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Yoav Artzi  committed 9781415

# v1.5
- Better support for closed and open ontologies
- Add option to allow using an ontology or not
- Ontologies may now be closed or open
- Explicit way to dynamically define new constants outside of .ont files
- Consolidate unit tests in a separate project
- Remove some unused code
- Removing stripping of redundant lambda operators
- Simplifying to the canonical form doesn't strip redundant lambda operator.
- All implicit lambda operators are always present in the logical form.
- Converting a logical form to a string strips lambda operators for readability.
- Missing lambda operator in input logical expressions are added.
- Safety assertion in various constructors
- Improved support for joint inference and situated language
- GeoQuery example experiment without the experiment platform -- possibly a better way to get to know the code for some.
- Remove old storage mechanism and add support for saving models using serialization, including helper methods in the Model class.
- Removed concept of fixed lexical entry.
- No distinction between fixed lexical entries and normal ones.
- Initialization of seed entries is done using model initializers.
- Migrate all creators to inside the class they are creating (as internal classes).
- Fix bug with initializing the lexicon.
- Remove unused typing features.
- Better and more consistent typing validation and type consistency checks across the framework.
- Remove support for unary parse rules. Unary operations are now supported only through overloading binary rules. See RuleSetBuilder.
- Hash vector improvements
- Pairwise hash vector product.
- Add method to apply a function all values in the hash vector.
- Attach Arxiv publication PDF and BIB files to source code.

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  • Parent commits 4700157
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File ChangeLog.md

