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[CIShell-SVN] SF.net SVN: cishell: [656] trunk/core/org.cishell.docs/src
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From: <bh...@us...> - 2008-03-14 15:13:26
|
Revision: 656
http://cishell.svn.sourceforge.net/cishell/?rev=656&view=rev
Author: bh2
Date: 2008-03-14 08:13:09 -0700 (Fri, 14 Mar 2008)
Log Message:
-----------
Updated spec based on katy's latest inputs
Modified Paths:
--------------
trunk/core/org.cishell.docs/src/img/cishellInteraction.dia
trunk/core/org.cishell.docs/src/img/cishellInteraction.eps
trunk/core/org.cishell.docs/src/img/cishellInteraction.pdf
trunk/core/org.cishell.docs/src/specification/tex/algorithms.tex
trunk/core/org.cishell.docs/src/specification/tex/guidefinition.tex
trunk/core/org.cishell.docs/src/specification/tex/introduction.tex
trunk/core/org.cishell.docs/src/specification/tex/osgidependencies.tex
trunk/core/org.cishell.docs/src/specification/tex/useradjustableprefs.tex
Modified: trunk/core/org.cishell.docs/src/img/cishellInteraction.dia
===================================================================
(Binary files differ)
Modified: trunk/core/org.cishell.docs/src/img/cishellInteraction.eps
===================================================================
--- trunk/core/org.cishell.docs/src/img/cishellInteraction.eps 2008-03-13 15:51:59 UTC (rev 655)
+++ trunk/core/org.cishell.docs/src/img/cishellInteraction.eps 2008-03-14 15:13:09 UTC (rev 656)
@@ -1,11 +1,11 @@
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+n 19.717673 8.451803 m 19.968000 8.951640 l 19.717918 8.826803 l 19.468000 8.951967 l ef
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/Courier-latin1 ff 0.560000 scf sf
-( Optional) 19.720125 12.026900 m
-dup sw 3.150000 exch sub
-9 div exch 0.0 exch
- gs 1 -1 sc ashow gr
+( Optional) 19.720100 12.166900 m gs 1 -1 sc sh gr
0.100000 slw
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@@ -707,134 +587,95 @@
0.000000 0.000000 0.000000 srgb
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/Courier-latin1 ff 0.560000 scf sf
-(<<interface>>) -4.846060 14.745000 m
-dup sw 4.550000 exch sub
-13 div exch 0.0 exch
- gs 1 -1 sc ashow gr
+(<<interface>>) dup sw 2 div -2.571060 ex sub 14.892500 m gs 1 -1 sc sh gr
/Helvetica-Bold-latin1 ff 0.700000 scf sf
-(LogService) -4.832310 15.712500 m
-dup sw 4.522500 exch sub
-10 div exch 0.0 exch
- gs 1 -1 sc ashow gr
+(LogService) dup sw 2 div -2.571060 ex sub 15.892500 m gs 1 -1 sc sh gr
0.100000 slw
[] 0 sd
1.000000 1.000000 1.000000 srgb
-n -8.508560 11.530000 m -8.508560 13.730000 l -0.036060 13.730000 l -0.036060 11.530000 l f
+n -8.508560 11.530000 m -8.508560 13.730000 l -0.008560 13.730000 l -0.008560 11.530000 l f
0.000000 0.000000 0.000000 srgb
-n -8.508560 11.530000 m -8.508560 13.730000 l -0.036060 13.730000 l -0.036060 11.530000 l cp s
+n -8.508560 11.530000 m -8.508560 13.730000 l -0.008560 13.730000 l -0.008560 11.530000 l cp s
/Courier-latin1 ff 0.560000 scf sf
-(<<interface>>) -6.547310 12.032500 m
-dup sw 4.550000 exch sub
-13 div exch 0.0 exch
- gs 1 -1 sc ashow gr
+(<<interface>>) dup sw 2 div -4.258560 ex sub 12.180000 m gs 1 -1 sc sh gr
/Helvetica-Bold-latin1 ff 0.700000 scf sf
