justin Wozniak and Paul Brenner and Douglas Thain and Aaron Striegel and Jesus Izaguirre",
title = "{Making the Best of a Bad Situation: Prioritized Storage Management in GEMS}",
journal = "{Future Generation Computing Systems}",
volume = "24",
number = "1",
pages = "10-16",
year = 2008,
cclpaperid = "15"
}

@techreport {
gheat-tr,
author = "Paul Brenner and Douglas Thain and Dewitt Latimer",
title = "{Grid Heating: Transforming Cooling Constraints Into Thermal Benefits}",
institution = "{University of Notre Dame, Computer Science and Engineering Department}",
number = "2008-09",
year = 2008,
cclpaperid = "7"
}

@inproceedings {
teamtrak-milcom07,
author = "Jeffrey Hemmes and Christian Poellabauer and Douglas Thain",
title = "{On Demand Transient Storage and Backup in Mobile Systems}",
booktitle = "{IEEE Military Communications Conference}",
pages = "1-7",
year = 2007,
cclpaperid = "30"
}

@inproceedings {
teamtrak-wasa07,
author = "Jeffrey Hemmes and Douglas Thain and Christian Poellabauer and Christopher Moretti and Phil Snowberger and Brendan McNutt",
title = "{Lessons Learned Building TeamTrak: An Urban/Outdoor Mobile Testbed}",
booktitle = "{International Conference on Wireless Architectures Systems and Applications}",
pages = "219-224",
year = 2007,
cclpaperid = "33"
}

@inproceedings {
teamtrak-fie07,
author = "Jeffrey Hemmes and Douglas Thain and Christian Poellabauer",
title = "{Work in Progress: Integrating Undergraduate Research and Education via the TeamTrak Mobile Computing Framework}",
booktitle = "{IEEE Frontiers in Education}",
pages = "1-2",
year = 2007,
cclpaperid = "35"
}

@inproceedings {
small-grid07,
author = "Douglas Thain and Christopher Moretti",
title = "{Efficient Access to Many Small Files in a Filesystem for Grid Computing}",
booktitle = "{IEEE Grid Computing}",
pages = "243-250",
year = 2007,
cclpaperid = "31"
}

@inproceedings {
lockdown-security07,
author = "Andrew Blaich and Qi Liao and Greg Allan and Aaron Striegel and Douglas Thain",
title = "{Poster: Lockdown: Distributed Policy Analysis and Enforcement within the Enterprise Network}",
booktitle = "{USENIX Security Symposium}",
year = 2007,
cclpaperid = "32"
}

@inproceedings {
allpairs-grid07,
author = "Christopher Moretti and Jared Bulosan and Douglas Thain and Patrick J. Flynn",
title = "{Poster: All-Pairs: An Abstraction for Data Intensive Computing}",
booktitle = "{IEEE/ACM Grid Computing}",
year = 2007,
cclpaperid = "63"
}

@inproceedings {
challenges-pcgrid07,
author = "Christopher Moretti and Timothy Faltemier and Douglas Thain and Patrick J. Flynn",
title = "{Challenges in Executing Data Intensive Biometric Workloads on a Desktop Grid}",
booktitle = "{Workshop on Large Scale and Volatile Desktop Grids at IEEE IPDPS}",
pages = "481-489",
year = 2007,
cclpaperid = "34"
}

@inproceedings {
pins-bio07,
author = "Paul Brenner and Justin Wozniak and Douglas Thain and Aaron Striegel and Jeffrey Peng and Jesus Izaguirre",
title = "{Biomolecular Path Sampling Enabled by Processing in Network Storage}",
booktitle = "{Workshop on High Performance Computational Biology at IEEE IPDPS}",
pages = "1-6",
year = 2007,
cclpaperid = "36"
}

@thesis {
moretti-ms-thesis,
author = "Christopher Moretti",
title = "{Flexible Object Based Filesystems for Scientific Computing}",
editor = "M.S. Thesis",
booktitle = "{University of Notre Dame}",
year = 2007,
cclpaperid = "65"
}

@thesis {
snowberger-ms-thesis,
author = "Philip Snowberger",
title = "{Sub-Identities: A Hierarchical Identity Model for Practical Containment}",
editor = "M.S. Thesis",
booktitle = "{University of Notre Dame}",
year = 2007,
cclpaperid = "66"
}