+# v1.5
+- Better support for closed and open ontologies
+	- Add option to allow using an ontology or not
+	- Ontologies may now be closed or open
+	- Explicit way to dynamically define new constants outside of .ont files
+- Consolidate unit tests in a separate project
+- Remove some unused code
+- Removing stripping of redundant lambda operators
+	- Simplifying to the canonical form doesn't strip redundant lambda operator. 
+	- All implicit lambda operators are always present in the logical form. 
+	- Converting a logical form to a string strips lambda operators for readability. 
+	- Missing lambda operator in input logical expressions are added.
+- Safety assertion in various constructors
+- Improved support for joint inference and situated language
+- GeoQuery example experiment without the experiment platform -- possibly a better way to get to know the code for some.
+- Remove old storage mechanism and add support for saving models using serialization, including helper methods in the Model class.
+- Removed concept of fixed lexical entry.
+	- No distinction between fixed lexical entries and normal ones.
+	- Initialization of seed entries is done using model initializers.
+- Migrate all creators to inside the class they are creating (as internal classes).
+- Fix bug with initializing the lexicon.
+- Remove unused typing features.
+- Better and more consistent typing validation and type consistency checks across the framework. 
+- Remove support for unary parse rules. Unary operations are now supported only through overloading binary rules. See RuleSetBuilder.
+- Hash vector improvements
+	- Pairwise hash vector product.
+	- Add method to apply a function all values in the hash vector.
+- Attach Arxiv publication PDF and BIB files to source code.
+
+# v1.4.1
+- Cleaned up using of generics throughout the system. Generic classes should now compatible
+- Better logging system - all logs are now public and can be controlled from outside SPF without editing SPF's code
+- Javadocs for many generic classes
+- Better abstraction in ExPlat's experiment hierarchy
+- Better representations of situated data items
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+  <div id="wrapper">
+      <div style="float: right"><img src="http://yoavartzi.com/img/uw.png" height="120px" alt="UW logo" /></div>
+
+<h1 id="uwspfv1.5-theuniversityofwashingtonsemanticparsingframeworkv1.5"><a href="http://yoavartzi.com/spf"><em><strong>UW SPF v1.5</strong></em></a> - The University of Washington Semantic Parsing Framework v1.5</h1>
+
+
+<ul style="display: block;" id="mkreplaced-toc" class="max-6"><li class="notmissing"><ul><li class="notmissing"><a href="#authors" class="wiki-link">Authors</a></li><li class="notmissing"><a href="#attribution" class="wiki-link">Attribution</a><ul><li class="notmissing"><a href="#validation-basedlearningjointinferenceandcoarse-to-finelexicalgeneration" class="wiki-link">Validation-based learning, joint inference and coarse-to-fine lexical generation</a></li><li class="notmissing"><a href="#loss-sensitivelearning" class="wiki-link">Loss-sensitive learning</a></li><li class="notmissing"><a href="#unification-basedgenlex" class="wiki-link">Unification-based GENLEX</a></li><li class="notmissing"><a href="#factoredlexicons" class="wiki-link">Factored lexicons</a></li><li class="notmissing"><a href="#template-basedgenlex" class="wiki-link">Template-based GENLEX</a></li></ul></li><li class="notmissing"><a href="#documentation" class="wiki-link">Documentation</a><ul><li class="notmissing"><a href="#building" class="wiki-link">Building</a></li><li class="notmissing"><a href="#runningexampleexperiments" class="wiki-link">Running example experiments</a></li><li class="notmissing"><a href="#workingwiththecode" class="wiki-link">Working with the Code</a></li><li class="notmissing"><a href="#gettingtoknowthecode" class="wiki-link">Getting to Know the Code</a></li><li class="notmissing"><a href="#logginginspf" class="wiki-link">Logging in SPF</a></li><li class="notmissing"><a href="#explat" class="wiki-link">ExPlat</a><ul><li class="notmissing"><a href="#globalparameters" class="wiki-link">Global Parameters</a></li><li class="notmissing"><a href="#resources" class="wiki-link">Resources</a></li><li class="notmissing"><a href="#jobs" class="wiki-link">Jobs</a></li></ul></li><li class="notmissing"><a href="#workingwithlogicalexpressions" class="wiki-link">Working with Logical Expressions</a></li><li class="notmissing"><a href="#combinatorycategorialgrammarsccgsinspf" class="wiki-link">Combinatory Categorial Grammars (CCGs) in SPF</a><ul><li class="notmissing"><a href="#basicoperationsoncategories" class="wiki-link">Basic Operations on Categories</a></li></ul></li><li class="notmissing"><a href="#troubleshooting" class="wiki-link">Troubleshooting</a></li></ul></li><li class="notmissing"><a href="#publicationsandprojectsusingspf" class="wiki-link">Publications and Projects Using SPF</a></li><li class="notmissing"><a href="#acknowledgements" class="wiki-link">Acknowledgements</a></li><li class="notmissing"><a href="#license" class="wiki-link">License</a></li></ul></li></ul>
+
+
+
+<h2 id="authors">Authors</h2>
+
+<p><strong>Developed and maintained by</strong> <a href="http://yoavartzi.com">Yoav Artzi</a><br/>
+<strong>Contributors:</strong> <a href="http://homes.cs.washington.edu/~lsz/">Luke Zettlemoyer</a>, <a href="http://homes.cs.washington.edu/~tomk/">Tom Kwiatkowski</a> </p>
+
+<h2 id="attribution">Attribution</h2>
+
+<p>When using UW SPF, please acknowledge it by citing: </p>
+
+<p>Artzi, Y., &amp; Zettlemoyer, L. (2013). UW SPF: The University of Washington Semantic Parsing Framework. </p>
+
+<p><a href="http://yoavartzi.com/pub/az-arxiv.2013.bib"><strong>Bibtex:</strong></a></p>
+
+<pre><code>@misc{Artzi:13spf,
+    Author = {Yoav Artzi and Luke Zettlemoyer},
+    Title = {{UW SPF: The University of Washington Semantic Parsing Framework}},
+    Year = {2013},
+    Eprint = {arXiv:1311.3011},
+}  
+</code></pre>
+
+<p>The article and bib file are both attached to the source code. When using specific algorithms please cite the appropriate work (see below). </p>
+
+<h3 id="validation-basedlearningjointinferenceandcoarse-to-finelexicalgeneration">Validation-based learning, joint inference and coarse-to-fine lexical generation</h3>
+
+<p>Yoav Artzi and Luke Zettlemoyer. <a href="http://yoavartzi.com/pub/az-tacl.2013.pdf">Weakly Supervised Learning of Semantic Parsers for Mapping Instructions to Actions</a>. In Transactions of the Association for Computational Linguistics (TACL), 2013. </p>
+
+<h3 id="loss-sensitivelearning">Loss-sensitive learning</h3>
+
+<p>Yoav Artzi and Luke Zettlemoyer. <a href="http://yoavartzi.com/pub/az-emnlp.2011.pdf">Bootstrapping Semantic Parsers from Conversations</a>. In Proceedings of the Conference on Empirical Methods in Natural Language Processing (EMNLP), 2011. </p>
+
+<h3 id="unification-basedgenlex">Unification-based GENLEX</h3>
+
+<p>Tom Kwiatkowski, Luke Zettlemoyer, Sharon Goldwater, and Mark Steedman. <a href="http://homes.cs.washington.edu/~lsz/papers/kzgs-emnlp2010.pdf">Inducing Probabilistic CCG Grammars from Logical Form with Higher-order Unification</a>. In Proceedings of the Conference on Empirical Methods in Natural Language Processing (EMNLP), 2010. </p>
+
+<h3 id="factoredlexicons">Factored lexicons</h3>
+
+<p>Tom Kwiatkowski, Luke Zettlemoyer, Sharon Goldwater, and Mark Steedman. <a href="http://homes.cs.washington.edu/~lsz/papers/kzgs-emnlp2011.pdf">Lexical Generalization in CCG Grammar Induction for Semantic Parsing</a>. In Proceedings of the Conference on Empirical Methods in Natural Language Processing (EMNLP), 2011. </p>
+
+<h3 id="template-basedgenlex">Template-based GENLEX</h3>
+
+<p>Luke Zettlemoyer and Michael Collins. <a href="http://homes.cs.washington.edu/~lsz/papers/zc-emnlp07.pdf">Online Learning of Relaxed CCG Grammars for Parsing to Logical Form</a>. In Proceedings of the Joint Conference on Empirical Methods in Natural Language Processing and Computational Natural Language Learning (EMNLP-CoNLL), 2007. </p>
+
+<p>Luke Zettlemoyer and Michael Collins. <a href="http://homes.cs.washington.edu/~lsz/papers/zc-uai05.pdf">Learning to Map Sentences to Logical Form: Structured Classification with Probabilistic Categorial Grammars</a>. In Proceedings of the Twenty First Conference on Uncertainty in Artificial Intelligence (UAI), 2005. </p>
+
+<h2 id="documentation">Documentation</h2>
+
+<p><strong>We are constantly updating this section.</strong> </p>
+
+<p>See our ACL 2013 tutorial for general information about semantic parsing with CCGs. The slides are available <a href="http://yoavartzi.com/pub/afz-tutorial.acl.2013.pdf">here</a>. </p>
+
+<h3 id="building">Building</h3>
+
+<p>To compile SPF use: <code>ant dist</code>. The output JAR file will be in the <code>dist</code> directory. You can also download the compiled JAR file from the <a href="https://bitbucket.org/yoavartzi/spf/downloads">downloads</a> section. </p>
+
+<h3 id="runningexampleexperiments">Running example experiments</h3>
+
+<p>The framework contains an example experiment using the GeoQuery corpus. To use development fold 0 for testing, and training on the other folds, use:<br/>
+<code>java -jar dist/spf-1.4.jar geoquery/experiments/template/dev.cross/dev.fold0.exp</code><br/>
+The log and output files are written to a newly generated directory in the experiment directory:<br/>
+<code>geoquery/experiments/template/dev.cross/</code> </p>
+
+<p>View the .exp file and see how it defines arguments and how it includes them from other files. Another critical point of entry is the class <code>edu.uw.cs.lil.tiny.geoquery.GeoMain</code>. The experiments platform (ExPlat) is reviewed <a href="#explat">below</a>. </p>
+
+<h3 id="workingwiththecode">Working with the Code</h3>
+
+<p>The code is divided into many projects with dependencies between them. You can work with the code with in editor and build it with the accompanying ANT script. However, we recommend using Eclipse. Each directory is an Eclipse project and can be easily imported into Eclipse. To do so select <code>Import</code> from the <code>File</code> menu and choose <code>Existing Projects into Workspace</code>. The <code>Root Directory</code> should be the code directory and all projects should be selected by default. The dependencies will be imported automatically. To successfully build SPF in Eclipse you will need to set the classpath variable <code>TINY_REPO</code> to the code directory. To so go to <code>Preferences</code> -&gt; <code>Java</code> -&gt; <code>Build Path</code> -&gt; <code>Classpath Variables</code>, add a new variable with the name <code>TINY_REPO</code> and a folder value that points to the repository location. </p>
+
+<h3 id="gettingtoknowthecode">Getting to Know the Code</h3>
+
+<p>There are two ways to use SPF. The first is by simply calling the code in your own classes. To see how a complete experiment can be set up programmatically please see <code>edu.uw.cs.lil.tiny.geoquery.GeoExpSimple</code>. The <code>main(String[])</code> method in this class initializes the framework, instantiates all required objects for inference, learning and testing and launches the appropriate jobs in order. A slightly more robust way to conduct experiments is provided by the <a href="#explat">ExPlat</a> internal experiments framework. The previously mentioned example experiments are using ExPlat. </p>
+
+<h3 id="logginginspf">Logging in SPF</h3>
+