-(PreferencesService) -8.258560 13.000000 m
-dup sw 7.972500 exch sub
-18 div exch 0.0 exch
- gs 1 -1 sc ashow gr
+(PreferencesService) dup sw 2 div -4.258560 ex sub 13.180000 m gs 1 -1 sc sh gr
0.100000 slw
[] 0 sd
1.000000 1.000000 1.000000 srgb
-n -10.113560 6.160000 m -10.113560 8.360000 l -0.046060 8.360000 l -0.046060 6.160000 l f
+n -10.113600 6.160000 m -10.113600 8.360000 l -0.163600 8.360000 l -0.163600 6.160000 l f
0.000000 0.000000 0.000000 srgb
-n -10.113560 6.160000 m -10.113560 8.360000 l -0.046060 8.360000 l -0.046060 6.160000 l cp s
+n -10.113600 6.160000 m -10.113600 8.360000 l -0.163600 8.360000 l -0.163600 6.160000 l cp s
/Courier-latin1 ff 0.560000 scf sf
-(<<interface>>) -7.354810 6.662500 m
-dup sw 4.550000 exch sub
-13 div exch 0.0 exch
- gs 1 -1 sc ashow gr
+(<<interface>>) dup sw 2 div -5.138600 ex sub 6.810000 m gs 1 -1 sc sh gr
/Helvetica-Bold-latin1 ff 0.700000 scf sf
-(DataConversionService) -9.863560 7.630000 m
-dup sw 9.567500 exch sub
-21 div exch 0.0 exch
- gs 1 -1 sc ashow gr
+(DataConversionService) dup sw 2 div -5.138600 ex sub 7.810000 m gs 1 -1 sc sh gr
0.100000 slw
[] 0 sd
1.000000 1.000000 1.000000 srgb
-n -8.008560 8.867500 m -8.008560 11.067500 l -0.056060 11.067500 l -0.056060 8.867500 l f
+n -8.008560 8.867500 m -8.008560 11.067500 l -0.208560 11.067500 l -0.208560 8.867500 l f
0.000000 0.000000 0.000000 srgb
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/Courier-latin1 ff 0.560000 scf sf
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-dup sw 4.550000 exch sub
-13 div exch 0.0 exch
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/Helvetica-Bold-latin1 ff 0.700000 scf sf
-(GUIBuilderService) -7.758560 10.337500 m
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-17 div exch 0.0 exch
- gs 1 -1 sc ashow gr
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-15 div exch 0.0 exch
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-dup sw 0.350000 exch sub
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-dup sw 0.350000 exch sub
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+(n) dup sw 4.210510 ex sub 12.746000 m gs 1 -1 sc sh gr
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-n 0.053166 10.164762 m -1.041534 11.204562 l 0.052466 11.204562 l cp s
+n 0.053166 10.164800 m -1.041530 11.204600 l 0.052466 11.204600 l ef
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+/Courier-latin1 ff 0.560000 scf sf
+(1) 0.203286 15.192500 m gs 1 -1 sc sh gr
showpage
Modified: trunk/core/org.cishell.docs/src/img/cishellInteraction.pdf
===================================================================
(Binary files differ)
Modified: trunk/core/org.cishell.docs/src/specification/tex/algorithms.tex
===================================================================
--- trunk/core/org.cishell.docs/src/specification/tex/algorithms.tex 2008-03-13 15:51:59 UTC (rev 655)
+++ trunk/core/org.cishell.docs/src/specification/tex/algorithms.tex 2008-03-14 15:13:09 UTC (rev 656)
@@ -26,10 +26,10 @@
algorithm. It is the central and most important concept. Algorithms are fully
defined and self-contained bits of execution. They can do many things from data
conversion, data analysis, and can even spawn whole external programs if needed.