@article {
measure-ccpe,
author = "Douglas Thain and Miron Livny",
title = "{How to Measure a Large Open Source Distributed System}",
journal = "{Concurrency and Computation: Practice and Experience}",
volume = "18",
number = "15",
pages = "1989-2019",
year = 2006,
cclpaperid = "16"
}

@inproceedings {
gems-sss06,
author = "Justin Wozniak and Paul Brenner and Douglas Thain and Aaron Striegel and Jesus Izaguirre",
title = "{Access Control for a Replica Management Database}",
booktitle = "{ACM Workshop on Storage Security and Survivability at ACM CCS}",
pages = "41-46",
year = 2006,
cclpaperid = "40"
}

@inproceedings {
bio-grid06,
author = "Christophe Blanchet and Remi Mollon and Douglas Thain and Gilbert Deleage",
title = "{Grid Deployment of Legacy Bioinformatics Applications with Transparent Data Access}",
booktitle = "{IEEE Grid Computing}",
pages = "120-127",
year = 2006,
cclpaperid = "37"
}

@inproceedings {
alloc-grid06,
author = "Douglas Thain",
title = "{Operating System Support for Space Allocation in Grid Storage Systems}",
booktitle = "{IEEE Grid Computing}",
pages = "104-111",
year = 2006,
cclpaperid = "41"
}

@inproceedings {
groups-grid06,
author = "Jeffrey Hemmes and Douglas Thain",
title = "{Cacheable Decentralized Groups for Grid Resource Access Control}",
booktitle = "{IEEE Grid Computing}",
pages = "192-199",
year = 2006,
cclpaperid = "42"
}

@inproceedings {
caches-hyperio06,
author = "Sudharshan Vazhkudai and Douglas Thain and Xiaosong Ma and Vincent Freeh",
title = "{Positioning Dynamic Storage Caches for Transient Data}",
booktitle = "{Workshop on High-Performance I/O Techniques and Deployment of Very Large Scale I/O Systems at IEEE Cluster Computing}",
pages = "1-9",
year = 2006,
cclpaperid = "43"
}

@inproceedings {
subid-sec06,
author = "Phil Snowberger and Douglas Thain",
title = "{Poster: Sub-Identities: Security for Mere Mortals}",
booktitle = "{USENIX Security}",
year = 2006,
cclpaperid = "45"
}

@inproceedings {
literate-fie06,
author = "Douglas Thain and Christian Poellabauer",
title = "{Experience with a Literate Approach to Computer Science}",
booktitle = "{IEEE Frontiers in Education}",
pages = "8-13",
year = 2006,
cclpaperid = "44"
}

@inproceedings {
idibs-icpads06,
author = "Faruck Morcos and Thidapat Chantem and Philip Little and Tiago Gasiba and Douglas Thain",
title = "{iDIBS: An Improved Distributed Internet Backup System}",
booktitle = "{IEEE International Conference on Parallel and Distributed Systems (ICPADS)}",
pages = "58-67",
year = 2006,
cclpaperid = "46"
}

@article {
transparent-ccpe,
author = "Sander Klous and Jamie Frey and Se-Chang Son and Douglas Thain and Alain Roy and Miron Livny and Jo van den Brand",
title = "{Transparent Access to Grid Resources for User Software}",
journal = "{Concurrency and Computation: Practice and Experience}",
volume = "18",
number = "7",
pages = "787-801",
year = 2006,
cclpaperid = "17"
}

@inproceedings {
debug-hpdc15,
author = "David Cieslak and Douglas Thain and Nitesh Chawla",
title = "{Short Paper: Troubleshooting Distributed Systems via Data Mining}",
booktitle = "{IEEE Symposium on High Performance Distributed Computing (HPDC)}",
pages = "309-312",
year = 2006,
cclpaperid = "47"
}

@inproceedings {
gems-ssst06,
author = "Justin Wozniak and Paul Brenner and Douglas Thain and Aaron Striegel and Jesus Izaguirre",
title = "{Applying Feedback Control to a Replica Management System}",
booktitle = "{IEEE Southeastern Symposium on System Theory}",
pages = "472-476",
year = 2006,
cclpaperid = "48"
}