+<p>SPF&#8217;s logging system should be initialized prior to using the framework. Including the default output stream (e.g., <code>Logger.DEFAULT_LOG = new Log(System.err);</code>) and log threshold (e.g., <code>LogLevel.setLogLevel(LogLevel.INFO);</code>). Only log messages of the set threshold or above will be logged. Each log messages is prefixed by the originating class by default, to turn off this behavior use <code>Logger.setSkipPrefix(true);</code>. When using <a href="#explat">ExPlat</a>, logging messages are printed to job specific files, which are stored in a special directory created for the experiment. </p>
+
+<p>All classes that output log messages include a public static object called <code>LOG</code> of type <code>edu.uw.cs.utils.log.ILogger</code>. All logging messages within the class are created using the logger. This object also provides more granular control of the logging level. You may set a custom log level for each class. For example, to set the log level for the multi-threaded parser to DEBUG use <code>edu.uw.cs.lil.tiny.parser.ccg.cky.multi.MultiCKYParser.LOG.setCustomLevel(LogLevel.DEBUG)</code>. Note that this will only affect the log messages created within this class, and not any parent or child classes. </p>
+
+<p>Want to use the logging system in your own code or add new log messages? You can view the interface <code>edu.uw.cs.utils.log.ILogger</code> to see what logging methods are available. </p>
+
+<h3 id="explat">ExPlat</h3>
+
+<p>ExPlat is SPF&#8217;s experiments platform. It&#8217;s intended to streamline experiments and help you avoid huge <code>main(String[])</code> methods that just initialize one things after the other and are a pain to update. </p>
+
+<p>An ExPlat experiments is defined by two parts: a backend class in the code and a .exp file. For example, consider the GeoQuery experiment accompanying SPF. The class <code>edu.uw.cs.lil.tiny.geoquery.GeoExp</code> provides the backend code, while the .exp files in <code>geoquery/experiments</code> define the resources used and the jobs to be executed. For example, the file <code>geoquery/experiments/template/test/test.exp</code> defines the evaluation experiment. In this experiment we use the 10 development folds for training and test on the held-out set. </p>
+
+<p>Each .exp file includes three sections separated by empty lines:<br/>
+1. Global parameters<br/>
+2. Resources<br/>
+3. Jobs<br/>
+Empty lines may not appear in any part of the .exp file or any included files, except to separate between the three sections. In general, each line includes a single directive. The <code>include=&lt;file&gt;</code> directive may be used at any point to include a file. The file is included in similar style to C include statements, meaning: the text is pasted instead of the <code>include</code> directive. The path of the included file should be relative to the location of the .exp file. Each directive (line) is a white-space separated sequence of key-value pairs (<code>key=value</code>). To refer to the value of a previously defined parameters use <code>%{parameter_name}</code> in the value slot. The reference is resolved first in the local scope of the current directive, and if no parameter of that name is found, it is resolved in the scope of the global parameters. The parameters are read in sequence and the namespace of the current directive is updated in that order. </p>
+
+<h4 id="globalparameters">Global Parameters</h4>
+
+<p>This section includes various parameters that may be used when defining resources and jobs later. Each parameter is defined as a key-value directive: <code>key=value</code>. Each directive defines a single parameter. The values are read as strings. The parameters are either used in the code or by the rest of the .exp file. For example, to see which parameters are used by the GeoQuery experiment, see the parameters read by the constructor of <code>edu.uw.cs.lil.tiny.geoquery.GeoExp</code> and the classes it extends. </p>
+
+<h4 id="resources">Resources</h4>
+
+<p>Each directive in this section defines a resource that can be used later, either in other resources or in jobs. The <code>id</code> parameter defines the name of the resource. Resources IDs may not override previously defined names. The <code>type</code> parameter defines the type of the resource. The available resources are registered in the code. For example, the class <code>edu.uw.cs.lil.tiny.geoquery.GeoResourceRepo</code> is responsible for registering resources for the GeoQuery experiment. To use a resource its creator is registered. A creator is basically a factory that is able to get a directive in the form of parameters, interpret them and instantiate an object. The <code>type()</code> of each creator provides the type of the resource. The other key-value pairs provide various parameters that are interpreted by the resource creator. See the creators themselves for the available parameters. All creators implement the interface <code>edu.uw.cs.lil.tiny.explat.resources.IResourceObjectCreator</code>. The resource creators each define a usage() function which documents the available parameters of the resource. </p>
+
+<h4 id="jobs">Jobs</h4>
+
+<p>Each directive in this section defines a job to be executed. The type of the job is defined by the <code>type</code> parameter. The ID of the job is defined by the <code>id</code> parameter. The jobs on which this job depends are defined by the <code>dep</code> parameter, which includes a comma-separated list of job IDs. Jobs are executed in parallel, unless a dependency is declared. The rest of the parameters define arguments for the job. These may refer to resources, global parameters or directly include values. Job directives are interpreted by methods in the experiment class. For example, in the GeoQuery experiment the class <code>edu.uw.cs.lil.tiny.geoquery.GeoExp</code> includes a number of methods to read job directives and create jobs, see the method <code>createJob(Parameters)</code> for the available job types and the methods that handle them. </p>
+
+<h3 id="workingwithlogicalexpressions">Working with Logical Expressions</h3>
+
+<p>See <code>LogicalLanaguageServices</code> for the main service class that is required for the logical language to work. Most operations on logical expressions are done using the visitor design pattern, see <code>ILogicalExpressionVisitor</code>. </p>
+
+<p>More coming soon &#8230; </p>
+
+<h3 id="combinatorycategorialgrammarsccgsinspf">Combinatory Categorial Grammars (CCGs) in SPF</h3>
+
+<p>Coming soon &#8230; </p>
+
+<h4 id="basicoperationsoncategories">Basic Operations on Categories</h4>
+
+<p>See <code>ICatagoeryServices</code>. </p>
+
+<p>More coming soon &#8230; </p>
+
+<h3 id="troubleshooting">Troubleshooting</h3>
+
+<p><strong>I am getting NaNs and/or infinity values in my updates or an exception saying my updates are invalid.</strong><br/>
+If you are using an exponentiated model with gradient updates, try to adjust the learning rate. With an exponentiated model the values might get too large and it&#8217;s advised to scale them down. </p>
+
+<p><strong>I am having trouble re-creating the results from Kwiatkowski et al. 2010 and Kwiatkowski et al. 2011 with the Unification-based GENLEX procedure.</strong><br/>
+The unification code in SPF is not identical to the original paper. The code for the original paper is available <a href="https://homes.cs.washington.edu/~lsz/code/UBL.tgz">online</a>. If you want to re-create the results, this is the way to go. This code is basically a very old version of what SPF started from. Be warned, it&#8217;s messy. The code in SPF is doing a few things differently, including more liberal splitting and no support of certain features that the original code contains. We hope to bring SPF&#8217;s version of splitting closer to the original paper in the future. </p>
+
+<h2 id="publicationsandprojectsusingspf">Publications and Projects Using SPF</h2>
+
+<p>Please let us know if you used SPF in your published work and we will be happy to list it here. </p>
+
+<p>Tom Kwiatkowski, Eunsol Choi, Yoav Artzi and Luke Zettlemoyer. <a href="http://yoavartzi.com/pub/kcaz-emnlp.2013.pdf">Scaling Semantic Parsers with On-the-fly Ontology Matching</a>. In Proceedings of the Conference on Empirical Methods in Natural Language Processing (EMNLP), 2013. </p>
+
+<p>Nicholas FitzGerald, Yoav Artzi and Luke Zettlemoyer. <a href="http://yoavartzi.com/pub/faz-emnlp.2013.pdf">Learning Distributions over Logical Forms for Referring Expression Generation</a>. In Proceedings of the Conference on Empirical Methods in Natural Language Processing (EMNLP), 2013. <a href="http://yoavartzi.com/navi">Code and data</a>. </p>
+
+<p>Yoav Artzi and Luke Zettlemoyer. <a href="http://yoavartzi.com/pub/az-tacl.2013.pdf">Weakly Supervised Learning of Semantic Parsers for Mapping Instructions to Actions</a>. In Transactions of the Association for Computational Linguistics (TACL), 2013. </p>
+
+<h2 id="acknowledgements">Acknowledgements</h2>
+
+<p>We would like to thank our early users for helping making SPF better:<br/>
+Eunsol Choi, The University of Washington<br/>
+Sebastian Beschke, Hamburg University<br/>
+Nicholas FitzGerald, The University of Washington<br/>
+Tom Kwiatkowski, The University of Washington<br/>
+Jun Ki Lee, Brown University<br/>
+Kenton Lee, The University of Washington<br/>
+Gabriel Schubiner, The University of Washington<br/>
+Adrienne Wang, The University of Washington </p>
+
+<h2 id="license">License</h2>
+
+<p>UW SPF - The University of Washington Semantic Parsing Framework. Copyright (C) 2013 Yoav Artzi </p>
+
+<p>This program is free software; you can redistribute it and/or modify it under<br/>
+the terms of the GNU General Public License as published by the Free Software<br/>
+Foundation; either version 2 of the License, or any later version. </p>
+
+<p>This program is distributed in the hope that it will be useful, but WITHOUT<br/>
+ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS<br/>
+FOR A PARTICULAR PURPOSE. See the GNU General Public License for more<br/>
+details. </p>
+
+<p>You should have received a copy of the GNU General Public License along with<br/>
+this program; if not, write to the Free Software Foundation, Inc., 51<br/>
+Franklin Street, Fifth Floor, Boston, MA 02110&#8211;1301, USA.</p>
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time_vector"},i:"{",c:[a.CBLCLM,{cN:"comment",b:"--",e:"$"},a.QSM,a.CNM,{cN:"literal",b:"'(U|X|0|1|Z|W|L|H|-)'",c:[a.BE]},{cN:"attribute",b:"'[A-Za-z](_?[A-Za-z0-9])*",c:[a.BE]}]}}(hljs);hljs.LANGUAGES.xml=function(a){var c="[A-Za-z0-9\\._:-]+";var b={eW:true,r:0,c:[{cN:"attribute",b:c,r:0},{b:'="',rB:true,e:'"',c:[{cN:"value",b:'"',eW:true}]},{b:"='",rB:true,e:"'",c:[{cN:"value",b:"'",eW:true}]},{b:"=",c:[{cN:"value",b:"[^\\s/>]+"}]}]};return{cI:true,c:[{cN:"pi",b:"<\\?",e:"\\?>",r:10},{cN:"doctype",b:"<!DOCTYPE",e:">",r:10,c:[{b:"\\[",e:"\\]"}]},{cN:"comment",b:"<!--",e:"-->",r:10},{cN:"cdata",b:"<\\!\\[CDATA\\[",e:"\\]\\]>",r:10},{cN:"tag",b:"<style(?=\\s|>|$)",e:">",k:{title:"style"},c:[b],starts:{e:"</style>",rE:true,sL:"css"}},{cN:"tag",b:"<script(?=\\s|>|$)",e:">",k:{title:"script"},c:[b],starts:{e:"<\/script>",rE:true,sL:"javascript"}},{b:"<%",e:"%>",sL:"vbscript"},{cN:"tag",b:"</?",e:"/?>",r:0,c:[{cN:"title",b:"[^ /><]+"},b]}]}}(hljs);</script>
+<script>hljs.initHighlightingOnLoad();</script>
+</div>
+<div style="display:none">
+<!--This seemingly unnecessary div markup is the only thing keeping this script working after Markdown conversion. Trust me.-->
+<script type="text/javascript" src="http://cdn.mathjax.org/mathjax/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML-full"></script>
+</div>
+<!-- ##END MARKED WRAPPER## -->
+    </div>
+</body>
+</html>
-# [_**UW SPF v1.4.1**_](http://yoavartzi.com/spf) - The University of Washington Semantic Parsing Framework v1.4.1
+Title: UW SPF - README
+Author: Yoav Artzi
+Affiliation: Computer Science and Engineering, The University of Washington
+Web: http://yoavartzi.com
 
