Author Archives: pgfeldman

Phil 12.22.15

VTX 7:00 – 6:00

  • Probabilistic Inference II
    • Assertion – Any variable in a graph is said by me to be independent of any other non-descendant, given its parents. All the causality flows through the parents.
    • A belief net or Bays net is *always* acyclic and directed.
    • Traverse the graph from the bottom up, so that no node depends on a node to its left in a list.
    • Generating the list:BayesNetFromData
    • When using the list, work from the top down in the list
    • Naive Bayesian inference
      • P(a|b)P(b) = P(a,b) = P(b|a)P(a)
      • P(a|b) = (P(b|a)P(a))/P(b) BayesChain
      • Can use Bayes to decide between models – Naive Bayesian Classification
      • Use the sum of the logs of the probabilities rather than the products because otherwise we run out of bits of precision
    • The right thing to do when you don’t know anything (just have symptoms)
  • Hibernate
    • Adding config.setProperty(“hbm2ddl.auto”, “update”); to the setup, so that tables can be rebuilt on demand. Nope, that didn’t work. Maybe I can’t split configuration between the config file and programmatic variables?
    • The only way that I was able to get this to work as an argument was to have a setupTables flag indicate which config to read. That works well though.
    • Got simple collections running, which means that I should be able to get networks built. Basically modified the example from Just Hibernate that starts on page 53.
    • Next, we work on getting inheritance to work. I think this will help.
  • Initial Java class network thoughts, just to try storing and retrieving items
    • BaseItem
      • guid
    •  BaseNode extends BaseItem
      • node_id
      • name
    • BaseEdge extends BaseItem
      • edge_id
      • source
      • target
      • weight
    • BaseNetwork extends BaseItem
      • network_id
      • name
      • owner
      • edgeList
      • nodeList (we need this because we may have orphans in the network)
    • BaseOwner extends BaseItem
      • owner_id
      • name
      • password?

Phil 12.21.15

8:00 – 6:00 VTX

  • No MIT video today. Went out and saw Star Wars. Fun! Need to see it again when the crowds thin out in an IMAX theater.
  • Copied some stunt data into the hibernate_test db.
  • Ran the code that set up the session and connected to the (empty) db. No exceptions, so I think it’s working this time…
  • IDE is tracking annotations. The names in the annotation class need to be the same as the table and element names or there is an error IntelliJ Hibernate Setup
  • Ok, reading and writing into the db. Now to clean it up and separate elements;
  • Here’s the current cleaned up version. Still need to create the table more properly. 
    package com.philfeldman.mains;

import com.philfeldman.mappings.Employee;
import org.hibernate.HibernateException;
import org.hibernate.Query;
import org.hibernate.Session;
import org.hibernate.SessionFactory;
import org.hibernate.cfg.Configuration;
import org.hibernate.metadata.ClassMetadata;
import org.hibernate.service.ServiceRegistry;
import org.hibernate.service.ServiceRegistryBuilder;

import java.util.Map;
import java.util.Random;

/**
 * Created by philip.feldman on 12/21/2015.
 *
 * A simple test program that will read and write from a table in a database. In MySql, the
 * table is in the form:
         CREATE TABLE employee (
         id int(11) NOT NULL AUTO_INCREMENT,
         name varchar(50) DEFAULT NULL,
         PRIMARY KEY (id)
 ) ;
 */
public class EmployeeTest {
    private SessionFactory sessionFactory;
    private ServiceRegistry serviceRegistry;
    private Session session;
    private Random rand;

    public EmployeeTest()throws ExceptionInInitializerError{
        this.rand = new Random();
        try {
            Configuration config = new Configuration();
            config.configure("hibernate.cfg.xml");

            this.serviceRegistry = new ServiceRegistryBuilder().applySettings(config.getProperties()).buildServiceRegistry();
            this.sessionFactory = config.buildSessionFactory(serviceRegistry);
            this.session = this.sessionFactory.openSession();
        } catch (Throwable ex) {
            throw new ExceptionInInitializerError(ex);
        }
    }

    public void closeSession(){
        this.session.close();
    }

    public void printAllEntityNames(){
        System.out.println("querying all the managed entities...");
        final Map metadataMap = this.session.getSessionFactory().getAllClassMetadata();
        System.out.println("There are [" + metadataMap.keySet().size() + "] members in the set");
        for (Object key : metadataMap.keySet()) {
            System.out.println("key = ["+key.toString()+"]");
        }
    }

    public void printAllEmployees(){
        String key = Employee.class.getCanonicalName();
        final Map metadataMap = this.session.getSessionFactory().getAllClassMetadata();
        final ClassMetadata classMetadata = (ClassMetadata) metadataMap.get(key);
        final String entityName = classMetadata.getEntityName();
        final Query query = session.createQuery("from " + entityName);
        System.out.println("executing: " + query.getQueryString());
        for (Object o : query.list()) {
            Employee e = (Employee) o;
            System.out.println("  " + e.toString());
        }
    }

    public void addRandomEmployee(){
        try {
            session.beginTransaction();
            Employee employee = new Employee();
            employee.setName("rand(" + this.rand.nextInt(100) + ")");
            session.save(employee);
            session.getTransaction().commit();
        }catch (HibernateException e){
            session.getTransaction().rollback();
        }
    }

    public static void main(String[] args){
        try {
            //System.out.println("Employee.class.getCanonicalName: "+Employee.class.getCanonicalName());
            /***/
            EmployeeTest et = new EmployeeTest();
            et.printAllEntityNames();
            et.printAllEmployees();
            et.addRandomEmployee();
            et.closeSession();
             /***/
        }catch (Exception e){
            e.printStackTrace();
        }