@article {
parrot-lni06,
author = "Stefano Belforte and Matthew Normal and Subir Sarkar and Ifor Sfiligoi and Douglas Thain and Frank Wuerthwein",
title = "{Using Condor Glide-Ins and Parrot to Move from Dedicated Resources to the Grid}",
journal = "{Lecture Notes in Informatics}",
volume = "81",
pages = "285-292",
year = 2006,
cclpaperid = "49"
}

@inproceedings {
parrot-chep06,
author = "Douglas Thain and Christopher Moretti and Igor Sfiligoi",
title = "{Transparently Distributing CDF Software with Parrot}",
booktitle = "{Computing in High Energy Physics}",
pages = "1-4",
year = 2006,
cclpaperid = "50"
}

@inproceedings {
cons-sisw05,
author = "Douglas Thain and Christopher Moretti and Paul Madrid and Phil Snowberger and Jeff Hemmes",
title = "{The Consequences of Decentralized Security in a Cooperative Storage System}",
booktitle = "{Workshop on Security in Storage at IEEE FAST}",
pages = "82-94",
year = 2005,
cclpaperid = "51"
}

@inproceedings {
tactical-sc05,
author = "Douglas Thain and Sander Klous and Justin Wozniak and Paul Brenner and Aaron Striegel and Jesus Izaguirre",
title = "{Separating Abstractions from Resources in a Tactical Storage System  }",
booktitle = "{IEEE/ACM Supercomputing}",
pages = "55-67",
year = 2005,
cclpaperid = "52"
}

@inproceedings {
ibox-sc05,
author = "Douglas Thain",
title = "{Identity Boxing: A New Technique for Consistent Global Identity}",
booktitle = "{IEEE/ACM Supercomputing}",
pages = "51-61",
year = 2005,
cclpaperid = "53"
}

@inproceedings {
literate-fie05,
author = "Douglas Thain and Christian Poellabauer",
title = "{Work in Progress: A Literate Approach to Graduate Computer Science Education}",
booktitle = "{IEEE Frontiers in Education}",
pages = "1-2",
year = 2005,
cclpaperid = "54"
}

@techreport {
subid-tr,
author = "Philip Snowberger and Douglas thain",
title = "{Towards Operating System Support for Distributed System Security}",
institution = "{University of Notre Dame, Computer Science and Engineering Department}",
number = "2005-18",
year = 2005,
cclpaperid = "84"
}

@article {
parrot-scpe05,
author = "Douglas Thain and Miron Livny",
title = "{Parrot: An Application Environment for Data-Intensive Computing}",
journal = "{Scalable Computing: Practice and Experience}",
volume = "6",
number = "3",
pages = "9-18",
year = 2005,
cclpaperid = "18"
}

@inproceedings {
ibox-hpdc05,
author = "Douglas Thain",
title = "{Poster: Identity Boxing: Secure User-Level Containment for the Grid}",
booktitle = "{IEEE Symposium on High Performance Distributed Computing}",
pages = "299-300",
year = 2005,
cclpaperid = "55"
}

@inproceedings {
gems-hpdc05,
author = "Justin Wozniak and Paul Brenner and Douglas Thain and Aaron Striegel and Jesus Izaguirre",
title = "{Generosity and Gluttony in GEMS: Grid Enabled Molecular Simulations}",
booktitle = "{IEEE Symposium on High Performance Distributed Computing}",
pages = "191-200",
year = 2005,
cclpaperid = "56"
}

@inproceedings {
patisserie-ads05,
author = "Timothy Schoenharl and Scott Christley and Douglas Thain",
title = "{Patisserie: Support for Parameter Sweeps in a Fault-Tolerant, Massively Parallel, Peer-to-Peer Simulation Environment}",
booktitle = "{Workshop on Agent Directed Simulation (ADS)}",
pages = "1-8",
year = 2005,
cclpaperid = "57"
}

@article {
condor-ccpe,
author = "Douglas Thain and Todd Tannenbaum and Miron Livny",
title = "{Distributed Computing in Practice: The Condor Experience}",
journal = "{Concurrency and Computation: Practice and Experience}",
volume = "17",
number = "2-4",
pages = "323-356",
year = 2005,
cclpaperid = "19"
}

@incollection {
condor-reliable,
author = "Douglas Thain and Miron Livny",
title = "{Building Reliable Clients and Servers}",
editor = "Ian Foster and Carl Kesselman",
booktitle = "{Grid: Blueprint for a New Computing Infrastructure}",
publisher = "Morgan Kaufmann",
year = 2004,
cclpaperid = "10"
}