-**Developed and maintained by** [Yoav Artzi](http://yoavartzi.com)
+<div style="float: right"><img src="http://yoavartzi.com/img/uw.png" height="120px" alt="UW logo" /></div>
 
-**Contributors:** [Luke Zettlemoyer](http://homes.cs.washington.edu/~lsz/), [Tom Kwiatkowski](http://homes.cs.washington.edu/~tomk/)
-
-## Documentations
-
-More coming soon … 
+# [_**UW SPF v1.5**_](http://yoavartzi.com/spf) - The University of Washington Semantic Parsing Framework v1.5 
 
-In the meantime, see the ACL 2013 tutorial for general information about semantic parsing with CCGs. The slides are available [here](http://yoavartzi.com).
+[TOC]
 
-# Building
+## Authors 
 
-To compile SPF use: `ant dist`. The output JAR file will be in the `dist` directory. You can also download the compiled JAR file from the [Downloads](https://bitbucket.org/yoavartzi/spf/downloads) section.
+**Developed and maintained by** [Yoav Artzi](http://yoavartzi.com)  
+**Contributors:** [Luke Zettlemoyer](http://homes.cs.washington.edu/~lsz/), [Tom Kwiatkowski](http://homes.cs.washington.edu/~tomk/)
 
 ## Attribution
 
 When using UW SPF, please acknowledge it by citing:
 
-Artzi, Yoav and Zettlemoyer, Luke. "UW SPF: The University of Washington Semantic Parsing Framework." http://yoavartzi.com/spf.  2013.
+Artzi, Y., & Zettlemoyer, L. (2013). UW SPF: The University of Washington Semantic Parsing Framework.
 
-**Bibtex:**
+[**Bibtex:**](http://yoavartzi.com/pub/az-arxiv.2013.bib)
 
-    @article{artzi2013uwspf,
-        title={{UW SPF: The University of Washington Semantic Parsing Framework}},
-        author={Artzi, Yoav and Zettlemoyer, Luke},
-        year={2013}
+    @misc{Artzi:13spf,
+	    Author = {Yoav Artzi and Luke Zettlemoyer},
+	    Title = {{UW SPF: The University of Washington Semantic Parsing Framework}},
+	    Year = {2013},
+	    Eprint = {arXiv:1311.3011},
     }
 
-When using specific algorithms please cite the appropriate work:
+The article and bib file are both attached to the source code. When using specific algorithms please cite the appropriate work (see below).
 
-### Validation based learning, joint inference and coarse-to-fine lexical generation
+### Validation-based learning, joint inference and coarse-to-fine lexical generation
 
 Yoav Artzi and Luke Zettlemoyer. [Weakly Supervised Learning of Semantic Parsers for Mapping Instructions to Actions](http://yoavartzi.com/pub/az-tacl.2013.pdf). In Transactions of the Association for Computational Linguistics (TACL), 2013.
 
-### Loss sensitive learning
+### Loss-sensitive learning
 
-Yoav Artzi and Luke Zettlemoyer. [Bootstrapping Semantic Parsers from Conversations](http://yoavartzi.com/pub/2011.emnlp.az.pdf). In Proceedings of the Conference on Empirical Methods in Natural Language Processing (EMNLP), 2011.
+Yoav Artzi and Luke Zettlemoyer. [Bootstrapping Semantic Parsers from Conversations](http://yoavartzi.com/pub/az-emnlp.2011.pdf). In Proceedings of the Conference on Empirical Methods in Natural Language Processing (EMNLP), 2011.
 
 ### Unification-based GENLEX
 
 
 Luke Zettlemoyer and Michael Collins. [Learning to Map Sentences to Logical Form: Structured Classification with Probabilistic Categorial Grammars](http://homes.cs.washington.edu/~lsz/papers/zc-uai05.pdf). In Proceedings of the Twenty First Conference on Uncertainty in Artificial Intelligence (UAI), 2005.
 