-Algorithms are very well defined black boxes in that what can come into and out
-of the algorithm is specified in each algorithm's service metadata and
-associated \class{MetaTypeProvider}. Other than that, CIShell makes no attempt
-to understand the algorithm.
+Algorithms are well defined black boxes in that their input and output is
+specified in each algorithm's service metadata and associated
+\class{MetaTypeProvider}. Other than that, CIShell makes no attempt to understand
+the algorithm.
\subsubsection{Essentials}
\begin{itemize}
@@ -109,7 +109,7 @@
such as the format of each \class{Data} item to be input and output is provided.
In addition to the mechanics of the algorithms, data such as the authors, label,
urls, citation references, and description are provided. This metadata can be
-searched by anyone using OSGi's service registry to find relevant algorithms.
+searched by anyone to find relevant algorithms using OSGi's service registry.
Each standard metadata element required by the CIShell specification is defined
below and in the interface \class{AlgorithmProperty}. It defines each key string
@@ -126,7 +126,7 @@
\begin{quote}
\begin{description}
- \item[Example 1:] service.pid = org.cishell.my.algorithm.MyAlgorithm
+ \item[Example 1:] service.pid = org.my.algorithm.MyAlgorithm
\end{description}
\end{quote}
@@ -286,8 +286,8 @@
\subsection*{conversion}
For converter algorithms, this metadata element specifies if any data is
lost in the conversion. Possible values are ``lossy'' and ``lossless''. A
-description of what type of information is lost should be explained in the
-description.
+description of what type of information is lost should be given in the
+``description'' metadata field.
\begin{quote}
\begin{description}
@@ -301,8 +301,8 @@
\begin{quote}
\begin{description}
- \item[Example 1:] authors = Bruce Herr
- \item[Example 2:] authors = Bruce Herr, Weixia Huang, Katy Borner
+ \item[Example 1:] authors = Bruce W. Herr II
+ \item[Example 2:] authors = Bruce W. Herr II, Weixia Huang, Katy Borner
\end{description}
\end{quote}
@@ -312,8 +312,8 @@
\begin{quote}
\begin{description}
- \item[Example 1:] implementers = Bruce Herr
- \item[Example 2:] implementers = Bruce Herr, Weixia Huang, Katy Borner
+ \item[Example 1:] implementers = Bruce W. Herr II
+ \item[Example 2:] implementers = Bruce W. Herr II, Weixia Huang, Katy Borner
\end{description}
\end{quote}
@@ -324,8 +324,8 @@
\begin{quote}
\begin{description}
- \item[Example 1:] integrators = Bruce Herr
- \item[Example 2:] integrators = Bruce Herr, Weixia Huang, Katy Borner
+ \item[Example 1:] integrators = Bruce W. Herr II
+ \item[Example 2:] integrators = Bruce W. Herr II, Weixia Huang, Katy Borner
\end{description}
\end{quote}
@@ -345,10 +345,10 @@
\begin{quote}
\begin{description}
- \item[Example 1:] reference = Herr, Bruce W., Huang, Weixia, Penumarthy,
- Shashikant, Börner, Katy. (2007) Designing Highly Flexible and Usable
+ \item[Example 1:] reference = Herr, Bruce W. II, Huang, Weixia, Penumarthy,
+ Shashikant, B\"{o}rner, Katy. (2007) Designing Highly Flexible and Usable
Cyberinfrastructures for Convergence. In William S. Bainbridge and Mihail C.
- Roco (Eds.) Progress in Convergence – Technologies for Human Wellbeing.
+ Roco (Eds.) Progress in Convergence - Technologies for Human Wellbeing.
Annals of the New York Academy of Sciences, Boston, MA, volume 1093, pp. 161-179.