    }
}

Phil 12.18.15

7:00 – 5:00 VTX

  • Was listening to the Planet Money podcast on A/B testing last night and they mentioned how they were using the ‘skip’ button to determine how to shape their podcast. So this is a feedback device that people use that has at most a very indirect effect on the relevance of the provided item, but it does provide the system with a value judgement from the consumer. The benefit to the user is the ability to skip content, and that appears to be enough. The benefit to the producer is the aggregate responses of the users (40k in this place, so lots of statistical power). Somewhat related:
  • And I thought of a title that describes the focus of this effort: Using Value-Decorated Semantic Nets to Infer Credibility
  • Probabilistic Inference I
    • Joint probability tables are the ideal, but impractical
    • Basic probability (intuition at 21:00)
      • probability 0 … 1
      • True = 1
      • False = 0
      • P(a) + P(b) – P(a, b) = P(a or b)
    • Conditional probability
      • Definitions
      • P(a|b) = P(a,b)/P(b)
        • Probability of a given be is the probability of a AND b over the probability of b (24:00)
      • P(a, b, c) = ??
        • y = b, c
        • P(a, b, c) = P(a, y) = P(a|y)P(y)
        • = P(a|b,c)P(b,c)
        • = P(a|b,c)P(b|c)P(c) note that as we go from left to right, there is less elements to depend on.
      • Generalized
        • (Px1, …, xn) = chain rule (starts at 28:31)chainedConditionalProbability
    • Independence
      • Definitions
      • P(a|b) = P(a) if a independent of b – video at 32:30
        • The probability of a in the universe is the same as the probability of a and b in b. The two rations are the same. Why is this definition needed?
      • Conditional independence
      • P(a|b,z) = P(z)
      • P(a,b|z) = P(a|z)P((b|z)
    • Belief Nets
      • Causal relationships. The dog barks because of the Racoon
      • Every node is dependent only on its parent(s) and possibly its children (descendents)
      • BeliefNets If this were a joint probability table there would be 2^5 (32) as opposed to the number here, which is 10.
      • P(p,d,b,t,r) = P(p|d,b,t,r)…P(r), which we can reduce the combinations. (See 46:30 or so)
  • Hibernating slowly
    • The ./basic/ as described in the hibernate 5 quickstart doesn’t seem to exist in either the 4.3 or the 5.5 bubndle. It does look like IntelliJ has a JPA and Hibernate section. Trying that.
    • Importing the current pg db, which did get found since I had already set up that relationship with database in yesterday’s post.
    • In the Import Database Schema wizard, I had to create a package for the files to be created in. In this case, since I’ve already had to create a new module under HibernateTest1 (HibernateTest1Module1), I called the package com.philfeldman.ht1m1, which is similar to the Entity prefix of ht1m1_ that I decided to add.
    • Got a ‘Basic’ attribute type should not be ‘Object’ error. When opening up the ‘weather’ element in the dialog (see below) ImportDatabaseSchema I could see that the tempHi and tempLo items are being mapped as Objects. Typing java.Lang.Integer corrects the problem. The thing to remember here is that the error doesn’t ripple up. When ‘weather’ is closed, there are no red items.
    • That worked, but there were some significant compiler errors. Fixed by letting the IDE download java EE6 libraries. It still looks like we’re using java 1.8, but now have a bunch of External libraries that appear to be redundant? LotsaLibs.jpg
    • Anyway, using the persistence view, created a ht1m1_UserEntity class. Now I need to make it persist and add values to it. for that matter, I need to query the weather table…
    • Haven’t gotten to accessing data yet, but you can set up relationships graphically in IntelliJ, which is pretty cool.
    • And now I’m kind of stuck. The console interface with the hibernate/db keeps on asking for a persistence provider which seems to be in the classpath but doesn’t seem to be helping.
  • Starting over
    • Spent a few bucks and got Just Hibernate. Let’s see if that works better.
    • Need to install Git – Done. Yay!
    • Created JustHibernate1 as a JavaEE project with Hibernate and the default download libraries (4.2.2). Also created a corresponding hibernate_test database in MySql. Nothing in it yet.
    • Opened up the database view and connected to my MySql database. This gives me the opportunity to (a) test the connection and (b) get the URL for the hibernate.cfg.xml file (jdbc:mysql://localhost:3306/hibernate_test)
    • Still needed to get the jdbc driver, so I used the Project Structure pane (F4) to import the mysql:mysql-connector-java:5.1.38 from maven. IntelliJ downloaded and stuck it in the lib directory. Here’s the module structureProjectStructureModules And here’s the library structure for the mysql driver. Note that it’s actually pointing at my m2 repo…ProjectStructureLibraries
    • So now I’m about where I was at lunch, but everything is cleaner. Afraid to actually try connecting at 5:00 on a Friday, so we’ll try this on Monday <fingers  crossed>