+## Documentation
+
+**We are constantly updating this section.**
+
+See our ACL 2013 tutorial for general information about semantic parsing with CCGs. The slides are available [here](http://yoavartzi.com/pub/afz-tutorial.acl.2013.pdf).
+
+### Building
+
+To compile SPF use: `ant dist`. The output JAR file will be in the `dist` directory. You can also download the compiled JAR file from the [downloads](https://bitbucket.org/yoavartzi/spf/downloads) section.
+
+### Running example experiments
+
+The framework contains an example experiment using the GeoQuery corpus. To use development fold 0 for testing, and training on the other folds, use:
+``java -jar dist/spf-1.4.jar geoquery/experiments/template/dev.cross/dev.fold0.exp``  
+The log and output files are written to a newly generated directory in the experiment directory:
+``geoquery/experiments/template/dev.cross/``
+
+View the .exp file and see how it defines arguments and how it includes them from other files. Another critical point of entry is the class ``edu.uw.cs.lil.tiny.geoquery.GeoMain``. The experiments platform (ExPlat) is reviewed [below][explat].
+
+### Working with the Code
+
+The code is divided into many projects with dependencies between them. You can work with the code with in editor and build  it with the accompanying ANT script. However, we recommend using Eclipse. Each directory is an Eclipse project and can be easily imported into Eclipse. To do so select ``Import`` from the ``File`` menu and choose ``Existing Projects into Workspace``. The ``Root Directory`` should be the code directory and all projects should be selected by default. The dependencies will be imported automatically. To successfully build SPF in Eclipse you will need to set the classpath variable ``TINY_REPO`` to the code directory. To so go to ``Preferences`` -> ``Java`` -> ``Build Path`` -> ``Classpath Variables``, add a new variable with the name `TINY_REPO` and a folder value that points to the repository location. 
+
+### Getting to Know the Code
+
+There are two ways to use SPF. The first is by simply calling the code in your own classes. To see how a complete experiment can be set up programmatically please see  `edu.uw.cs.lil.tiny.geoquery.GeoExpSimple`. The `main(String[])` method in this class initializes the framework, instantiates all required objects for inference, learning and testing and launches the appropriate jobs in order. A slightly more robust way to conduct experiments is provided by the [ExPlat][explat] internal experiments framework. The previously mentioned example experiments are using ExPlat.
+
+### Logging in SPF
+
+SPF's logging system should be initialized prior to using the framework. Including the default output stream (e.g., `Logger.DEFAULT_LOG = new Log(System.err);`) and log threshold (e.g., `LogLevel.setLogLevel(LogLevel.INFO);`). Only log messages of the set threshold or above will be logged. Each log messages is prefixed by the originating class by default, to turn off this behavior use `Logger.setSkipPrefix(true);`. When using [ExPlat][explat], logging messages are printed to job specific files, which are stored in a special directory created for the experiment. 
+
+All classes that output log messages include a public static object called `LOG` of type `edu.uw.cs.utils.log.ILogger`. All logging messages within the class are created using the logger. This object also provides more granular control of the logging level. You may set a custom log level for each class. For example, to set the log level for the multi-threaded parser to DEBUG use `edu.uw.cs.lil.tiny.parser.ccg.cky.multi.MultiCKYParser.LOG.setCustomLevel(LogLevel.DEBUG)`. Note that this will only affect the log messages created within this class, and not any parent or child classes. 
+
+Want to use the logging system in your own code or add new log messages? You can view the interface `edu.uw.cs.utils.log.ILogger` to see what logging methods are available.
+
+### ExPlat[explat]
+
+ExPlat is SPF's experiments platform. It's intended to streamline experiments and help you avoid huge `main(String[])` methods that just initialize one things after the other and are a pain to update. 
+
+An ExPlat experiments is defined by two parts: a backend class in the code and a .exp file. For example, consider the GeoQuery experiment accompanying SPF. The class `edu.uw.cs.lil.tiny.geoquery.GeoExp` provides the backend code, while the .exp files in `geoquery/experiments` define the resources used and the jobs to be executed. For example, the file `geoquery/experiments/template/test/test.exp` defines the evaluation experiment. In this experiment we use the 10 development folds for training and test on the held-out set.
+
+Each .exp file includes three sections separated by empty lines:  
+1. Global parameters  
+2. Resources  
+3. Jobs  
+Empty lines may not appear in any part of the .exp file or any included files, except to separate between the three sections. In general, each line includes a single directive. The `include=<file>` directive may be used at any point to include a file. The file is included in similar style to C include statements, meaning: the text is pasted instead of the `include` directive. The path of the included file should be relative to the location of the .exp file. Each directive (line) is a white-space separated sequence of key-value pairs (`key=value`). To refer to the value of a previously defined parameters use `%{parameter_name}` in the value slot. The reference is resolved first in the local scope of the current directive, and if no parameter of that name is found, it is resolved in the scope of the global parameters. The parameters are read in sequence and the namespace of the current directive is updated in that order. 
+
+#### Global Parameters
+This section includes various parameters that may be used when defining resources and jobs later. Each parameter is defined as a key-value directive: `key=value`. Each directive defines a single parameter. The values are read as strings. The parameters are either used in the code or by the rest of the .exp file. For example, to see which parameters are used by the GeoQuery experiment, see the parameters read by the constructor of `edu.uw.cs.lil.tiny.geoquery.GeoExp` and the classes it extends.
+
+#### Resources
+Each directive in this section defines a resource that can be used later, either in other resources or in jobs. The `id` parameter defines the name of the resource. Resources IDs may not override previously defined names. The `type` parameter defines the type of the resource. The available resources are registered in the code. For example, the class `edu.uw.cs.lil.tiny.geoquery.GeoResourceRepo` is responsible for registering resources for the GeoQuery experiment. To use a resource its creator is registered. A creator is basically a factory that is able to get a directive in the form of parameters, interpret them and instantiate an object. The `type()` of each creator provides the type of the resource. The other key-value pairs provide various parameters that are interpreted by the resource creator. See the creators themselves for the available parameters. All creators implement the interface `edu.uw.cs.lil.tiny.explat.resources.IResourceObjectCreator`. The resource creators each define a usage() function which documents the available parameters of the resource.
+
+
+#### Jobs
+Each directive in this section defines a job to be executed. The type of the job is defined by the `type` parameter. The ID of the job is defined by the `id` parameter. The jobs on which this job depends are defined by the `dep` parameter, which includes a comma-separated list of job IDs. Jobs are executed in parallel, unless a dependency is declared. The rest of the parameters define arguments for the job. These may refer to resources, global parameters or directly include values. Job directives are interpreted by methods in the experiment class. For example, in the GeoQuery experiment the class `edu.uw.cs.lil.tiny.geoquery.GeoExp` includes a number of methods to read job directives and create jobs, see the method `createJob(Parameters)` for the available job types and the methods that handle them.
+
+### Working with Logical Expressions
+
+See `LogicalLanaguageServices` for the main service class that is required for the logical language to work. Most operations on logical expressions are done using the visitor design pattern, see `ILogicalExpressionVisitor`. 
+
+More coming soon ... 
+
+### Combinatory Categorial Grammars (CCGs) in SPF
+
+Coming soon ... 
+
+#### Basic Operations on Categories
+
+See `ICatagoeryServices`.
+
+More coming soon ... 
+
+### Troubleshooting
+
+**I am getting NaNs and/or infinity values in my updates or an exception saying my updates are invalid.**  
+If you are using an exponentiated model with gradient updates, try to adjust the learning rate. With an exponentiated model the values might get too large and it's advised to scale them down.
+
+**I am having trouble re-creating the results from Kwiatkowski et al. 2010 and Kwiatkowski et al. 2011 with the Unification-based GENLEX procedure.** 
+The unification code in SPF is not identical to the original paper. The code for the original paper is available [online](https://homes.cs.washington.edu/~lsz/code/UBL.tgz). If you want to re-create the results, this is the way to go. This code is basically a very old version of what SPF started from. Be warned, it's messy. The code in SPF is doing a few things differently, including more liberal splitting and no support of certain features that the original code contains. We hope to bring SPF's version of splitting closer to the original paper in the future. 
+
+## Publications and Projects Using SPF
+
+Please let us know if you used SPF in your published work and we will be happy to list it here. 
+
+Tom Kwiatkowski, Eunsol Choi, Yoav Artzi and Luke Zettlemoyer. [Scaling Semantic Parsers with On-the-fly Ontology Matching](http://yoavartzi.com/pub/kcaz-emnlp.2013.pdf). In Proceedings of the Conference on Empirical Methods in Natural Language Processing (EMNLP), 2013.
+
+Nicholas FitzGerald, Yoav Artzi and Luke Zettlemoyer. [Learning Distributions over Logical Forms for Referring Expression Generation](http://yoavartzi.com/pub/faz-emnlp.2013.pdf). In Proceedings of the Conference on Empirical Methods in Natural Language Processing (EMNLP), 2013. [Code and data](http://yoavartzi.com/navi).
+
+Yoav Artzi and Luke Zettlemoyer. [Weakly Supervised Learning of Semantic Parsers for Mapping Instructions to Actions](http://yoavartzi.com/pub/az-tacl.2013.pdf). In Transactions of the Association for Computational Linguistics (TACL), 2013.
+
+## Acknowledgements
+
+We would like to thank our early users for helping making SPF better:  
+Eunsol Choi, The University of Washington  
+Sebastian Beschke, Hamburg University  
+Nicholas FitzGerald, The University of Washington  
+Tom Kwiatkowski, The University of Washington  
+Jun Ki Lee, Brown University 
+Kenton Lee, The University of Washington  
+Gabriel Schubiner, The University of Washington  
+Adrienne Wang, The University of Washington  
+
 ## License
 
