First semi complete

writeup/litsynth/writeup.tex

@@ -1,5 +1,6 @@
 \documentclass[11pt,twocolumn]{article}
 \usepackage[cm]{fullpage}
+\usepackage{paralist}
 
 
 \title{Scientific Workbench and Workflow management for GIS workflow}
@@ -15,13 +16,23 @@
 \begin{document}
 \maketitle
 \begin{abstract}
-    This Literature synthesis does an overview of what has been done
-    in the field of building a Scientific Workbench and Automated
-    Workflow management. It focusses on implementation methods and
-    case studies on where it has been implemented.
+    Automated workflow systems have been successfully implemented
+    across various disciplines, including Scientific and business
+    workflows. This is an overview of what has has been done
+    in the field of building these systems and pays special attention
+    to building a Scientific Workbench. It focusses of what
+    has been done in the past, highlights some the methods used
+    as well as the lessons learn during these implementations.
+
+    It also looks at how these principles could be applied
+    specifically to GIS workflow by giving an overview of the
+    structure of the field. It seeks to find an appropriate
+    mapping to these systems using known principles of SOA and
+    grid computing.
 
     This is then illustrates that this solution is highly applicable
-    for GIS workflow.
+    to GIS workflow, provided the necessary middle-ware can be made
+    to facilitate integration.
 \end{abstract}
 \section{Introduction}
     Automated workflow management has been in wide use across
@@ -34,9 +45,17 @@ \section{Introduction}
     This has been very successful in the field of science as
     the process can be rerun on different sets of data.\cite{4721191}
     This not only aids in reproducibility but also gives
-    clear direction and saves time.
+    clear direction and saves time. This is done by efficiently
+    abstracting the operations of the flow and allowing it
+    to be automatically handled.
 
-    WRITE SHORT PIECE ON GIS
+    Geographic information Systems(GIS) is the field that
+    concerns itself with the organisation and representation
+    of geographic data, for the purpose of querying it and
+    making considered decissions off of the data
+    \cite{DiMartino:2007:TAG:1341012.1341081}. This
+    seems to lend itself to possibly lend itself to being
+    effectively applied to a workflow system.
 
 \section{Overview}
     A workflow management system, consists of definitions
@@ -197,8 +216,92 @@ \section{Implementations}
 
 
 \section{Case Studies}
+    The next section will look at two instances where
+    workflow management systems were implemented and used.
+    These case studies will look at both a business and a
+    scientific application.
+    \subsection*{Danske Bank}
+    The workflow management system at \emph{Danske bank} was
+      incrementally implemented as there system moved
+      from a manual system.
+
+      The system was slowly introduced when the client
+      packages became to time consuming for the customer
+      advisors and was sup-optimal for the customers.
+      This was then replaced by a document that contained
+      a description of the package, this was then shipped
+      off to back office workers that assembled the packages
+      from the document, as a sort of primitive workflow system.
+      This then slowly developed to include web-services,
+      and almost full atomisation. This rapidly expanded
+      to almost every function of the bank and increased
+      productivity drastically.
+
+      Several lessons were learned during the process that
+      is applicable to other work flow systems. When work
+      was divided purely from an efficiency point of view
+      the workers became complacent as they felt that they
+      did not understand the overall mechanism and felt that
+      they were not involved. They also discovered that the
+      system did not handle change very well. And this change
+      was as expensive as it was inevitable the system had
+      to be adapted to handle this change. The success of the
+      system is mainly attributed to the interruptibility and
+      close relationship between the users and the developers
+      \cite{Brahe:2007:SWW:1316624.1316661}.
+
+    \subsection*{OrthoSearch}
+      \emph{OrophoSearch} is a workflow,
+      built on \emph{Kepler} that is designed to work on
+      work on data in the field of Bio Informatics. This
+      was used in the the dicipline of \emph{Neglected Diseases}
+      which has the potential to kill millions of people.
+
+      A pipeline was was created to represent the workflow
+      of this research. This pipeline was then implemented
+      using \emph{Perl} scripts. This solution did not meet
+      some of the original requirements, nor did it provide
+      the desired level of abstraction.
+
+      The system was moved to \emph{Kepler} as it addressed
+      the requirements better including: \begin{inparaenum}[(i)]
+      \item Workflow definition and Design; \item workflow execution
+      control; \item fault tolerance; \item intermediate data management;
+      and \item data provenance support. \end{inparaenum}
+
+      This approach turned out to be much more successful. With
+      its flexibility, stability and grid enabled features, it
+      addressed most of the problems that the manual system had.
+
+      Although the system was not without its hickups and changes
+      the integration with Kepler provided the workflow with the
+      much needed direction and increased overall productivity
+      drastically.\cite{daCruz:2008:OSW:1363686.1363983}
+
 