Phil 12.17.15

7:00 – 4:00 VTX

  • Architectures: GPS, SOAR, Subsumption, Society of Mind
    • GPS – General Problem Solver Newell & Simon
    • SOAR – State Operator and Result. (RCS for problem solving + GOMS?)
    • Emotion Machine – Minsky  Multiple Levels
      • Instinctive reaction
      • Learned reaction
      • Deliberative thinking
      • Reflective thinking – Memory
      • Self-reflecting (planning?)
      • Self-conscious thinking (social interaction)
    • Based on the Common Sense Hypothesis
      • Open Mind Concept
      • Henry Lieberman
      • Media Lab
    • Alternative Ideas
      • Rodney Brooks – Subsumption architecture
        • Creature Hypothesis – once you can get a machine to be as smart as an insect, the rest will be easy. (Very RCS!)
        •  Layers of abstraction, each with its own Vision, Reasoning and Action layers.
          • Avoiding Object Layer
          • Wandering Layer
          • Explore Layer
          • Seek Layer
          • Etc.
        • Rules
          • No representation (no world model)
          • Use the world instead of a model. Everything is reactive.
          • Finite State Machines
        • Roomba is an example.
      • Genisys System
        • Strong Story Hypothesis
          • White room experiment (described in video here)
            • Children begin to orient correctly after they start using the words ‘left’ and ‘right’ when they describe the world.
            • Adults doing ‘english to english translation’ they fail the test.
            • Also in a radiolab show: Words
        • Based on language
          • Perception (Real and imagined [running with a bucket of water])
          • Description of events
            • Stories
            • Culture
              • Macro
              • Micro
  • Did a little poking around with hibernate, since Jeremy says that Hibernate plus annotations are the standard here. It does look like 4.3.8 final is the version that’s being used (4.3.11 is close enough?) with jpa annotations. Jeremy’s also been using Spring Data JPA, which I guess needs to be on the list as well.
  • Debating on whether I should set up a Hibernate sandbox with Gradle, but I think that’s a bridge too far.
  • Oh yeah, when you check out a project in subversion, check it out at its trunk node. Otherwise Gradle doesn’t know what to do. It also seems to be downloading everything again as I import the project. I wonder if this will take 41 minutes again?
    • You can then run by clicking on src/main/java/com.philfeldman.nlpservice/web/Application.
    • Verified that everything works by sending json object to localhost:8870/nlpservice/analyze in Postman: Postman
  • Ok, back to setting up a sandbox for schema development
    • Downloading and installing Postgresql, version 9.4.5
    • The install kind of broke and didn’t create the data files. I wound up doing the Short Version from the command line, which is working just fine.
    • To start the db server – C:\Program Files\PostgreSQL\9.4\bin>postgres.exe -D \Development\PostGresSQL\Data
    • To run the client – C:\Program Files\PostgreSQL\9.4\bin>psql test
    • Set up shortcuts that launch the server and the test db following these instructions.
  • Starting the Hibernate sandbox project.
    • Had to enable the the hibernate IntelliJ plugin
    • connected IntelliJ to the postgres db using the Database View. . I thought the superuser name was ‘postgres’, but \du says it’s ‘philip.feldman’. It must have pulled that from the OS. Password was what I thought I set it to though.
    • In a fit of unrealistic expectation, decided to start with the latest hibernate Version 5.5.1.Final. The jar structure is really different from 4.3.11.Final, but we’ll see how that goes. Using the Hibernate 5.0 quickstart

Phil 12.16.15

7:00 – 9:00, 10:30 – 4:30 VTX

  • Since I’ll be missing the scrum today, sent Aaron an email with status. Which is basically until I know if we’re going to have a semantic network for our derived data, I don’t know how to do a taxonomy.
  • Got RabbitMQ running, following the Local RabbitMQ Setup in Confluence. To open a command prompt as full admin, you have to run it from the ‘start’ input field with Ctrl-shift-enter
  • Running the NLPService with errors. Doesn’t seem to be a permissions issue. Sent Balaji an email, but here are the errors for future reference: 
    2015-12-16 08:25:24.449 ERROR 3588 --- [pool-8-thread-1] com.netflix.discovery.DiscoveryClient    : DiscoveryClient_NLPSERVICE/PFELDMAN-NCS - was unable to sen
 heartbeat!

com.sun.jersey.api.client.ClientHandlerException: org.apache.http.conn.HttpHostConnectException: Connection to http://localhost:8761 refused
        at com.sun.jersey.client.apache4.ApacheHttpClient4Handler.handle(ApacheHttpClient4Handler.java:184)
        at com.sun.jersey.api.client.filter.GZIPContentEncodingFilter.handle(GZIPContentEncodingFilter.java:120)
        at com.netflix.discovery.EurekaIdentityHeaderFilter.handle(EurekaIdentityHeaderFilter.java:28)
        at com.sun.jersey.api.client.Client.handle(Client.java:648)
        at com.sun.jersey.api.client.WebResource.handle(WebResource.java:670)
        at com.sun.jersey.api.client.WebResource.put(WebResource.java:211)
        at com.netflix.discovery.DiscoveryClient.makeRemoteCall(DiscoveryClient.java:1097)
        at com.netflix.discovery.DiscoveryClient.makeRemoteCall(DiscoveryClient.java:1060)
        at com.netflix.discovery.DiscoveryClient.access$500(DiscoveryClient.java:105)
        at com.netflix.discovery.DiscoveryClient$HeartbeatThread.run(DiscoveryClient.java:1583)
        at java.util.concurrent.Executors$RunnableAdapter.call(Unknown Source)
        at java.util.concurrent.FutureTask.run(Unknown Source)
        at java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source)
        at java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source)
        at java.lang.Thread.run(Unknown Source)
Caused by: org.apache.http.conn.HttpHostConnectException: Connection to http://localhost:8761 refused
        at org.apache.http.impl.conn.DefaultClientConnectionOperator.openConnection(DefaultClientConnectionOperator.java:190)
        at org.apache.http.impl.conn.AbstractPoolEntry.open(AbstractPoolEntry.java:151)
        at org.apache.http.impl.conn.AbstractPooledConnAdapter.open(AbstractPooledConnAdapter.java:125)
        at org.apache.http.impl.client.DefaultRequestDirector.tryConnect(DefaultRequestDirector.java:640)
        at org.apache.http.impl.client.DefaultRequestDirector.execute(DefaultRequestDirector.java:479)
        at org.apache.http.impl.client.AbstractHttpClient.execute(AbstractHttpClient.java:906)
        at org.apache.http.impl.client.AbstractHttpClient.execute(AbstractHttpClient.java:827)
        at com.sun.jersey.client.apache4.ApacheHttpClient4Handler.handle(ApacheHttpClient4Handler.java:170)
        ... 14 common frames omitted
Caused by: java.net.ConnectException: Connection refused: connect
        at java.net.DualStackPlainSocketImpl.waitForConnect(Native Method)
        at java.net.DualStackPlainSocketImpl.socketConnect(Unknown Source)
        at java.net.AbstractPlainSocketImpl.doConnect(Unknown Source)
        at java.net.AbstractPlainSocketImpl.connectToAddress(Unknown Source)
        at java.net.AbstractPlainSocketImpl.connect(Unknown Source)
        at java.net.PlainSocketImpl.connect(Unknown Source)
        at java.net.SocksSocketImpl.connect(Unknown Source)
        at java.net.Socket.connect(Unknown Source)
        at org.apache.http.conn.scheme.PlainSocketFactory.connectSocket(PlainSocketFactory.java:127)
        at org.apache.http.impl.conn.DefaultClientConnectionOperator.openConnection(DefaultClientConnectionOperator.java:180)
        ... 21 common frames omitted