 UW SPF - The University of Washington Semantic Parsing Framework. Copyright (C) 2013 Yoav Artzi

File VERSION_HISTORY.md

-# v1.4.1
-- Cleaned up using of generics throughout the system. Generic classes should now compatible
-- Better logging system - all logs are now public and can be controlled from outside SPF without editing SPF's code
-- Javadocs for many generic classes
-- Better abstraction in ExPlat's experiment hierarchy
-- Better representations of situated data items

File az-arxiv.2013.bib

+@misc{Artzi:13spf,
+	Author = {Yoav Artzi and Luke Zettlemoyer},
+	Title = {{UW SPF: The University of Washington Semantic Parsing Framework}},
+	Year = {2013},
+	Eprint = {arXiv:1311.3011},
+}

File az-arxiv.2013.pdf

Binary file added.

File build.properties

 src.mr.lambda=mr.lambda/src
 src.mr.lambda.ccg=mr.lambda.ccg/src
 src.mr.lambda.exec.naive=mr.lambda.exec.naive/src
-src.mr.lambda.exec.tabular=mr.lambda.exec.tabular/src
 src.parser.ccg=parser.ccg/src
 src.parser.ccg.cky=parser.ccg.cky/src
 src.parser.ccg.factoredlex=parser.ccg.factoredlex/src
 src.parser.ccg.rules.coordination = parser.ccg.rules.coordination/src
 src.parser.ccg.rules.coordination.lambda = parser.ccg.rules.coordination.lambda/src
 src.learn.simple = learn.simple/src
-src.storage = storage/src
 src.genlex.ccg = genlex.ccg/src
 src.genlex.ccg.template = genlex.ccg.template/src
 src.genlex.ccg.unification = genlex.ccg.unification/src
 <project name="spf" default="dist" basedir=".">
 	<description>
-        UW SPF build file
+        SPF build file
     </description>
 	<!-- set global properties for this build -->
 	<property file="build.properties" />
-	<property name="version" value="1.4.1" />
+	<property name="version" value="1.5" />
 	<property name="build" location="build" />
 	<property name="build.src" location="build.src" />
 	<property name="dist" location="dist" />
 		<mkdir dir="${build.src}" />
 		<copy todir="${build.src}" >
 			<fileset dir="${src.tinyutils}" includes="**/*.java" />
-			<fileset dir="${src.storage}" includes="**/*.java" />
 			<fileset dir="${src.geoquery}" includes="**/*.java" />
 			<fileset dir="${src.ccg}" includes="**/*.java" />
 			<fileset dir="${src.ccg.lexicon}" includes="**/*.java" />
 			<fileset dir="${src.mr.lambda}" includes="**/*.java" />
 			<fileset dir="${src.mr.lambda.ccg}" includes="**/*.java" />
 			<fileset dir="${src.mr.lambda.exec.naive}" includes="**/*.java" />
-			<fileset dir="${src.mr.lambda.exec.tabular}" includes="**/*.java" />
 			<fileset dir="${src.parser.ccg}" includes="**/*.java" />
 			<fileset dir="${src.parser.ccg.cky}" includes="**/*.java" />
 			<fileset dir="${src.parser.ccg.factoredlex}" includes="**/*.java" />
 		<javac debug="true" srcdir="${build.src}" destdir="${build}" includeantruntime="false">
 			<classpath refid="classpath" />
 			<compilerarg value="-Xlint"/>
+			<compilerarg value="-Xlint:-serial"/>
 		</javac>
 	</target>
 

File ccg.lexicon.factored.lambda/.classpath

 	<classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/>
 	<classpathentry combineaccessrules="false" kind="src" path="/ccg"/>
 	<classpathentry combineaccessrules="false" kind="src" path="/ccg.lexicon"/>
-	<classpathentry combineaccessrules="false" kind="src" path="/storage"/>
 	<classpathentry combineaccessrules="false" kind="src" path="/tinyutils"/>
 	<classpathentry combineaccessrules="false" kind="src" path="/mr.lambda"/>
+	<classpathentry kind="src" path="/explat"/>
 	<classpathentry kind="output" path="bin"/>
 </classpath>

File ccg.lexicon.factored.lambda/src/edu/uw/cs/lil/tiny/ccg/lexicon/factored/lambda/FactoredLexicon.java

 package edu.uw.cs.lil.tiny.ccg.lexicon.factored.lambda;
 
 import java.io.BufferedReader;
-import java.io.BufferedWriter;
 import java.io.File;
 import java.io.FileReader;
 import java.io.IOException;
 import edu.uw.cs.lil.tiny.ccg.categories.ICategoryServices;
 import edu.uw.cs.lil.tiny.ccg.lexicon.ILexicon;
 import edu.uw.cs.lil.tiny.ccg.lexicon.LexicalEntry;
-import edu.uw.cs.lil.tiny.ccg.lexicon.Lexicon;
+import edu.uw.cs.lil.tiny.explat.IResourceRepository;
+import edu.uw.cs.lil.tiny.explat.ParameterizedExperiment.Parameters;
+import edu.uw.cs.lil.tiny.explat.resources.IResourceObjectCreator;
+import edu.uw.cs.lil.tiny.explat.resources.usage.ResourceUsage;
 import edu.uw.cs.lil.tiny.mr.lambda.LogicalConstant;
 import edu.uw.cs.lil.tiny.mr.lambda.LogicalExpression;
 import edu.uw.cs.lil.tiny.mr.language.type.Type;
-import edu.uw.cs.lil.tiny.storage.AbstractDecoderIntoFile;
-import edu.uw.cs.lil.tiny.storage.DecoderHelper;
-import edu.uw.cs.lil.tiny.storage.IDecoder;
 import edu.uw.cs.lil.tiny.utils.string.IStringFilter;
 import edu.uw.cs.lil.tiny.utils.string.StubStringFilter;
 import edu.uw.cs.utils.collections.ListUtils;
 import edu.uw.cs.utils.composites.Pair;
+import edu.uw.cs.utils.log.ILogger;
+import edu.uw.cs.utils.log.LoggerFactory;
 
 /**
  * Factored lexicon. Added lexical entries are factored and stored decomposed to
 public class FactoredLexicon implements ILexicon<LogicalExpression> {
 	public static final String							FACTORING_LEXICAL_ORIGIN	= "factoring";
 	