\end{description}
\end{quote}
@@ -359,7 +359,7 @@
\begin{quote}
\begin{description}
- \item[Example 1:] reference\_url = http://cishell.org/papers/06-cishell.pdf
+ \item[Example 1:] reference\_url = http://cishell.org/papers/07-cishell.pdf
\end{description}
\end{quote}
Modified: trunk/core/org.cishell.docs/src/specification/tex/guidefinition.tex
===================================================================
--- trunk/core/org.cishell.docs/src/specification/tex/guidefinition.tex 2008-03-13 15:51:59 UTC (rev 655)
+++ trunk/core/org.cishell.docs/src/specification/tex/guidefinition.tex 2008-03-14 15:13:09 UTC (rev 656)
@@ -30,11 +30,11 @@
is not tied to any specific UI, so it can be reused depending on the context
(desktop application, web application, command line, etc.).
-\class{MetaTypeProvider} is an interface defined in the OSGi R4 Specification
-Service Compendium as part of the ``Metatype Service Specification''. A
-\class{MetaTypeProvider} can be thought of as a collection of UIs. Each UI is
-called an \class{ObjectClassDefinition}, which provides a UI name and description
-and is a collection of parameters. Each parameter is an
+\class{MetaTypeProvider} is a Java interface defined in the OSGi R4 Specification
+Service Compendium as part of the ``Metatype Service Specification,'' section
+105. A \class{MetaTypeProvider} can be thought of as a collection of UIs. Each UI
+is called an \class{ObjectClassDefinition}, which provides a UI name and
+description and is a collection of parameters. Each parameter is an
\class{AttributeDefinition} which includes the type, label, description, default
value, and range of valid values. Drop-down boxes can also be defined by using
option labels and values with the \class{AttributeDefinition}. OSGi's
Modified: trunk/core/org.cishell.docs/src/specification/tex/introduction.tex
===================================================================
--- trunk/core/org.cishell.docs/src/specification/tex/introduction.tex 2008-03-13 15:51:59 UTC (rev 655)
+++ trunk/core/org.cishell.docs/src/specification/tex/introduction.tex 2008-03-14 15:13:09 UTC (rev 656)
@@ -41,6 +41,9 @@
(IVC). Thanks go out to all those who have used or contributed to IVC, CIShell,
and the Network Workbench (the first project to use CIShell).
+Development of the Cyberinfrastructure Shell was funded by grants two from the
+National Science Foundation: NSF IIS-0238261 and NSF IIS-0513650.
+
\section{CIShell Platform Overview}
The CIShell Platform consists of Java interface definitions for algorithms, data,
@@ -81,8 +84,8 @@
\section{Conventions and Terms}
In this specification, algorithms are referred to in three different contexts. An
-abstract algorithm, is the pure idea of the algorithm with no actual source code.
-It is a series of steps sometimes put into psuedo-code and often published in
+abstract algorithm is the pure idea of the algorithm with no actual source code.
+It is a series of steps sometimes put into pseudo-code and often published in
academic journals. An \class{Algorithm} with a capital A refers to the Java class
called Algorithm. And finally, an algorithm with a lowercase A refers to the
bundle of code and metadata that encompasses an algorithm written to work with
Modified: trunk/core/org.cishell.docs/src/specification/tex/osgidependencies.tex
===================================================================
--- trunk/core/org.cishell.docs/src/specification/tex/osgidependencies.tex 2008-03-13 15:51:59 UTC (rev 655)
+++ trunk/core/org.cishell.docs/src/specification/tex/osgidependencies.tex 2008-03-14 15:13:09 UTC (rev 656)
@@ -27,29 +27,29 @@
\subsection*{Required Services}
\begin{description}
- \item[Metatype Service] as described in OSGi section 105 ``Metatype Service
- Specification,'' this service is used by CIShell to find
+ \item[Metatype Service] is described in OSGi section 105 ``Metatype Service
+ Specification.'' This service is used by CIShell to find
\class{MetaTypeProviders} for user interface specification, user-adjustable
preferences, and input parameters. It also provides an XML format for
automatically generating \class{MetaTypeProvider}s which the
\class{MetaTypeService} harvests for use.