2015-12-16 08:25:26,620 ERROR [pool-9-thread-1] com.netflix.discovery.DiscoveryClient [nlp-service-local] Can't get a response from http://localhost:8761/eurek
/apps/
Can't contact any eureka nodes - possibly a security group issue?
com.sun.jersey.api.client.ClientHandlerException: org.apache.http.conn.HttpHostConnectException: Connection to http://localhost:8761 refused
        at com.sun.jersey.client.apache4.ApacheHttpClient4Handler.handle(ApacheHttpClient4Handler.java:184) ~[jersey-apache-client4-1.11.jar!/:1.11]
        at com.sun.jersey.api.client.filter.GZIPContentEncodingFilter.handle(GZIPContentEncodingFilter.java:120) ~[jersey-client-1.11.jar!/:1.11]
        at com.netflix.discovery.EurekaIdentityHeaderFilter.handle(EurekaIdentityHeaderFilter.java:28) ~[eureka-client-1.1.147.jar!/:1.1.147]
        at com.sun.jersey.api.client.Client.handle(Client.java:648) ~[jersey-client-1.11.jar!/:1.11]
        at com.sun.jersey.api.client.WebResource.handle(WebResource.java:670) ~[jersey-client-1.11.jar!/:1.11]
        at com.sun.jersey.api.client.WebResource.access$200(WebResource.java:74) ~[jersey-client-1.11.jar!/:1.11]
        at com.sun.jersey.api.client.WebResource$Builder.get(WebResource.java:503) ~[jersey-client-1.11.jar!/:1.11]
        at com.netflix.discovery.DiscoveryClient.getUrl(DiscoveryClient.java:1567) [eureka-client-1.1.147.jar!/:1.1.147]
        at com.netflix.discovery.DiscoveryClient.makeRemoteCall(DiscoveryClient.java:1113) [eureka-client-1.1.147.jar!/:1.1.147]
        at com.netflix.discovery.DiscoveryClient.makeRemoteCall(DiscoveryClient.java:1060) [eureka-client-1.1.147.jar!/:1.1.147]
        at com.netflix.discovery.DiscoveryClient.getAndStoreFullRegistry(DiscoveryClient.java:835) [eureka-client-1.1.147.jar!/:1.1.147]
        at com.netflix.discovery.DiscoveryClient.fetchRegistry(DiscoveryClient.java:746) [eureka-client-1.1.147.jar!/:1.1.147]
        at com.netflix.discovery.DiscoveryClient.access$1400(DiscoveryClient.java:105) [eureka-client-1.1.147.jar!/:1.1.147]
        at com.netflix.discovery.DiscoveryClient$CacheRefreshThread.run(DiscoveryClient.java:1723) [eureka-client-1.1.147.jar!/:1.1.147]
        at java.util.concurrent.Executors$RunnableAdapter.call(Unknown Source) [na:1.8.0_66]
        at java.util.concurrent.FutureTask.run(Unknown Source) [na:1.8.0_66]
        at java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source) [na:1.8.0_66]
        at java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source) [na:1.8.0_66]
        at java.lang.Thread.run(Unknown Source) [na:1.8.0_66]
Caused by: org.apache.http.conn.HttpHostConnectException: Connection to http://localhost:8761 refused
        at org.apache.http.impl.conn.DefaultClientConnectionOperator.openConnection(DefaultClientConnectionOperator.java:190) ~[httpclient-4.2.1.jar!/:4.2.1]
        at org.apache.http.impl.conn.AbstractPoolEntry.open(AbstractPoolEntry.java:151) ~[httpclient-4.2.1.jar!/:4.2.1]
        at org.apache.http.impl.conn.AbstractPooledConnAdapter.open(AbstractPooledConnAdapter.java:125) ~[httpclient-4.2.1.jar!/:4.2.1]
        at org.apache.http.impl.client.DefaultRequestDirector.tryConnect(DefaultRequestDirector.java:640) ~[httpclient-4.2.1.jar!/:4.2.1]
        at org.apache.http.impl.client.DefaultRequestDirector.execute(DefaultRequestDirector.java:479) ~[httpclient-4.2.1.jar!/:4.2.1]
        at org.apache.http.impl.client.AbstractHttpClient.execute(AbstractHttpClient.java:906) ~[httpclient-4.2.1.jar!/:4.2.1]
        at org.apache.http.impl.client.AbstractHttpClient.execute(AbstractHttpClient.java:827) ~[httpclient-4.2.1.jar!/:4.2.1]
        at com.sun.jersey.client.apache4.ApacheHttpClient4Handler.handle(ApacheHttpClient4Handler.java:170) ~[jersey-apache-client4-1.11.jar!/:1.11]
        ... 18 common frames omitted
Caused by: java.net.ConnectException: Connection refused: connect
        at java.net.DualStackPlainSocketImpl.waitForConnect(Native Method) ~[na:1.8.0_66]
        at java.net.DualStackPlainSocketImpl.socketConnect(Unknown Source) ~[na:1.8.0_66]
        at java.net.AbstractPlainSocketImpl.doConnect(Unknown Source) ~[na:1.8.0_66]
        at java.net.AbstractPlainSocketImpl.connectToAddress(Unknown Source) ~[na:1.8.0_66]
        at java.net.AbstractPlainSocketImpl.connect(Unknown Source) ~[na:1.8.0_66]
        at java.net.PlainSocketImpl.connect(Unknown Source) ~[na:1.8.0_66]
        at java.net.SocksSocketImpl.connect(Unknown Source) ~[na:1.8.0_66]
        at java.net.Socket.connect(Unknown Source) ~[na:1.8.0_66]
        at org.apache.http.conn.scheme.PlainSocketFactory.connectSocket(PlainSocketFactory.java:127) ~[httpclient-4.2.1.jar!/:4.2.1]
        at org.apache.http.impl.conn.DefaultClientConnectionOperator.openConnection(DefaultClientConnectionOperator.java:180) ~[httpclient-4.2.1.jar!/:4.2.1]
        ... 25 common frames omitted