 \section{Conclusion}
+   The field of GIS concerns itself with a vast amout of Geographic
+   data. This data comes in various sizes and as such different
+   methods of handling and transfering would need to be used to
+   facilitate dataflows within the system. It was also found that
+   there are a large number of transformations that workflow would
+   need to support.
+
+   The work however is done in very distributed mannor which allows
+   for a very effective mapping onto a grid based computing solution.
+   Provided middleware can be developed to support the systems that
+   are used. This would allow for effective Content Delivery Network
+   that provides data on demand where it is needed on the grid
+   \cite{Montella:2007:UGC:1272980.1272995}.
+
+   A workflow system would appear to be highly effective in this
+   field, as it supports the nature of the science extremely well,
+   It would allow for effective automatisation of some of the
+   functions and would be able to remove a large amount of the
+   problems associated with Content Delivery.
+   \cite{Withana:2010:VWE:1851476.1851586}
+
+
 
 
 \bibliography{../references}{}

writeup/references.bib

@@ -63,7 +63,7 @@ @article{Suchman:1983:OPP:357442.357445
 }
 
 @article{vanderAalst2002125,
-    title = "Inheritance of workflows: an approach to tackling problems related to change",
+    title = "Inheritance of workflows: an approach to tackling pdaCruz:2008:OSW:1363686.136398oroblems related to change",
     journal = "Theoretical Computer Science",
     volume = "270",
     number = "1–2",
@@ -335,3 +335,56 @@ @inproceedings{Sanders:2008:SSA:1400549.1400595
  keywords = {DoDAF, MoDAF, TOGAF, service-oriented architecture},
 }
 
+@inproceedings{daCruz:2008:OSW:1363686.1363983,
+ author = {da Cruz, Sergio Manuel Serra and Batista, Vanessa and D\'{a}vila, Alberto M. R. and Silva, Edno and Tosta, Frederico and Vilela, Clarissa and Campos, Maria Luiza M. and Cuadrat, Rafael and Tschoeke, Diogo and Mattoso, Marta},
+ title = {OrthoSearch: a scientific workflow approach to detect distant homologies on protozoans},
+ booktitle = {Proceedings of the 2008 ACM symposium on Applied computing},
+ series = {SAC '08},
+ year = {2008},
+ isbn = {978-1-59593-753-7},
+ location = {Fortaleza, Ceara, Brazil},
+ pages = {1282--1286},
+ numpages = {5},
+ url = {http://doi.acm.org/10.1145/1363686.1363983},
+ doi = {10.1145/1363686.1363983},
+ acmid = {1363983},
+ publisher = {ACM},
+ address = {New York, NY, USA},
+ keywords = {bioinformatics, provenance, scientific workflows},
+}
+
+@inproceedings{Montella:2007:UGC:1272980.1272995,
+ author = {Montella, Raffaele and Giunta, Giulio and Riccio, Angelo},
+ title = {Using grid computing based components in on demand environmental data delivery},
+ booktitle = {Proceedings of the second workshop on Use of P2P, GRID and agents for the development of content networks},
+ series = {UPGRADE '07},
+ year = {2007},
+ isbn = {978-1-59593-718-6},
+ location = {Monterey, California, USA},
+ pages = {81--86},
+ numpages = {6},
+ url = {http://doi.acm.org/10.1145/1272980.1272995},
+ doi = {10.1145/1272980.1272995},
+ acmid = {1272995},
+ publisher = {ACM},
+ address = {New York, NY, USA},
+ keywords = {environmental data distribution, grid computing, resource broking},
+}
+
+@inproceedings{Withana:2010:VWE:1851476.1851586,
+ author = {Withana, Eran Chinthaka and Plale, Beth and Barga, Roger and Araujo, Nelson},
+ title = {Versioning for workflow evolution},
+ booktitle = {Proceedings of the 19th ACM International Symposium on High Performance Distributed Computing},
+ series = {HPDC '10},
+ year = {2010},
+ isbn = {978-1-60558-942-8},
+ location = {Chicago, Illinois},
+ pages = {756--765},
+ numpages = {10},
+ url = {http://doi.acm.org/10.1145/1851476.1851586},
+ doi = {10.1145/1851476.1851586},
+ acmid = {1851586},
+ publisher = {ACM},
+ address = {New York, NY, USA},
+ keywords = {evolution, versioning, workflows},
+}