+	public static final ILogger							LOG							= LoggerFactory
+																							.create(FactoredLexicon.class);
+	
 	private static final long							serialVersionUID			= -9133601778066386561L;
 	
 	private final String								entriesOrigin;
 						});
 	}
 	
-	public static IDecoder<FactoredLexicon> getDecoder(
-			DecoderHelper<LogicalExpression> decoderHelper) {
-		return new Decoder(decoderHelper);
-	}
-	
 	@Override
 	public Set<LexicalEntry<LogicalExpression>> add(
 			LexicalEntry<LogicalExpression> entry) {
 						.next();
 				if (factoredLexicon.lexemes.containsKey(lexemeEntry.getKey())) {
 					// Case string seq. known, remove lexemes not present
+					LOG.debug(new Runnable() {
+						
+						@Override
+						public void run() {
+							final Set<Lexeme> retainSet = factoredLexicon.lexemes
+									.get(lexemeEntry.getKey());
+							for (final Lexeme lexeme : lexemeEntry.getValue()) {
+								if (!retainSet.contains(lexeme)) {
+									LOG.debug("Removing lexeme: %s", lexeme);
+								}
+							}
+						}
+					});
 					somethingRemoved |= lexemeEntry.getValue().retainAll(
 							factoredLexicon.lexemes.get(lexemeEntry.getKey()));
 				} else {
 					// Case this string sequence is not present, remove all its
 					// lexemes
+					LOG.debug(new Runnable() {
+						
+						@Override
+						public void run() {
+							for (final Lexeme lexeme : lexemeEntry.getValue()) {
+								LOG.debug("Removing lexeme: %s", lexeme);
+							}
+						}
+					});
 					lexemeIterator.remove();
 					somethingRemoved = true;
 				}
 						.getKey())) {
 					// Case type signature present, remove all templates not
 					// present
+					LOG.debug(new Runnable() {
+						
+						@Override
+						public void run() {
+							final Set<LexicalTemplate> retainSet = factoredLexicon.templates
+									.get(templateEntry.getKey());
+							for (final LexicalTemplate template : templateEntry
+									.getValue()) {
+								if (!retainSet.contains(template)) {
+									LOG.debug("Removing template: %s", template);
+								}
+							}
+						}
+					});
 					somethingRemoved |= templateEntry.getValue().retainAll(
 							factoredLexicon.templates.get(templateEntry
 									.getKey()));
 				} else {
 					// Case type signature not present, remove all templates
+					LOG.debug(new Runnable() {
+						
+						@Override
+						public void run() {
+							for (final LexicalTemplate template : templateEntry
+									.getValue()) {
+								LOG.debug("Removing template: %s", template);
+							}
+						}
+					});
 					templateIterator.remove();
 					somethingRemoved = true;
 				}
 				lexeme, template, entriesOrigin);
 	}
 	
+	public static class Creator implements
+			IResourceObjectCreator<FactoredLexicon> {
+		
+		@Override
+		public FactoredLexicon create(Parameters parameters,
+				IResourceRepository resourceRepo) {
+			return new FactoredLexicon();
+		}
+		
+		@Override
+		public String type() {
+			return "lexicon.factored";
+		}
+		
+		@Override
+		public ResourceUsage usage() {
+			return new ResourceUsage.Builder(type(), FactoredLexicon.class)
+					.setDescription(
+							"Lexicon that contains factored entries. Entries are factored as they are added. The lexicon contains all entries that can be generated by its templates and lexeme")
+					.build();
+		}
+		
+	}
+	
 	public static class FactoredLexicalEntry extends
 			LexicalEntry<LogicalExpression> {
 		
 		
 	}
 	
-	private static class Decoder extends
-			AbstractDecoderIntoFile<FactoredLexicon> {
-		
-		private static final int						VERSION	= 1;
-		
-		private final DecoderHelper<LogicalExpression>	decoderHelper;
-		
-		public Decoder(DecoderHelper<LogicalExpression> decoderHelper) {
-			super(FactoredLexicon.class);
-			this.decoderHelper = decoderHelper;
-		}
-		
-		@Override
-		public int getVersion() {
-			return VERSION;
-		}
-		
-		@Override
-		protected Map<String, String> createAttributesMap(FactoredLexicon object) {
-			// No special attributes
-			return new HashMap<String, String>();
-		}
-		
-		@Override
-		protected FactoredLexicon doDecode(Map<String, String> attributes,
-				Map<String, File> dependentFiles, BufferedReader reader)
-				throws IOException {
-			String line;
-			// First, read the Lexemes, one per line
-			final Set<Lexeme> lexemes = new HashSet<Lexeme>();
-			// Read the header of the map
-			readTextLine(reader);
-			while (!(line = readTextLine(reader)).equals("LEXEMES_END")) {
-				lexemes.add(Lexeme.parse(line,
-						decoderHelper.getCategoryServices(),
-						Lexicon.SAVED_LEXICON_ORIGIN));
-			}
-			// Second, read the lexical templates, one per line
-			final Set<LexicalTemplate> templates = new HashSet<LexicalTemplate>();
-			// Read the header of the map
-			readTextLine(reader);
-			while (!(line = readTextLine(reader)).equals("TEMPLATES_END")) {
-				templates.add(LexicalTemplate.parse(line,
-						decoderHelper.getCategoryServices(),
-						Lexicon.SAVED_LEXICON_ORIGIN));
-			}
-			return new FactoredLexicon(lexemes, templates);
-		}
-		
-		@Override
-		protected void doEncode(FactoredLexicon object, BufferedWriter writer)
-				throws IOException {
-			// First, write all of the lexemes
-			writer.write("LEXEMES_START\n");
-			for (final Set<Lexeme> lexemeSet : object.lexemes.values()) {
-				for (final Lexeme lexeme : lexemeSet) {
-					writer.write(lexeme.toString());
-					writer.write("\n");
-				}
-			}
-			writer.write("LEXEMES_END\n");
-			
-			// Next, write all of the templates
-			writer.write("TEMPLATES_START\n");
-			for (final Set<LexicalTemplate> templateSet : object.templates
-					.values()) {
-				for (final LexicalTemplate template : templateSet) {
-					writer.write(template.toString());
-					writer.write("\n");
-				}
-			}
-			writer.write("TEMPLATES_END\n");
-		}
-		
-		@Override
-		protected Map<String, File> encodeDependentFiles(
-				FactoredLexicon object, File directory, File parentFile)
-				throws IOException {
-			// No dependent files
-			return new HashMap<String, File>();
-		}
-		
-	}
 }

File ccg.lexicon.factored.lambda/src/edu/uw/cs/lil/tiny/ccg/lexicon/factored/lambda/LexicalTemplate.java

 import edu.uw.cs.lil.tiny.mr.lambda.LogicalExpression;
 import edu.uw.cs.lil.tiny.mr.lambda.Variable;
 import edu.uw.cs.lil.tiny.mr.lambda.visitor.ILogicalExpressionVisitor;
-import edu.uw.cs.lil.tiny.mr.lambda.visitor.IsWellTyped;
+import edu.uw.cs.lil.tiny.mr.lambda.visitor.IsTypeConsistent;
 import edu.uw.cs.lil.tiny.mr.lambda.visitor.ReplaceExpression;
 import edu.uw.cs.lil.tiny.mr.language.type.Type;
 import edu.uw.cs.utils.collections.CollectionUtils;
 					constant);
 			i++;
 		}
-		if (!IsWellTyped.of(newSemantics)) {
+		if (!IsTypeConsistent.of(newSemantics)) {
 			return null;
 		}
 		
 				final Type generalType = LogicLanguageServices
 						.getTypeRepository().generalizeType(type);
 				
-				return LogicalConstant.create(LogicalConstant.makeName(
+				return LogicalConstant.createDynamic(LogicalConstant.makeName(
 						"#"
 								+ (counters.containsKey(generalType) ? counters
 										.get(generalType).value() : 0)