2015-12-16 08:25:26.652 ERROR 3588 --- [pool-9-thread-1] com.netflix.discovery.DiscoveryClient    : DiscoveryClient_NLPSERVICE/PFELDMAN-NCS - was unable to ref
esh its cache! status = org.apache.http.conn.HttpHostConnectException: Connection to http://localhost:8761 refused

com.sun.jersey.api.client.ClientHandlerException: org.apache.http.conn.HttpHostConnectException: Connection to http://localhost:8761 refused
        at com.sun.jersey.client.apache4.ApacheHttpClient4Handler.handle(ApacheHttpClient4Handler.java:184)
        at com.sun.jersey.api.client.filter.GZIPContentEncodingFilter.handle(GZIPContentEncodingFilter.java:120)
        at com.netflix.discovery.EurekaIdentityHeaderFilter.handle(EurekaIdentityHeaderFilter.java:28)
        at com.sun.jersey.api.client.Client.handle(Client.java:648)
        at com.sun.jersey.api.client.WebResource.handle(WebResource.java:670)
        at com.sun.jersey.api.client.WebResource.access$200(WebResource.java:74)
        at com.sun.jersey.api.client.WebResource$Builder.get(WebResource.java:503)
        at com.netflix.discovery.DiscoveryClient.getUrl(DiscoveryClient.java:1567)
        at com.netflix.discovery.DiscoveryClient.makeRemoteCall(DiscoveryClient.java:1113)
        at com.netflix.discovery.DiscoveryClient.makeRemoteCall(DiscoveryClient.java:1060)
        at com.netflix.discovery.DiscoveryClient.getAndStoreFullRegistry(DiscoveryClient.java:835)
        at com.netflix.discovery.DiscoveryClient.fetchRegistry(DiscoveryClient.java:746)
        at com.netflix.discovery.DiscoveryClient.access$1400(DiscoveryClient.java:105)
        at com.netflix.discovery.DiscoveryClient$CacheRefreshThread.run(DiscoveryClient.java:1723)
        at java.util.concurrent.Executors$RunnableAdapter.call(Unknown Source)
        at java.util.concurrent.FutureTask.run(Unknown Source)
        at java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source)
        at java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source)
        at java.lang.Thread.run(Unknown Source)
Caused by: org.apache.http.conn.HttpHostConnectException: Connection to http://localhost:8761 refused
        at org.apache.http.impl.conn.DefaultClientConnectionOperator.openConnection(DefaultClientConnectionOperator.java:190)
        at org.apache.http.impl.conn.AbstractPoolEntry.open(AbstractPoolEntry.java:151)
        at org.apache.http.impl.conn.AbstractPooledConnAdapter.open(AbstractPooledConnAdapter.java:125)
        at org.apache.http.impl.client.DefaultRequestDirector.tryConnect(DefaultRequestDirector.java:640)
        at org.apache.http.impl.client.DefaultRequestDirector.execute(DefaultRequestDirector.java:479)
        at org.apache.http.impl.client.AbstractHttpClient.execute(AbstractHttpClient.java:906)
        at org.apache.http.impl.client.AbstractHttpClient.execute(AbstractHttpClient.java:827)
        at com.sun.jersey.client.apache4.ApacheHttpClient4Handler.handle(ApacheHttpClient4Handler.java:170)
        ... 18 common frames omitted
Caused by: java.net.ConnectException: Connection refused: connect
        at java.net.DualStackPlainSocketImpl.waitForConnect(Native Method)
        at java.net.DualStackPlainSocketImpl.socketConnect(Unknown Source)
        at java.net.AbstractPlainSocketImpl.doConnect(Unknown Source)
        at java.net.AbstractPlainSocketImpl.connectToAddress(Unknown Source)
        at java.net.AbstractPlainSocketImpl.connect(Unknown Source)
        at java.net.PlainSocketImpl.connect(Unknown Source)
        at java.net.SocksSocketImpl.connect(Unknown Source)
        at java.net.Socket.connect(Unknown Source)
        at org.apache.http.conn.scheme.PlainSocketFactory.connectSocket(PlainSocketFactory.java:127)
        at org.apache.http.impl.conn.DefaultClientConnectionOperator.openConnection(DefaultClientConnectionOperator.java:180)
        ... 25 common frames omitted
  • It turns out that these errors are related to service registering with the discovery process. In local environment you don’t have a service registry running. You can run it if you want and that’s a different process(project). Irrespective of those service trying to register errors, the REST calls will still work.
    • The way to remove the service registration (remove the noise errors) in local env is, in src/main/resources/nlpservice-config.xml, change this
    • <serviceRegistry>http://localhost:8761/eureka/</serviceRegistry&gt;
    • to
    • <serviceRegistry>none</serviceRegistry>
    • Do the gradle build again and run it.
    • And a useful thread: 
      Patakula, Balaji 11:44a 
Hello Phil

Me 11:44a 
Hiya

Patakula, Balaji 11:45a 
the url should be localhost:8870/nlpservice/ner

Patakula, Balaji 11:45a 
with no double slash after the port

Me 11:46a 
localhost:8870/nlpservice/ner gives the same error in my setup

Patakula, Balaji 11:46a 
also the body should be like { "text": "my name is Phil Feldman."}

Patakula, Balaji 11:46a 
or any text that u want

Me 11:47a 
So it's not the JSON object on the NLPService page?


Patakula, Balaji 11:48a 
if u import the nlp.json into the postman

Patakula, Balaji 11:48a 
all the requests will be already there

Me 11:49a 
Import how?
Patakula, Balaji 11:49a 
there is an import menu on postman

Me 11:50a 
Looking for it...

Patakula, Balaji 11:50a 
the middle panel on the top black menu last item

Me 11:50a 
Got it.

Patakula, Balaji 11:51a 
just import that json downloaded from the wiki

Patakula, Balaji 11:51a 
and u should have the collection now in ostman 

Patakula, Balaji 11:51a 
postman 



Patakula, Balaji 11:51a 
and u can just click to send

Me 11:52a 
Added the file. Now what.