@thesis {
thain-dissertation,
author = "Douglas Thain",
title = "{Coordinating Access to Computation and Data in Distributed Systems}",
editor = "Ph.D. Thesis",
booktitle = "{University of Wisconsin}",
year = 2004,
cclpaperid = "4"
}

@inproceedings {
badfs-nsdi-04,
author = "John Bent and Douglas Thain and Andrea Arpaci-Dusseau and Remzi Arpaci-Dusseau and Miron Livny",
title = "{Explicit Control in a Batch Aware Distributed File System}",
booktitle = "{USENIX Networked Systems Design and Implementation (NSDI)}",
pages = "365-378",
year = 2004,
cclpaperid = "58"
}

@incollection {
condor-grid,
author = "Douglas Thain and Todd Tannenbaum and Miron Livny",
title = "{Condor and the Grid}",
editor = "Fran Berman and Anthony Hey and Geoffrey Fox",
booktitle = "{Grid Computing: Making the Global Infrastructure a Reality}",
publisher = "John Wiley",
year = 2003,
cclpaperid = "9"
}

@inproceedings {
workload-hpdc12,
author = "Douglas Thain and John Bent and Andrea Arpaci-Dusseau and Remzi Arpaci-Dusseau and Miron Livny",
title = "{Pipeline and Batch Sharing in Grid Workloads}",
booktitle = "{IEEE High Performance Distributed Computing}",
pages = "152-161",
year = 2003,
cclpaperid = "68"
}

@inproceedings {
ethernet-hpdc12,
author = "Douglas Thain and Miron Livny",
title = "{The Ethernet Approach to Grid Computing}",
booktitle = "{IEEE High Performance Distributed Computing}",
pages = "138-",
year = 2003,
cclpaperid = "69"
}

@inproceedings {
parrot-agm2003,
author = "Douglas Thain and Miron Livny",
title = "{Parrot: Transparent User-Level Middleware for Data Intensive Computing}",
booktitle = "{Workshop on Adaptive Grid Middleware at PACT}",
year = 2003,
cclpaperid = "67"
}

@inproceedings {
xw-condor,
author = "Oleg Lodygensky and Gilles Fedak and Vincent Neri and Franck Cappello and Miron Livny and Douglas Thain",
title = "{XtremWeb and Condor: Sharing Resources Between Internet Connected Condor Pools}",
booktitle = "{Workshop on Global and Peer-to-Peer Computing on Large Scale Distributed Systems at CCGRID}",
pages = "382-390",
year = 2003,
cclpaperid = "70"
}

@inproceedings {
error-scope,
author = "Douglas Thain and Miron Livny",
title = "{Error Scope on a Computational Grid}",
booktitle = "{IEEE High Performance Distributed Computing}",
pages = "199-208",
year = 2002,
cclpaperid = "71"
}

@inproceedings {
gridio-sc01,
author = "Douglas Thain and John Bent and Andrea Arpaci-Dusseau and Remzi Arpaci-Dusseau and Miron Livny",
title = "{Gathering at the Well: Creating Communities for Grid I/O}",
booktitle = "{IEEE/ACM Supercomputing}",
pages = "21-31",
year = 2001,
cclpaperid = "72"
}

@inproceedings {
kangaroo-hpdc01,
author = "Douglas Thain and Jim Basney and Se-Chang Son and Miron Livny",
title = "{The Kangaroo Approach to Data Movement on the Grid}",
booktitle = "{IEEE High Performance Distributed Computing}",
pages = "325-333",
year = 2001,
cclpaperid = "73"
}

@article {
bypass-jcc,
author = "Douglas Thain and Miron Livny",
title = "{Multiple Bypass: Interposition Agents for Distributed Computing}",
journal = "{Journal of Cluster Computing}",
volume = "4",
number = "1",
pages = "39-47",
year = 2001,
cclpaperid = "20"
}

@inproceedings {
bypass-hpdc00,
author = "Douglas Thain and Miron Livny",
title = "{Bypass: A Tool for Building Split Execution Systems}",
booktitle = "{IEEE High Performance Distributed Computing}",
pages = "79-85",
year = 2000,
cclpaperid = "74"
}