File ccg.lexicon/.classpath

 	<classpathentry kind="src" path="src"/>
 	<classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/>
 	<classpathentry combineaccessrules="false" kind="src" path="/ccg"/>
-	<classpathentry combineaccessrules="false" kind="src" path="/storage"/>
 	<classpathentry combineaccessrules="false" kind="src" path="/tinyutils"/>
+	<classpathentry kind="src" path="/explat"/>
+	<classpathentry kind="src" path="/data"/>
 	<classpathentry kind="output" path="bin"/>
 </classpath>

File ccg.lexicon/src/edu/uw/cs/lil/tiny/ccg/lexicon/CompositeLexicon.java

  ******************************************************************************/
 package edu.uw.cs.lil.tiny.ccg.lexicon;
 
-import java.io.BufferedReader;
-import java.io.BufferedWriter;
 import java.io.File;
-import java.io.IOException;
 import java.util.ArrayList;
 import java.util.Collection;
 import java.util.Collections;
-import java.util.HashMap;
 import java.util.HashSet;
 import java.util.LinkedList;
 import java.util.List;
-import java.util.Map;
 import java.util.Set;
 
 import edu.uw.cs.lil.tiny.ccg.categories.ICategoryServices;
-import edu.uw.cs.lil.tiny.storage.AbstractDecoderIntoFile;
-import edu.uw.cs.lil.tiny.storage.DecoderHelper;
-import edu.uw.cs.lil.tiny.storage.DecoderServices;
-import edu.uw.cs.lil.tiny.storage.IDecoder;
+import edu.uw.cs.lil.tiny.explat.IResourceRepository;
+import edu.uw.cs.lil.tiny.explat.ParameterizedExperiment.Parameters;
+import edu.uw.cs.lil.tiny.explat.resources.IResourceObjectCreator;
+import edu.uw.cs.lil.tiny.explat.resources.usage.ResourceUsage;
 import edu.uw.cs.lil.tiny.utils.string.IStringFilter;
 import edu.uw.cs.lil.tiny.utils.string.StubStringFilter;
 
  * can not be modified.
  * 
  * @author Luke Zettlemoyer
+ * @param <MR>
+ *            Meaning representation type.
  */
 public class CompositeLexicon<MR> implements ILexicon<MR> {
 	private static final long			serialVersionUID	= -2289410658817517272L;
 		this.subLexicons = subLexicons;
 	}
 	
-	public static <Y> IDecoder<CompositeLexicon<Y>> getDecoder(
-			DecoderHelper<Y> decoderHelper) {
-		return new Decoder<Y>(decoderHelper);
-	}
-	
 	@Override
 	public Set<LexicalEntry<MR>> add(LexicalEntry<MR> lex) {
 		if (contains(lex)) {
 		return output.toString();
 	}
 	
-	private static class Decoder<Y> extends
-			AbstractDecoderIntoFile<CompositeLexicon<Y>> {
-		private static final int		VERSION	= 1;
-		private final DecoderHelper<Y>	decoderHelper;
-		
-		public Decoder(DecoderHelper<Y> decoderHelper) {
-			super(CompositeLexicon.class);
-			this.decoderHelper = decoderHelper;
-		}
+	public static class Creator<MR> implements
+			IResourceObjectCreator<CompositeLexicon<MR>> {
 		
+		@SuppressWarnings("unchecked")
 		@Override
-		public int getVersion() {
-			return VERSION;
-		}
-		
-		@Override
-		protected Map<String, String> createAttributesMap(
-				CompositeLexicon<Y> object) {
-			final Map<String, String> attributes = new HashMap<String, String>();
-			
-			// Skipping cost
-			attributes.put("numSubLexicons",
-					Integer.toString(object.subLexicons.size()));
+		public CompositeLexicon<MR> create(Parameters parameters,
+				IResourceRepository resourceRepo) {
 			
-			return attributes;
-		}
-		
-		@Override
-		protected CompositeLexicon<Y> doDecode(Map<String, String> attributes,
-				Map<String, File> dependentFiles, BufferedReader reader)
-				throws IOException {
-			// Get default scorer
-			final ILexicon<Y> masterLexicon = DecoderServices.decode(
-					dependentFiles.get("masterLexicon"), decoderHelper);
+			final ILexicon<MR> master = (ILexicon<MR>) resourceRepo
+					.getResource(parameters.get("masterLexicon"));
 			
-			// Get skipping cost
-			final int numSubLexicons = Integer.valueOf(attributes
-					.get("numSubLexicons"));
-			final List<ILexicon<Y>> subLexicons = new ArrayList<ILexicon<Y>>(
-					numSubLexicons);
-			for (int i = 0; i < numSubLexicons; i++) {
-				final ILexicon<Y> subLexicon = DecoderServices.decode(
-						dependentFiles.get("subLexicon" + i), decoderHelper);
-				subLexicons.add(subLexicon);
+			final List<String> otherLexicons = parameters
+					.getSplit("otherLexicons");
+			final List<ILexicon<MR>> subLexicons = new ArrayList<ILexicon<MR>>();
+			for (final String lexName : otherLexicons) {
+				subLexicons.add((ILexicon<MR>) resourceRepo
+						.getResource(lexName));
 			}
-			return new CompositeLexicon<Y>(masterLexicon, subLexicons);
+			
+			return new CompositeLexicon<MR>(master, subLexicons);
 		}
 		
 		@Override
-		protected void doEncode(CompositeLexicon<Y> object,
-				BufferedWriter writer) throws IOException {
-			// Nothing to do here
+		public String type() {
+			return "lexicon.composite";
 		}
 		
 		@Override
-		protected Map<String, File> encodeDependentFiles(
-				CompositeLexicon<Y> object, File directory, File parentFile)
-				throws IOException {
-			final Map<String, File> files = new HashMap<String, File>();
-			
-			// Encode default scorer
-			final File masterLexiconFile = new File(directory,
-					parentFile.getName() + ".masterLexicon");
-			DecoderServices.encode(object.masterLexicon, masterLexiconFile,
-					decoderHelper);
-			files.put("masterLexicon", masterLexiconFile);
-			
-			int i = 0;
-			for (final ILexicon<Y> lexicon : object.subLexicons) {
-				final File subLexiconFile = new File(directory,
-						parentFile.getName() + ".subLexicon" + i);
-				DecoderServices.encode(lexicon, subLexiconFile, decoderHelper);
-				files.put("subLexicon" + i, subLexiconFile);
-				i++;
-			}
-			return files;
+		public ResourceUsage usage() {
+			return new ResourceUsage.Builder(type(), CompositeLexicon.class)
+					.setDescription(
+							"Lexicon that is made of a union of different lexicons")
+					.addParam(
+							"masterLexicon",
+							"id",
+							"The core lexicon. All entries added to the copmosite lexicon will be added to it")
+					.addParam("otherLexicons", "[id]",
+							"Non-master lexicons to use (e.g., 'lexicon1,lexicon2,lexicon3')")
+					.build();
 		}
-		
 	}
 	
 }

File ccg.lexicon/src/edu/uw/cs/lil/tiny/ccg/lexicon/IEvidenceLexicalGenerator.java

 
 import java.util.Set;
 
+import edu.uw.cs.lil.tiny.data.IDataItem;
 
 /**
  * Generate lexical items from evidence.
  * 
  * @author Yoav Artzi
- * @param <X>
+ * @param <DI>
  *            Type of sample
  * @param <E>
  *            Evidence object
- * @param <Y>
+ * @param <MR>
  *            Type of semantics
  */
-public interface IEvidenceLexicalGenerator<X, Y, E> {
+public interface IEvidenceLexicalGenerator<DI extends IDataItem<?>, MR, E> {
 	
 	/**
 	 * Given an object representing an evidence, will generate lexical items
 	 * @param evidence
 	 * @return
 	 */
-	Set<LexicalEntry<Y>> generateLexicon(X sample, E evidence);