Patakula, Balaji 11:52a 
can u share the screen

Me 11:52a 
using what?

Patakula, Balaji 11:52a 
u have the nlp service running?

Patakula, Balaji 11:53a 
just in IM 

Patakula, Balaji 11:53a 
there is a present screen on the bottom of this chat

Me 11:53a 
nlp service is running. It extracted my entity as well. Now I'm curious about that bigger json file

Patakula, Balaji 11:54a 
that json file is just the REST calls that are supported by the service

Patakula, Balaji 11:54a 
it is just a way of documenting the REST 

Patakula, Balaji 11:54a 
so some one can just import the file and execute the commands

Me 11:54a 
So how does it get ingested?

Patakula, Balaji 11:55a 
which one?

Me 11:55a 
nlp.json

Patakula, Balaji 11:55a 
its not ingested. NLP is service. It gets the requests through Rabbit queue from the Crawler ( another service)

Patakula, Balaji 11:56a 
if u need to test the functionality of NLP, the way u can test and see the results is using the REST interface that we are doing now

Me 11:56a 
so nlp.json is a configuration file for postman?

Patakula, Balaji 11:56a 
thats right

Me 11:57a 
Ah. Not obvious.

Patakula, Balaji 11:57a 
Is Aaron sit next to you?

Me 11:58a 
No, he stepped out for a moment. He should be back in 30 minutes or so.

Patakula, Balaji 11:58a 
may be u can get the data flow from him and he knows how to work with all these tools

Me 11:58a 
Yeah, he introduced me to Postman.

Me 11:58a 
But he thought nlp.json was something to send to the NLPService.

Patakula, Balaji 11:58a 
may be he can give a brain dump of the stuff and how services interact, how data flows etc.,

Me 11:59a 
I'm starting to see how it works. Was not expecting to see Erlang.

Me 12:00p 
Can RabbitMQ coordinate services under development on my machine with services stood up on a test environment, such as AWS?

Patakula, Balaji 12:01p 
u can document all the REST calls that a service exposes by hand writing all those ...or just export the REST calls from postman and every one who wants to use the service can just import that json and work with the REST interface

Me 12:01p 
Got it.

Patakula, Balaji 12:01p 
RabbitMq is written in Erlang and we interface with it for messaging

Patakula, Balaji 12:02p 
yes, u can configure the routes to work that way

Patakula, Balaji 12:02p 
meaning mismatch services between different environments

Me 12:02p 
Yeah, I see that. Not that surprising that a communications manager would be written in Erlang. But still a rare thing to see.

Me 12:03p 
Is there a collection of services stood up that way for development?

Patakula, Balaji 12:04p 
u installed rabbit yesterday locally on ur machine

Me 12:04p 
Yes, otherwise none of this would be working?

Patakula, Balaji 12:04p 
so u can run various services now orchestrated through ur local rabbit



Me 12:05p 
Understood. Are there currently stood-up services that can be accessed on an ad-hoc basis, or would I need to do that?

Patakula, Balaji 12:05p 
Rabbit is only for streaming messages. Every service exposes both streaming ( Rabbitmq messages) and REST interfaces

Patakula, Balaji 12:06p 
there are no services stood up in adhoc env currently. There is a CI ,QA and Demo env

Patakula, Balaji 12:06p 
all those envs have all the services running

Me 12:07p 
What's Cl?

Me 12:07p 
I'd guess continuous integration, but it's ambiguous.

Patakula, Balaji 12:07p 
continuous integration. Every code checkin automatically builds the system, runs the tests, creates docker images and deploys those services and starts them 

Me 12:08p 
Can these CI services be pinged directly?

Patakula, Balaji 12:08p 
ye

Patakula, Balaji 12:08p 
yes

Me 12:09p 
Do you need to be on the VPN?

Patakula, Balaji 12:09p 
http://dockerapps.philfeldman.com:8763/ <http://dockerapps.philfeldman.com:8763/>  

Patakula, Balaji 12:09p 
those are the services running

Patakula, Balaji 12:09p 
and dockerapps is the host machine for CI

Me 12:09p 
And how do I access the NLPService on dockerapps?

Patakula, Balaji 12:10p 
access meaning? u want t send the REST requests to CI service?

Me 12:10p 
Yeah. Bad form?

Patakula, Balaji 12:11p 
just in the REST, change the localhost to dockerapps.philfeldman.com

Me 12:12p 
I get a 'Could not get any response'

Me 12:12p 
dockerapps.philfeldman.com:8870/nlpservice/ner

Patakula, Balaji 12:12p 
sorry, NLP is running on a different host 10.18.7.177
  • Learning about RabbitMQ
  • Installing the google chrome Postman plugin
    • Set the POST option
    • Set RAW
    • Header to Content-Type
    • Value to application/json
    • URL is localhost:8870//nlpservice/ner
    • place the JSON in the ‘Body’ tag

Phil 12.15.15

7:00 – 3:30 VTX

  • Representations: Classes, Trajectories, Transitions
    • Inner language, the language with which we think
    • Semantic nets
      • parasitic semantics – where we project knowing to the machine. We contain the meaning, not the machine.
    • Combinators = edge
    • Reification – linking links?
    • Sequence
    • Minsky – Frames or templates add a localization layer.
    • Classification
    • Transition
      • Vocabulary of change, not state
      • (!)Increase, (!)decrease, (!)change, (!)appear, (!)disappear
    • Trajectory
      • Objects moving along trajectories
      • Trajectory frame (prepositions help refine – by, with, from, for, etc)
        • Starts at a source
        • Arranged by agent, possibly with collaborator
        • assisted by instrument
        • can have a conveyance
        • Arrives at destination
        • Beneficiary
      • Wall Street Journal Corpus
        • 25% transitions or trajectories.
      • Pat comforted Chris
        • Role Frame
          • Agent: Pat
          • Action: ??
          • Object: Chris
          • Result: Transition Frame
            • Object: Chris
            • Mood: Improved (increased)
    • Story Libraries
      • Event Frames – adds time and place
        • Disaster -adds fatalities, cost
          • Earthquake – adds name, category
          • Hurricane – – adds magnitude, fault
        • Party
          • Birthday
          • Wedding – adds bride and groom
  • Scrum
  • Working on downloading and running the NLP code
    • Downloaded Java EE 7u2
    • Downloaded Gradle 2.9
    • Installed and compiled. Took 41 minutes!
    • Working on running it now, which looks like I need Tomcat. To run Tomcat on port 80, I had to finally chase down what was blocking port 80. I finally found it by running NET stop HTTP, (from here) which gave me a list that I could check against the services. I monitored this with Xampp’s nifty Netstat tool. The offending process was BranchCache, which I disabled. Now we’ll see what that breaks…
    • Tomcat up and running
    • NLPService blew up. More secret knowledge: 
      Local RabbitMQ Setup