- \item[Log Service] as described in OSGi section 101 ``Log Service
- Specification,'' this service is used as a universal logging system for
+ \item[Log Service] is described in OSGi section 101 ``Log Service
+ Specification.'' This service is used as a universal logging system for
algorithms and services. See chapter \ref{logService} for more details.
- \item[Preferences Service] as described in OSGi section 106 ``Preferences
- Service Specification,'' this service is used as a universal preference
+ \item[Preferences Service] is described in OSGi section 106 ``Preferences
+ Service Specification.'' This service is used as a universal preference
storage system for algorithms and services. See chapter \ref{preferencesService} for
more details.
- \item[Configuration Admin Service] as described in OSGi section 104
- ``Configuration Admin Service Specification,'' this service is used as a
+ \item[Configuration Admin Service] is described in OSGi section 104
+ ``Configuration Admin Service Specification.'' This service is used as a
manager/provider of configuration information for bundles and services. It is
- very useful for meeting the User Adjustable Preferences (section
+ useful for meeting the User Adjustable Preferences (section
\ref{userPrefsSpec}) requirements.
\end{description}
\subsection*{Recommended Services}
\begin{description}
- \item[Declarative Services] as described in OSGi section 112 ``Declarative
- Services Specification,'' this service can be used by CIShell algorithms to
+ \item[Declarative Services] is described in OSGi section 112 ``Declarative
+ Services Specification.'' This service can be used by CIShell algorithms to
simplify algorithm service registration and for finding necessary auxilary services.
\end{description}
Modified: trunk/core/org.cishell.docs/src/specification/tex/useradjustableprefs.tex
===================================================================
--- trunk/core/org.cishell.docs/src/specification/tex/useradjustableprefs.tex 2008-03-13 15:51:59 UTC (rev 655)
+++ trunk/core/org.cishell.docs/src/specification/tex/useradjustableprefs.tex 2008-03-14 15:13:09 UTC (rev 656)
@@ -38,7 +38,7 @@
\class{ManagedService}. See section \ref{GUISpec} for more information.
\subsubsection*{Designate an OCD a Persistent ID (PID)} Then they must designate
-the \class{ObjectClassDefinition} a persistent id (PID). The PID can be
+the \class{ObjectClassDefinition} a unique persistent id (PID). The PID can be
designated in two ways. The simplest way is by following the convention of
creating a string with the associated service's ``service.pid'' and appending
either ``.prefs.local'' or ``.prefs.global''. The other way is to designate
@@ -65,15 +65,15 @@
\subsubsection*{Receiving Preference Data} To be notified of changes to local or
global preferences, the service must implement
\class{org.\-osgi.\-service.\-cm.\-ManagedService} and set in their service
-metadata ``receive\_prefs=true''. When either the local or global preferences are updated,
-the updated method will be passed a \class{Dictionary} of all of the id/value
-pairs, including the updated ones. Local preferences will have the same ids as
-the \class{AttributeDefinition}s (AD) defined in the associated OCD. The local
-preferences will also have an additional id ``Bundle-Version", which contains the
-version of the service's associated bundle that was used when the preference data
-was last updated. Global preferences will have the same ids (plus a
-``Bundle-Version'' id analagous to local preference's) from their OCD's ADs
+metadata ``receive\_prefs=true''. When either the local or global preferences are
+updated, the updated method will be passed a \class{Dictionary} of all of the
+id/value pairs, including the updated ones. Local preferences will have the same
+ids as the \class{AttributeDefinition}s (AD) defined in the associated OCD. The
+local preferences will also have an additional id ``Bundle-Version", which
+contains the version of the service's associated bundle that was used when the
+preference data was last updated. Global preferences will have the same ids (plus
+a ``Bundle-Version'' id analagous to local preference's) from their OCD's ADs
prefixed by the PID of the published global preference. In this way, all global
preferences published in the system will be available to anyone receiving
-preference data. Note that one does not have to publish any preferences to
-receive just global preference data.
+preference data. Note that global preferences can be received without publishing
+preferences.
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