Install Erlang 

# http://www.erlang.org/download/otp_win64_17.5.exe

# Set *ERLANG_HOME* in system variables. (e.g. C:\Program Files\erl6.4)

Install RabbitMQ 

# http://www.rabbitmq.com/releases/rabbitmq-server/v3.5.3/rabbitmq-server-3.5.3.exe

#* If you get Windows Security Alert(s) for *epmd.exe* and/or *erl.exe*, check "Domain networks..." and uncheck "Private networks" and "Public networks"

# Open the command prompt as *administrator*

# Go to C:\Program Files (x86)\RabbitMQ Server\rabbitmq_server-3.5.3\sbin.

# Run the following commands:             

rabbitmq-plugins.bat enable rabbitmq_web_stomp rabbitmq_stomp rabbitmq_management

rabbitmq-service.bat stop                                                        
rabbitmq-service.bat install                                                     
rabbitmq-service.bat start                                                      

RabbitMQ Admin Console
http://localhost:15672/mgmt

guest/guest
    • Installed Erlang and RabbitMQ. We’ll try running tomorrow.

Phil 12.14.15

7:00 – 3:30 VTX

  • Learning: Boosting
    • Binary classifications
    • Weak Classifier = one that is barely better than chance.
    • Adaboost for credibility analysis? Politifact is the test. Speakers, subjects, etc are classifiers. What mix of classifiers produces the most accurate news? Something like this (check citations in the paper)
    • Which means that we can keep track of those items that are always moved to the top of the pertinence list and score them as true(?). This means that we can then use that result to weight the sources that appear to be credible so that they in turn become more relevant (we can also look at the taxonomy terms that get maximized and minimized) the next query.
  • Discussion with Jeremy about the RDB schemas
  • Scrum – really short
  • RDB design meeting. Lots of discussion about data sources but nothing clear. Jeremy didn’t like the unoptimized storage of the general model
  • Followon discussions with Jeremy. I showed him how unions can fix his concerns. He adjusted the schema, but I can’t get on the VPN at home for some reason. Will see tomorrow.

Phil 12.11.15

8:00 – 5:00 VTX

  • No AI course this morning, had to drop off the car.
  • Some preliminary discussions about sprint planning with Aaron yesterday. Aside from the getting the two ‘Derived’ database structures reconciled, I need to think about a few things:
    • who the network ‘users’ are. I think it could be VTX, or the system customers, like Aetna.
    • What kinds of networks exist?
      • Each individual doctor is a network of doctors, keywords, entities, sources, threats and ratings. That can certainly run on the browser
      • Then there is the larger network of ‘relevant’ doctors. That’s a larger network, certainly in the 10s – 100s range. On the lower end of the scale that could be done directly in the browser. For larger networks, we might have to use the GPU? Which seems very doable, via Steve Sanderson.
      • Then there is the master ranking, which should be something like most threatening to least threatening, probably. Queries with additional parameters pull a subset of the ordered data (SELECT foo, bar from ?? ORDER BY eigenvalue). Interestingly, according to this IEEE article from 2010, GPU processing  was handling 10 million nodes in about 30 seconds using optimized sparse matrix (SpMV) calculations. So it’s conceivable that calculations could be done in real time.
  • More documentation
  • More discussions wit Aaron about where data lives and how it’s structured.
  • Sprint planning

Phil 12.10.15

7:00 – 3:30 VTX

  • Sandy Spring Bank!
  • Honda!
  • Learning: Support Vector Machines
    • More sophisticated decision bounding, with fewer ad hoc choices than GAs and NNs
    • A positive sample must have a dot product with the ‘nomal vector’ that is >= 1.0. Similarly, a negative sample mus be <= -1.0.
    • Gotta minimize with constraints: Lagrange Multipliers from Multivariable Calculus
    • Guaranteed no local maxima
  • System Description (putting it up here)

Phil 12.9.15

7:00 – VTX

  • Learning: Near Misses, Felicity Conditions
    • One shot learning
    • Describing the difference between the desired goal/object and near misses. Model is decorated with information is important.
      • Relations are in imperative form (must not touch, must support, etc.)
    • Pick a seed
    • Apply your heuristics until all the positives are included
    • Then use negatives to throw away unneeded heuristics
    • Use a beam search
    • Near misses lead to specialization, compare to general models lead to generalization (look for close items using low disorder measures for near misses and high for examples?)
    • Model Heuristics (
      An application of variable-valued logic to inductive learning of plant disease diagnostic rules)

      • Require Link (Specialization step)
      • Forbid Link (Specialization step)
      • Extend Set (Generalization step)
      • Drop Link (Generalization step)
      • Climb Tree (Generalization step)
    • Packaging ideas
      • Symbol associated with the work – a visual handle
      • Slogan – a verbal handle (‘Near Miss’ learning)
      • Surprise – Machine can learn something definate from a single example
      • Salient – something that sticks out (One shot learning via near misses)
      • Story
  • More dev machine setup
    • Added typescript-install to the makefile tasks, since I keep on forgetting about it.
    • Compiled and ran WebGlNeworkCSS. Now I need to set up the database.
    • Got that in, but had a problem with the new db having problems with the text type of PASSWORD(). I had to add COLLATE to the where clause as follows: 
      "UPDATE tn_users set password = PASSWORD(:newPassword) where password = PASSWORD(:oldPassword) COLLATE utf8_unicode_ci and login = :login"
    • last error is that the temp network isn’t being set in the dropdown for available networks. Fixed. It turned out to be related to the new typescript compiler catching some interface errors that the old version didn’t.
  • Ok, I think it’s time to start writing up what the current system is and how it works.

Phil 12.8.15

7:00 – 4:30 VTX

Phil 12.7.15

8:00 – 5:00 VTX

  • Got my laptop from John and got it set up. Incredibly slow network performance, which I figured was the wifi. Hooked up the hard line and disabled the wifi, which doesn’t see the network at all, and won’t let me reconnect the wifi. Working from home for the rest of the day.
  • At seminar, had a really interesting discussion about how taxonomies intersecting with knowledge graphs essentially result in a kind of pro-forma synthesis. Hmm.

Phil 12.4.15

8:00 – VTX

  • Scrum
  • Found an interesting tidbit on the WaPo this morning. It implies that if there is a pattern of statement followed by a search for confirming information followed by a public citation of confirming information could be the basic unit of an information bubble. For this to be a bubble, I think the pertinent information extracted from the relevant search results would have to be somehow identifiable as a minority view. This could be done by comparing the Jaccard index of the adjusted results with the raw returns of a search? In other words, if the world (relevant search)  has an overall vector in one direction and the individual preferences produce a pertinent result that is pointing in the opposite direction (large dot product), then the likelihood of those results being the result of echo-chamber processes are higher?
  • If the Derived DB depends on analyst examination of the data, this could be a way of flagging analyst bias.
  • Researching WebScaleSQL, I stumbled on another db from Facebook. This one,  RocksDB, is more focused on speed. From the splash page:
    • RocksDB can be used by applications that need low latency database accesses. A user-facing application that stores the viewing history and state of users of a website can potentially store this content on RocksDB. A spam detection application that needs fast access to big data sets can use RocksDB. A graph-search query that needs to scan a data set in realtime can use RocksDB. RocksDB can be used to cache data from Hadoop, thereby allowing applications to query Hadoop data in realtime. A message-queue that supports a high number of inserts and deletes can use RocksDB.
  • Interestingly, RocksDB appears to have integration with MongoDB and is working on MySQL integration. Cassandra appears to be implementing similar optimizations.
  • Just discovered reported.ly, which is a social medial sourced, reporter curated news stream. Could be a good source of data to compare against things like news feeds from Google or major news venues.
  • Control System Meeting
    • Send RCS and Search Competition to Bob
    • Seems like this whole system is a lot like what Databricks is doing?

Phil 12.3.15

7:00 – 5:00 VTX

  • Learning: Genetic Algorithms
    • Rank space (probability is based on unsorted values??)
    • Simulated annealing – reducing step size.
    • Diversity rank (from the previous generation) plus fitness rank
  • Some more timing results. The view test (select count(*) from tn_view_network_items where network_id = 1) for the small network_1 is about the same as the pull for the large network_8, about .75 sec. The pull from the association table without the view is very fast – 0.01 for network_1 and 0.02 for network_8. So this should mean that a 1,000,000 item pull would take 1-2 seconds.
  • mysql> select count(*) from tn_associations where network_id = 1;
 11 
1 row in set (0.01 sec)

mysql> select count(*) from tn_associations where network_id = 8;
 10000 
1 row in set (0.01 sec)

mysql> select count(*) from tn_view_network_items where network_id = 8;
 10000 
1 row in set (0.88 sec)

mysql> select count(*) from tn_view_network_items where network_id = 1;
 11 
1 row in set (0.71 sec)
  • Field trip to Wall NJ
    • Learned more about the project, started to put faces to names
    • Continued to look at DB engines for the derived DB. Discovered WebScaleSQL, which is a collaboration between Alibaba, Facebook, Google, LinkedIn, and Twitter to produce a big(!!) version of MySql.
    • More discussions with Aaron D. about control systems, which means I’m going to be leaning on my NIST work again.

Phil 12.2.15

7:00 –

  • Learning: Neural Nets, Back Propagation
    • Synaptic weights are higher for some synapses than others
    • Cumulative stimulus
    • All-or-none threshold for propagation.
    • Once we have a model, we can ask what we can do with it.
    • Now I’m curious about the MIT approach to calculus. It’s online too: MIT 18.01 Single Variable Calculus
    • Back-propagation algorithm. Starts from the end and works forward so that each new calculation depends only on its local information plus values that have already been calculated.
    • Overfitting and under/over damping issues are also considerations.
  • Scrum meeting
  • Remember to bring a keyboard tomorrow!!!!
  • Checking that my home dev code is the same as what I pulled down from the repository
    • No change in definitelytyped
    • No change in the other files either, so those were real bugs. Don’t know why they didn’t get caught. But that means the repo is good and the bugs are fixed.
  • Validate that PHP runs and debugs in the new dev env. Done
  • Add a new test that inputs large (thousands -> millions) of unique ENTITY entries with small-ish star networks of partially shared URL entries. Time view retrieval times for SELECT COUNT(*) from tn_view_network_items WHERE network_id = 8;
    • Computer: 2008 Dell Precision M6300
    • System: Processor Intel(R) Core(TM)2 Duo CPU T7500 @ 2.20GHz, 2201 Mhz, 2 Core(s), 2 Logical Processor(s), Available Physical Memory 611 MB
    • 100 is 0.09 sec
    • 1000 is 0.14 sec
    • 10,000 is 0.84 sec
    • Using Open Office’s linear regression function, I get the equation t = 0.00007657x + 0.733 with an R squared of 0.99948.
    • That means 1,000,000 view entries can be processed in 75 seconds or so as long as things don’t get IO bound
  • Got the PHP interpreter and debugger working. In this case, it was just refreshing in settings->languages->php